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1. An observational, multicenter, registry-based cohort study of Turkish Neonatal Society in neonates with Hypoxic ischemic encephalopathy

Author

Emel Okulu, Ibrahim Murat Hirfanoglu, Mehmet Satar, Omer Erdeve, Esin Koc, Ferda Ozlu, Mahmut Gokce, Didem Armangil, Gaffari Tunc, Nihal Demirel, Sezin Unal, Ramazan Ozdemir, Mehmet Fatih Deveci, Melek Akar, Melike Kefeli Demirel, Merih Çetinkaya, Halime Sema Can Buker, Belma Saygılı Karagöl, Deniz Yaprak, Abdullah Barıs Akcan, Ayse Anik, Fatma Narter, Sema Arayici, Egemen Yildirim, Ilke Mungan Akin, Ozlem Sahin, Ozgul Emel Bulut Ozdemir, Fahri Ovali, Mustafa Ali Akin, Yalcin Celik, Aysen Orman, Sinan Uslu, Hilal Ozkan, Nilgun Koksal, Ayhan Tastekin, Mehmet Gunduz, Ayse Engin Arisoy, Resat Gurpinar, Rahmi Ors, Huseyin Altunhan, Ramazan Kececi, Hacer Yapicioglu Yildizdas, Demet Terek, Mehmet Ates, Sebnem Kader, Mehmet Mutlu, Kıymet Çelik, Ebru Yucesoy, Mustafa Kurthan Mert, Selvi Gulasi, Kazım Kucuktasci, Didem Arman, Berna Hekimoglu, Nazlı Dilay Gultekin, Hasan Tolga Celik, Dilek Kahvecioglu, Can Akyildiz, Erdal Taşkın, Nukhet Aladag Ciftdemir, Saime Sundus Uygun, Tugba Barsan Kaya, Arzu Akdag, and Aslan Yilmaz

Subjects
Medicine, Science
Published
2023

3. Imatinib Mesylate Treatment in Chronic Myeloid Leukemia

Author

Demet Çekdemir and Mehmet Gunduz

Subjects
kronik miyeloid lösemi, tedavi, imatinib mesilat, chronic myeloid leukemia, imatinib, treatment, Medicine
Abstract

Objective: To evaluate retrospectively the efficacy of treatment in chronic myeloid leukemia (CML) patients followed up in our center and receiving imatinib treatment.Materials and Methods: Eighty-five chronic phase CML patients with adequate clinical and laboratory data were included in the study. These patients had not given hematological or cytogenetic responses after interferon treatment, or had intolerance to IFN treatment or received imatinib treatment as a first-line treatment in late and early chronic stage patients.Results: Forty-eight (56.5%) patients were male and 37 (43.5%) of them were female. The median age at diagnosis was 52 years (19-79). The mean follow-up period was 45 (12-158) months. In the follow-up, 6 of the chronic phase patients progressed to blastic and accelerated phase. In the third month of imatinib treatment, 77 (90.6%) patients had complete hematologic response and 85 (100%) patients had full hematologic response at 18 months. In our study, cytogenetic data of 78 patients with adequate metaphase (≥ 20) could be evaluated within the first 18 months after the diagnosis was made. At the end of 18 months, 68 (87.2%) of 78 patients had complete cytogenetic response. Conclusion: Imatinib is well tolerated by CML patients and is a superior treatment alternative to other therapies other than bone marrow transplantation in achieving hematological and cytogenetic response.

Published
2020
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4. Non-Alkolik Steatoz Hastalarında Karaciğer Enzim Düzeylerinin ve İnsülin Direncinin Korelasyonu

Author

Demet Cekdemir, Mehmet Gunduz, Arzu Celebi, Hale Aslantas, Gokhan Pekındıl, Semin Ayhan, and Ender Ellidokuz

Subjects
non-alcoholic fatty liver disease, fatty liver, insulin resistance, non-alkolik basit hepatik steatoz, basit hepatik steatoz, insülin direnci, Medicine, Medicine (General), R5-920
Abstract

Amaç: Non-alkolik basit hepatik steatoz hastalarını karaciğer enzim düzeylerine göre karşılaştırmak ve glikoz metabolizması ve insülin direncinin karaciğer enzim düzeyleri ile farklılık gösterip göstermediğini saptamak. Materyal ve Metot: Çalışmaya 18-65 yaş arası non-alkolik basit hepatik steatozu olan hastalar dahil edildi. Hastalar normal karaciğer enzimleri (NKE) ve artmış karaciğer enzimleri (AKE) olan hastalar olarak iki gruba ayrıldı. Gruplar, glukoz metabolizması parametreleri ve insülin direnci açısından karşılaştırıldı. Bulgular: Çalışmamıza toplam 66 steatotik hasta (40 NKE ve 26 AKE) dahil edildi. NKE ve AKE gruplarında ortalama insülin değerleri sırasıyla 12,92 ± 5,61 ve 16,22 ± 5,43 μU / mL idi (p = 0,012). NKE'deki 23 (%60,50) hastada ve steatotik AKE grubunda 22 hastada (%88) insülin direnci saptandı (p = 0,018). NKE'de 31 (%77,50) hastada ve AKE grubunda 15 hastada (%57,70) metabolik sendrom saptandı (p = 0,058). Sonuç: Sonuç olarak, AKE'li steatotik grubun insülin direncinin daha yüksek olduğu sonucuna vardık. Bu hastalar özellikle insülin direncini azaltacak hem kilo kaybını artıracak hem de insülin direncine duyarlı olacak ilaç tedavileri konusunda titiz bir şekilde dikkate alınmalıdır. Karaciğer biyopsisi, kesin ayırıcı tanıda gerekli yerini hala korumaktadır.

Published
2019
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5. New Orders to an Old Soldier: Optimizing NK Cells for Adoptive Immunotherapy in Hematology

Author

Mehmet Gunduz, Pinar Ataca Atilla, and Erden Atilla

Subjects
NK cells, CAR NK cells, adoptive immunotherapy, Biology (General), QH301-705.5
Abstract

NK (Natural Killer) cell-mediated adoptive immunotherapy has gained attention in hematology due to the progressing knowledge of NK cell receptor structure, biology and function. Today, challenges related to NK cell expansion and persistence in vivo as well as low cytotoxicity have been mostly overcome by pioneering trials that focused on harnessing NK cell functions. Recent technological advancements in gene delivery, gene editing and chimeric antigen receptors (CARs) have made it possible to generate genetically modified NK cells that enhance the anti-tumor efficacy and represent suitable “off-the-shelf” products with fewer side effects. In this review, we highlight recent advances in NK cell biology along with current approaches for potentiating NK cell proliferation and activity, redirecting NK cells using CARs and optimizing the procedure to manufacture clinical-grade NK and CAR NK cells for adoptive immunotherapy.

Published
2021
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6. The effect of peripheral blood eosinophilia on inflammatory markers in asthmatic patients with lower respiratory tract infections

Author

Yakup Cag, Yakup Pacal, Mehmet Gunduz, Sakine Isik, Birgul Altinsoy Kertmen, Necmettin Toprak, Sadik Erhan Ozaydin, Mustafa Ozcetin, and Arif Kut

Subjects
Medicine (General), R5-920
Abstract

Background To investigate the behaviour of the inflammatory marker neutrophil-to-lymphocyte ratio (NLR) in the presence of peripheral blood eosinophilia (PBE) in paediatric asthma patients with lower respiratory tract (LRT) infections. Methods This retrospective study enrolled consecutive patients aged ≥5 years who were diagnosed with asthma and whose haemogram values were available. The patients were further subdivided based on the presence or absence of LRT infections and allergies. NLR and C-reactive protein (CRP) were evaluated in relation to the presence or absence of PBE (≥4% eosinophils). Results A total of 991 patients were enrolled in the study. Patients with LRT infections had significantly higher leucocyte and neutrophil counts, a greater NLR and a higher level of CRP compared with patients without LRT infections. Overall, patients with PBE had significantly lower NLRs and CRP regardless of the presence or absence of an LRT infection. The PBE percentage showed moderate inverse correlations with NLR ( r = −0.34) and CRP ( r = −0.20). Conclusion The presence of PBE was significantly associated with lower NLR and CRP regardless of the presence or absence of an infectious condition.

Published
2019
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7. Comparison of alpha/beta T cell depletion with posttransplant cyclophosphamide in haploidentical transplantation

Author

Mehmet Ozen, Mehmet Gunduz, Ilknur Aksoyoglu, Ahmet Ifran, and Ali Ugur Ural

Abstract

Aim: To compare alpha/beta T-cell depletion with posttransplant Cyclophosphamide (PTCy) in haploidentical allogeneic transplantation in adult hematological patients, this is the first study. Method: In our study, we reported 36 haploidentical allogeneic stem cell transplants which were performed in our clinic. Results: Twenty-six of these haploidentical transplants received standard treatment and transplanted either with PTCy (n=21, 81%) or with alpha/beta T-cell depletion (n=5, 19%). Less CD34+ stem cells were administered in the T-cell depletion group. When the two groups were compared in terms of survival, no difference was found in relapse-free and overall survival in each group. Acute GVHD cases developed in the PTCy group mostly developed after CMV infection, whereas acute GVHD did not develop in the T-cell depletion group. In the PTCy group, 8 cases developed graft failure and relapse; 4 cases developed graft failure or relapse in the T-cell depletion group, and 2 of them developed graft failure or relapse following EBV infection and 1 of them following CMV infection. Conclusion: We have a small number of patients in the T cell depletion group. Due to our long follow-up period, we believe that our patients with T cell depletion can be compared with those who underwent PTCy, and similar survival results can be achieved in adult patients having hematologic malignancies.

Published
2023
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9. PCR-SSCP Analysis and DNA Sequencing as an Important Method for Detecting Mutation of INGI gene in Head and Neck Squamous Cell Carcinomas

Author

Elza Ibrahim Auerkari, Mehmet Gunduz, and Mamoru Ouchida

Subjects
Dentistry, RK1-715
Abstract

Tumor specific mutation of the candidate tumor suppressor gene INGI ws demonstrated using PCR-SSCP and DNA sequencing analysis. The mutant sample showed an amino acid change from aspangine (AAC) to serine (AGC) at codon 214 in the INGI gene from the DNA of head and neck cancer cells. The result proved that PCS (polymerase chain reaction) - SSCP (single-stranded conformation polymorphism) analysis can effectively detect both wild and mutant types of the gene from tissue samples. Moreover, the nucelotide change can be determined by sequencing the mutant product. The purpose of this report is to illustrate the importance of SSCP and DNA sequencing in identifying nuclotide substitution in human head and neck carcinomas.

Published
2015
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10. A comparative study of Bulgarian and Turkish Asphodeline lutea root extracts: HPLC–UV profiles, enzyme inhibitory potentials and anti-proliferative activities against MCF-7 and MCF-10A cell lines

Author

Irina Lazarova, Gokhan Zengin, Onur Bender, Dimitrina Zheleva-Dimitrova, Sengul Uysal, Ramazan Ceylan, Reneta Gevrenova, Abdurrahman Aktumsek, Muradiye Acar, and Mehmet Gunduz

Subjects
Asphodeline lutea, Anthraquinones, Anti-cholinesterase, Anti-tyrosinase, Anti-diabetic, Anti-proliferative, Nutrition. Foods and food supply, TX341-641
Abstract

Asphodeline lutea (L.) Rchb. is a wild plant traditionally used as a food in the Mediterranean region. The alcoholic extracts of A. lutea roots from different origins (Bulgarian and Turkish) were investigated for anti-cholinesterase, anti-tyrosinase, anti-amylase, anti-glycosidase and anti-proliferative activity (against MCF-7 and MCF-10A cell lines). A validated HPLC method for the determination of two anthraquinones, two bianthraquinones, two naphthalenes, two flavonoids and one hydroxycinnamic acid was developed due to the presence of these components in the genus Asphodeline. In addition, total anthraquinones content was determined spectrophotometrically. A. lutea from Bulgaria demonstrated higher level of total anthraquinones (0.81 ± 0.05 mg g−1). A naphthalene derivative (2-acetyl-1,8-dimethoxy-3-methylnaphthalene) was the major compound in Bulgarian accession (0.96 ± 0.03 mg g−1), while caffeic acid was the main analyte in Turkish sample (0.42 ± 0.06 mg g−1). Turkish extracts were more potent as cholinesterase and tyrosinase inhibitors but less active as anti-diabetic agent. The higher anti-proliferative effect was presented by Bulgarian extract with IC50 values 120 ± 16.8 mg mL−1 (for MCF-7) and 256 ± 16.1 mg mL−1 (for MCF-10A).

Published
2015
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12. A case report of synchronous bilateral tonsillar carcinoma associated with human papilloma virus

Author

Shunji Tamagawa, Esra Gunduz, Keisuke Enomoto, Mehmet Gunduz, Kenji Warigaya, and Muneki Hotomi

Subjects
Human papilloma virus, medicine.medical_specialty, Tonsillar Carcinoma, business.industry, Every Three Months, Pharynx, General Medicine, respiratory system, Surgery, medicine.anatomical_structure, stomatognathic system, Otorhinolaryngology, Cervical lymphadenopathy, Tonsillar Squamous Cell Carcinoma, Tonsil, otorhinolaryngologic diseases, medicine, medicine.symptom, business
Abstract

The case of a 69-year-old man with bilateral synchronous tonsillar carcinoma is reported. The patient complained of nasal closure, strange voice, and discomfort in his pharynx when he was admitted to the Department of Otolaryngology Head and Neck Surgery at Wakayama Medical University, Wakayama, Japan, in March 2017. The palatine tonsils were enlarged and the surface was irregular. Left cervical lymphadenopathy was also evident. Histological examination from both tonsils was performed and bilateral tonsillar squamous cell carcinoma was diagnosed. PCR analysis showed the same HPV-DNA pattern from bilateral tonsils. Concurrent chemoradiotherapy was performed. Total 70 Gy of irradiation (2Gy/day×35 day) was applied to bilateral tonsillar tumours and upper neck. Follow up was conducted every three months and the patient was free of recurrence for three years. Patient’s informed consent was taken to publish the case report. Keywords: bilateral synchronous tonsillar carcinoma, HPV, tonsil Continuous...

Published
2020
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13. Management of hypersensitivity reactions to enzyme replacement therapy in children with lysosomal storage diseases

Author

Aynur Küçükçongar Yavaş, Ersoy Civelek, Müge Toyran, Irem Turgay Yagmur, Ilknur Kulhas Celik, Mehmet Gunduz, Emine Dibek Misirlioglu, and Ozlem Unal Uzun

Subjects
Male, Pulmonary and Respiratory Medicine, congenital, hereditary, and neonatal diseases and abnormalities, medicine.medical_specialty, medicine.medical_treatment, Immunology, Culprit, Recombinant enzyme, Drug Hypersensitivity, 03 medical and health sciences, 0302 clinical medicine, Internal medicine, medicine, Humans, Immunology and Allergy, Enzyme Replacement Therapy, 030212 general & internal medicine, Child, Retrospective Studies, Desensitization (medicine), business.industry, Medical record, nutritional and metabolic diseases, Retrospective cohort study, Enzyme replacement therapy, medicine.disease, Lysosomal Storage Diseases, 030228 respiratory system, Desensitization, Immunologic, Female, Premedication, business, Anaphylaxis
Abstract

Background Intravenous recombinant enzyme replacement therapy (ERT) is currently available for eight lysosomal diseases. Hypersensitivity reactions (HSR) may be observed during this long-term treatment. Objective The aim of our study was to evaluate the frequency, clinical-treatment features of ERT HSRs, management of desensitizations in children. Methods Medical records were reviewed retrospectively for patients who received ERT. Those who had developed HSRs to ERT were included in the study. Demographic characteristics of the patients, culprit enzyme, signs-symptoms, diagnostic tests, management of the reaction, the protocol employed for the maintenance of ERT were recorded. Results During the study period 54 patients received ERT in our institute. Eleven patients (20.4%) developed HSR to ERT. All reactions were immediate type. The most common symptoms were cutaneous manifestations. Nine patients developed urticaria, two patients had anaphylaxis as initial reaction. Patients who had isolated cutaneous symptoms continued their treatments with antihistamines, corticosteroids premedication and/or slower infusion rate. Patients who had recurrent urticaria with this modalities and/or those who had anaphylaxis continued their ERT with desensitization (n=8). Three patients required revisions in desensitization protocols because of recurren anaphylaxis. Conclusion The reactions that develop during this long-term treatment may be treated by premedication-prolonged infusion but in some patients, desensitization protocols is necessary for the continuation of therapy. Revisions in desensitization protocols may be required.

Published
2020
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14. Messenger ribonucleic acid vaccine‑associated immune thrombocytopenia: A rare complication of vaccine

Author

MehmetSami Islamoglu, Mehmet Dokur, BetulBorku Uysal, Mehmet Gunduz, and Tıp Fakültesi

Subjects
COVID 19 Vaccines, Immune Thrombocytopenia, hemic and lymphatic diseases, SARS-Cov-2 Infection, Coronavirus Disease 2019 Vaccine, COVID 19, Purpura, Severe Acute Respiratory Coronavirus 2
Abstract

Coronavirus disease 2019 continues to have a serious impact in countries with the effect of new variant viruses emerging with mutations. While the effectiveness and protection of the vaccine have been determined all over the world, some vaccine related side effects can be detected in the form of cases. In our case, the patient was admitted to the emergency department of our hospital with complaints of weakness and progressive rash on his legs. Diffuse petechiae purpura on the legs of the patient was observed and complete blood count revealed thrombocytopenia. Peripheral blood smear supported the blood count test results with thrombocytopenia, secondary causes of thrombocytopenia were excluded, and the patient was diagnosed with vaccine induced immune thrombocytopenia.

Published
2022

15. Survival in rhino-orbito-cerebral mucormycosis: An international, multicenter ID-IRI study

Author

Yasemin Cag, Hakan Erdem, Mehmet Gunduz, Suheyla Komur, Handan Ankarali, Serap Ural, Meltem Tasbakan, Pierre Tattevin, Anil Tombak, Derya Ozturk-Engin, Ayse Sagmak Tartar, Ayse Batirel, Recep Tekin, Fazilet Duygu, Hulya Caskurlu, Behice Kurtaran, Bulent Durdu, Demet Haciseyitoglu, Jordi Rello, Fatma Sirmatel, Antonio Cascio, Botond Lakatos, Serkan Oncu, Ayse Willke, Edmond Puca, Meliha Meric Koc, Pinar Korkmaz, Oguz Karabay, Rahmet Guner, Selmin Dirgen Caylak, Sema Keceli, Salih Cesur, Sirin Menekse, Pinar Ergen, Mehmet Sezai Tasbakan, Ayşegül Erdem, Yakup Cag, Emine Akcay, Teresa Fasciana, Anna Giammanco, Rabia Burçin Girgin, Canan Agalar, Haluk Vahaboglu, Istanbul Medeniyet University (IMU), Ankara University School of Medicine [Turkey], Cukurova University, Izmir Katip Celebi University (IKCU), Ege university, CHU Pontchaillou [Rennes], ARN régulateurs bactériens et médecine (BRM), Université de Rennes (UR)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Mersin University, Firat University, Dicle University, Vall d’Hebron Research Institute (VHIR), Centre Hospitalier Universitaire de Nîmes (CHU Nîmes), None, Cag Y., Erdem H., Gunduz M., Komur S., Ankarali H., Ural S., Tasbakan M., Tattevin P., Tombak A., Ozturk-Engin D., Tartar A.S., Batirel A., Tekin R., Duygu F., Caskurlu H., Kurtaran B., Durdu B., Haciseyitoglu D., Rello J., Sirmatel F., Cascio A., Lakatos B., Oncu S., Willke A., Puca E., Koc M.M., Korkmaz P., Karabay O., Guner R., Caylak S.D., Keceli S., Cesur S., Menekse S., Ergen P., Tasbakan M.S., Erdem A., Akcay E., Fasciana T., Giammanco A., Girgin R.B., Agalar C., and Vahaboglu H.

Subjects
Adult, Antifungal Agents, Surveillance, Neutropenia, Epidemiology, Mucormycosi, Infections, Hospital-acquired infection, Rhino-orbito-cerebral mucormycosis, Zygomycosis, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, Debridement, Risk Factors, Diagnosis, Orbital Diseases, Internal Medicine, Humans, Mucormycosis, Rhino-orbito-cerebral mucormycosi, Eye Infections, Fungal, Retrospective Studies
Abstract

International audience; BACKGROUND: Mucormycosis is an emerging aggressive mold infection. This study aimed to assess the outcome of hospitalized adults with rhino-orbito-cerebral mucormycosis (ROCM). The secondary objective was to identify prognostic factors in this setting. METHODS: This study was an international, retrospective, multicenter study. Patients’ data were collected from 29 referral centers in 6 countries. All qualified as "proven cases" according to the EORTC/MSGERC criteria. RESULTS: We included 74 consecutive adult patients hospitalized with ROCM. Rhino-orbito-cerebral type infection was the most common presentation (n = 43; 58.1%) followed by rhino-orbital type (n = 31; 41.9%). Twenty (27%) had acquired nosocomial bacterial infections. A total of 59 (79.7%) patients (16 in combination) received appropriate antifungal treatment with high-doses of liposomal amphotericin B. Fifty-six patients (75.7%) underwent curative surgery. Thirty-five (47.3%) required intensive care unit admission (27; 36.5% under mechanical ventilation). Hospital survival was 56.8%, being reduced to 7.4% in patients with invasive mechanical ventilation. A multivariate binary backward logistic regression model identified confusion at admission (OR 11.48), overlapping hospital-acquired infection (OR 10.27), use of antifungal treatment before diagnosis (OR 10.20), no surgical debridement (OR 5.92), and the absence of prior sinusitis (OR 6.32) were independently associated with increased risk for death. CONCLUSION: Today, ROCM still has high mortality rate. Improving source control, rational therpy, and preventing nosocomial infections may improve survival in this severe infection.

Published
2022
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16. Searching for VHE gamma-ray emission associated with IceCube neutrino alerts using FACT, H.E.S.S., MAGIC, and VERITAS

Author

Konstancja, Satalecka, Acciari, Victor A., Stefano, Ansoldi, Lucio Angelo Antonelli, Axel Arbet Engels, Manuel, Artero, Katsuaki, Asano, Dominik, Baack, Ana, Babic, Andr('(e))s, Baquero, Ulisses Barres de Almeida, Juan Abel Barrio, Ivana, Batkovi('(c)), Josefa Becerra Gonzalez, Wlodek, Bednarek, Lorenzo, Bellizzi, Elisa, Bernardini, Maria-Isabel, Bernardos, Alessio, Berti, Jürgen, Besenrieder, Wrijupan, Bhattacharyya, Ciro, Bigongiari, Adrian, Biland, Oscar, Blanch, Hendrik, Bökenkamp, Giacomo, Bonnoli, Zeljka, Bosnjak, Giovanni, Busetto, Roberto, Carosi, Giovanni, Ceribella, Matteo, Cerruti, Yating, Chai, Ashot, Chilingarian, Stefan, Cikota, Sidika Merve Colak, Eduardo, Colombo, Jose Luis Contreras, Juan, Cortina, Stefano, Covino, Giacomo D( extquotesingle)Amico, Valerio D( extquotesingle)Elia, Paolo Da Vela, Francesco, Dazzi, Alessandro De Angelis, Barbara De Lotto, Manuel, Delfino, Jordi, Delgado, Carlos Delgado Mendez, Davide, Depaoli, Federico Di Pierro, Leonardo Di Venere, Elia Do Souto Espi(~(n))eira, Dijana Dominis Prester, Alice, Donini, Daniela, Dorner, Michele, Doro, Dominik, Elsaesser, Vandad Fallah Ramazani, Alicia, Fattorini, Maria Victoria Fonseca, Lluis, Font, Christian, Fruck, Satoshi, Fukami, Yasushi, Fukazawa, Garc('(i))a L('(o))pez, Ramon J., Markus, Garczarczyk, Sargis, Gasparyan, Markus, Gaug, Giglietto, Nicola, Francesco, Giordano, Pawel, Gliwny, Nikola, Godinovic, David, Green, Jarred Gershon Green, Daniela, Hadasch, Alexander, Hahn, Lea, Heckmann, Javier, Herrera, John, Hoang, Dario, Hrupec, Moritz, Hütten, Tomohiro, Inada, Kazuma, Ishio, Yuki, Iwamura, Irene Jim('(e))nez Mart('(i))nez, Jenni, Jormanainen, L('(e))a, Jouvin, Marie, Karjalainen, Daniel, Kerszberg, Yukiho, Kobayashi, Hidetoshi, Kubo, Junko, Kushida, Alessandra, Lamastra, Damir, Lelas, Francesco, Leone, Elina, Lindfors, Lena, Linhoff, Saverio, Lombardi, Francesco, Longo, Ruben, Lopez-Coto, Marcos, L('(o))pez-Moya, Alicia, L('(o))pez-Oramas, Loporchio, Serena, Bernardo Machado de Oliveira Fraga, Camilla, Maggio, Pratik, Majumdar, Martin, Makariev, Manuela, Mallamaci, Galina, Maneva, Marina, Manganaro, Karl, Mannheim, Laura, Maraschi, Mos(`(e)), Mariotti, Manel, Martinez, Daniel, Mazin, Stefano, Menchiari, Simone, Mender, Sa( (s))a Mi('(c))anovi('(c)), Davide, Miceli, Tjark, Miener, Jose Miguel Miranda, Razmik, Mirzoyan, Edgar, Molina, Abelardo, Moralejo, Daniel, Morcuende, Victoria, Moreno, Elena, Moretti, Takeshi, Nakamori, Lara, Nava, Vitaly, Neustroev, Cosimo, Nigro, Kari, Nilsson, Kyoshi, Nishijima, Koji, Noda, Seiya, Nozaki, Yoshiki, Ohtani, Tomohiko, Oka, Jorge, Otero-Santos, Simona, Paiano, Michele, Palatiello, David, Paneque, Riccardo, Paoletti, Paredes, Josep M., Lovro, Pavleti('(c)), Pablo, Pe(~(n))il, Massimo, Persic, Marine, Pihet, Pier Giorgio Prada Moroni, Elisa, Prandini, Chaitanya, Priyadarshi, Ivica, Puljak, Wolfgang, Rhode, Marc, Rib('(o)), Javier, Rico, Chiara, Righi, Andrea, Rugliancich, Narek, Sahakyan, Takayuki, Saito, Shunsuke, Sakurai, Francesco Gabriele Saturni, Bernd, Schleicher, Kevin, Schmidt, Thomas, Schweizer, Julian, Sitarek, Iva, ( (S))nidari('(c)), Dorota, Sobczy('(n))ska, Alessia, Spolon, Antonio, Stamerra, Jelena Stri( (s))kovi('(c)), Derek, Strom, Marcel, Strzys, Yusuke, Suda, Tihomir, Suri('(c)), Mitsunari, Takahashi, Ryuji, Takeishi, Fabrizio, Tavecchio, Petar, Temnikov, Tomislav, Terzic, Masahiro, Teshima, Luca, Tosti, Stefano, Truzzi, Antonio, Tutone, Santiago, Ubach, Juliane van Scherpenberg, Gaia, Vanzo, Monica VAZQUEZ ACOSTA, Sofia, Ventura, Vassil, Verguilov, Carlo Francesco Vigorito, Vincenzo, Vitale, Ievgen, Vovk, Martin, Will, Carolin, Wunderlich, Tokonatsu, Yamamoto, Darko, Zari('(c)), Matteo, Balbo, Thomas, Bretz, Jens, Buss, Laura, Eisenberger, Dorothee, Hildebrand, Roman, Iotov, Adelina, Kalenski, Dominik, Neise, Maximilian, Noethe, Aleksander, Paravac, Vitalii, Sliusar, Roland, Walter, Rasha, Abbasi, Markus, Ackermann, Jenni, Adams, Juanan, Aguilar, Ahlers, M., Maryon, Ahrens, Cyril Martin Alispach, Antonio Augusto Alves Junior, Najia Moureen Binte Amin, Rui, An, Karen, Andeen, Tyler, Anderson, Gisela, Anton, Carlos, Arguelles, Yosuke, Ashida, Spencer, Axani, Xinhua, Bai, Aswathi Balagopal, V., Anastasia Maria Barbano, Barwick, S. W., Benjamin, Bastian, Vedant, Basu, Sebastian, Baur, Bay, R. C., Beatty, J. J., Becker, K. -H., Julia Becker Tjus, Chiara, Bellenghi, Segev, Benzvi, Berley, D., Besson, D. Z., Gary, Binder, Daniel, Bindig, Blaufuss, E., Summer, Blot, Matthias, Boddenberg, Federico, Bontempo, Jurgen, Borowka, Boser, S., Olga, Botner, Jakob, Bottcher, Etienne, Bourbeau, Federica, Bradascio, Braun, J., Stephanie, Bron, Jannes, Brostean-Kaiser, Sally-Ann, Browne, Alexander, Burgman, Ryan, Burley, Raffaela, Busse, Michael, Campana, Erin, Carnie-Bronca, Chujie, Chen, Dmitry, Chirkin, Koun, Choi, Bryanlee, Clark, Kenneth, Clark, Lew, Classen, Alan, Coleman, Gabriel, Collin, Conrad, J. M., Paul, Coppin, Pablo, Correa, Cowen, D. F., Cross, R., Christian, Dappen, Pranav, Dave, Catherine DE CLERCQ, James, Delaunay, Hans, Dembinski, Kunal, Deoskar, Sam De Ridder, Abhishek, Desai, Paolo, Desiati, Krijn de Vries, Gwenhaël de Wasseige, Meike De With, Tyce, Deyoung, Sukeerthi, Dharani, Alejandro, Diaz, Juan Carlos Diaz-Velez, Markus, Dittmer, Hrvoje, Dujmovic, Matt, Dunkman, Michael, Duvernois, Emily, Dvorak, Thomas, Ehrhardt, Philipp, Eller, Ralph, Engel, Hannah, Erpenbeck, John, Evans, Evenson, P. A., Kwok Lung Fan, Fazely, A. R., Sebastian, Fiedlschuster, Aaron, Fienberg, Kirill, Filimonov, Chad, Finley, Leander, Fischer, Derek, B Fox, Anna, Franckowiak, Elizabeth, Friedman, Alexander, Fritz, Philipp, Furst, Gaisser, T. K., Jay, Gallagher, Erik, Ganster, Alfonso, Garcia, Simone, Garrappa, Gerhardt, L., Ava, Ghadimi, Christian, Glaser, Theo, Glauch, Thorsten, Glusenkamp, Goldschmidt, A., Javier, Gonzalez, Sreetama, Goswami, Darren, Grant, Timoth('(e))e, Gr('(e))goire, Spencer, Griswold, Mehmet, Gunduz, Christoph, Günther, Christian, Haack, Allan, Hallgren, Halliday, R., Halve, L., Halzen, F., Martin Ha Minh, Kael, Hanson, John, Hardin, Harnisch, Alexander A., Andreas, Haungs, Simon, Hauser, Dustin, Hebecker, Helbing, K., Felix, Henningsen, Hettinger, Emma C., Stephanie, Hickford, Joshua, Hignight, Colton, Hill, Hill, G. C., Kara, Hoffman, Ruth, Hoffmann, Tobias, Hoinka, Benjamin, Hokanson-Fasig, Hoshina, K., Feifei, Huang, Matthias, Huber, Thomas, Huber, Klas, Hultqvist, Mirco, Hunnefeld, Raamis, Hussain, Seongjin, In, Nad(`(e))ge, Iovine, Aya, Ishihara, Matti, Jansson, George, Japaridze, Minjin, Jeong, Ben, Jones, Donghwa, Kang, Woosik, Kang, Xinyue, Kang, Alexander, Kappes, David, Kappesser, Timo, Karg, Martina, Karl, Karle, A., Katz, U., Kauer, M., Moritz, Kellermann, Kelley, J. L., Ali, Kheirandish, Ken( extquotesingle)ichi Kin, Thomas, Kintscher, Joanna, Kiryluk, Spencer, Klein, Ramesh, Koirala, Hermann, Kolanoski, Tomas, Kontrimas, Lutz, Kopke, Claudio, Kopper, Sandro, Kopper, Koskinen, D. J., Paras, Koundal, Michael, Kovacevich, Marek, Kowalski, Tetiana, Kozynets, Emma, Kun, Naoko, Kurahashi, Neha, Lad, Cristina Lagunas Gualda, Justin, Lanfranchi, Michael, J Larson, Frederik Hermann Lauber, Jeffrey, Lazar, Jiwoong, Lee, Kayla, Leonard, Agnieszka, Leszczy('(n))ska, Yijia, Li, Massimiliano, Lincetto, Qinrui, Liu, Maria, Liubarska, Elisa, Lohfink, Cristian Jesus Lozano Mariscal, Lu, Lu, Francesco, Lucarelli, Andrew, Ludwig, William, Luszczak, Yang, Lyu, Wing Yan Ma, James, Madsen, Kendall, Mahn, Yuya, Makino, Sarah, Mancina, Ioana Codrina Maris, Maruyama, Reina H., Mase, K., Thomas, Mcelroy, Frank, Mcnally, James Vincent Mead, Meagher, K., Andres, Medina, Maximilian, Meier, Stephan, Meighen-Berger, Jessie, Micallef, Daniela, Mockler, Teresa, Montaruli, Roger, Moore, Morse, R., Marjon, Moulai, Richard, Naab, Ryo, Nagai, Uwe, Naumann, Jannis, Necker, Le Viet Nguyen, Hans, Niederhausen, Mehr, Nisa, Sarah, Nowicki, Dave, Nygren, Anna Obertacke Pollmann, Marie, Oehler, Olivas, A., Erin O( extquotesingle)Sullivan, Hershal, Pandya, Daria, Pankova, Nahee, Park, Grant, Parker, Ek Narayan Paudel, Larissa, Paul, Carlos Perez de los Heros, Lilly, Peters, Saskia, Philippen, Damian, Pieloth, Sarah, Pieper, Martin, Pittermann, Pizzuto, A., Plum, M., Yuiry, Popovych, Alessio, Porcelli, Maria Prado Rodriguez, Buford Price, P., Brandom, Pries, Gerald, Przybylski, Christoph, Raab, Amirreza, Raissi, Mohamed, Rameez, Rawlins, K., Immacolata Carmen Rea, Abdul, Rehman, Ren('(e)), Reimann, Giovanni, Renzi, Elisa, Resconi, Simeon, Reusch, Mike, Richman, Benedikt, Riedel, Ella, Roberts, Sally, Robertson, Gerrit, Roellinghoff, Martin, Rongen, Carsten, Rott, Tim, Ruhe, Dirk, Ryckbosch, Devyn Rysewyk Cantu, Ibrahim, Safa, Julian, Saffer, Sebastian Sanchez Herrera, Alexander, Sandrock, Joakim, Sandroos, Marcos, Santander, Subir, Sarkar, Sourav, Sarkar, Maximilian Karl Scharf, Merlin, Schaufel, Harald, Schieler, Sebastian, Schindler, Schlunder, P., Torsten, Schmidt, Austin, Schneider, Judith, Schneider, Schröder, Frank G., Lisa Johanna Schumacher, Georg, Schwefer, Steve, Sclafani, Seckel, D., Surujhdeo, Seunarine, Ankur, Sharma, Shefali, Shefali, Manuel, Silva, Barbara, Skrzypek, Ben, Smithers, Robert, Snihur, Jan, Soedingrekso, Dennis, Soldin, Christian, Spannfellner, Glenn, Spiczak, Christian, Spiering, Juliana, Stachurska, Michael, Stamatikos, Stanev, T., Robert, Stein, Joeran, Stettner, Steuer, A., Stezelberger, T., Timo, Sturwald, Thomas, Stuttard, Sullivan, G. W., Taboada, I., Frederik, Tenholt, Samvel, Ter-Antonyan, Tilav, S., Franziska, Tischbein, Kirsten, Tollefson, Christoph, Tönnis, Simona, Toscano, Delia, Tosi, Alexander, Trettin, Maria, Tselengidou, Chunfai, Tung, Andrea, Turcati, Roxanne, Turcotte, Colin, Turley, Jean Pierre Twagirayezu, Bunheng, Ty, Martin Unland Elorrieta, Nora, Valtonen-Mattila, Justin, Vandenbroucke, Nick van Eijndhoven, David, Vannerom, Jakob van Santen, Stef, Verpoest, Matthias, Vraeghe, Walck, C., Timothyblake, Watson, Chris, Weaver, Philip, Weigel, Andreas, Weindl, Matthew, Weiss, Jan, Weldert, Chris, Wendt, Johannes, Werthebach, Mark, Weyrauch, Nathan, Whitehorn, Wiebusch, C. H., Dawn, Williams, Martin, Wolf, Kurt, Woschnagg, Gerrit, Wrede, Johan, Wulff, Xianwu, Xu, Yiqian, Xu, Juan Pablo Yanez, Yoshida, S., Shiqi, Yu, Tianlu, Yuan, Zelong, Zhang, Weidong, Jin, Hassan, Abdalla, Felix, Aharonian, Faical, Ait-Benkhali, Oguzhan, Anguener, Cornelia, Arcaro, Celine, Armand, Tom, Armstrong, Halim, Ashkar, Michael, Backes, Vardan, Baghmanyan, Victor Barbosa Martins, Anna, Barnacka, Monica, Barnard, Rowan, Batzofin, Yvonne, Becherini, David, Berge, Konrad, Bernlöhr, Baiyang, Bi, Markus, Boettcher, Catherine, Boisson, Julien, Bolmont, Mathieu de Bony, Mischa, Breuhaus, Robert, Brose, Francois, Brun, Tomasz, Bulik, Thomas, Bylund, Floriane, Cangemi, Sami, Caroff, Sabrina, Casanova, Jaqueline, Catalano, Pauline, Chambery, Tej Bahadur Chand, Andrew, Chen, Garret, Cotter, Malgorzata, Curlo, Jean Damascene Mbarubucyeye, Isak Delberth Davids, James, Davies, Justine, Devin, Arache, Djannati-Ataï, Anton, Dmytriiev, Axel, Donath, Victor, Doroshenko, Lente, Dreyer, Louis Du Plessis, Connor, Duffy, Kathrin, Egberts, Sabrina, Einecke, Gabriel, Emery, Jean-Pierre, Ernenwein, Steven, Fegan, Kirsty, Feijen, Armand, Fiasson, Gaëtan Fichet de Clairfontaine, Gerard, Fontaine, Lott, Frans, Matthias, Fuessling, Stefan, Funk, Stefano, Gabici, Yves, Gallant, Shahede, Ghafourizade, Gianluca, Giavitto, Luca, Giunti, Dorit, Glawion, Jean-Francois, Glicenstein, Marie-H('(e))l(`(e))ne, Grondin, Sumari, Hattingh, Maria, Haupt, German, Hermann, Jim, Hinton, Werner, Hofmann, Clemens, Hoischen, Tim, Holch, Markus, Holler, Dieter, Horns, Zhiqiu, Huang, David, Huber, Mario, Hörbe, Marek, Jamrozy, Felix, Jankowsky, Vikas, Joshi, Ira, Jung, Eli, Kasai, Krzysztof, Katarzynski, Ul(`(i)), Katz, Dmitry, Khangulyan, Bruno, Khelifi, Stefan, Klepser, Wlodek, Kluzniak, Nukri, Komin, Ruslan, Konno, Karl, Kosack, Dmitriy, Kostunin, Michael, Kreter, Ga( (s))per Kukec Mezek, Anu, Kundu, Giovanni, Lamanna, S('(e))bastien Le Stum, Anne, Lemiere, Marianne, Lemoine-Goumard, Jean-Philippe, Lenain, Fabian, Leuschner, Christelle, Levy, Thomas, Lohse, Anna, Luashvili, Iryna, Lypova, Jonathan, Mackey, Jhilik, Majumdar, Denys, Malyshev, Dmitry, Malyshev, Vincent, Marandon, Paolo, Marchegiani, Alexandre, Marcowith, Arnaud, Mares, Guillem Marti( extquotesingle)i-Devesa, Ramin, Marx, Gilles, Maurin, Pieter, Meintjes, Manuel, Meyer, Alison, Mitchell, Rafal, Moderski, Lars, Mohrmann, Alessandro, Montanari, Chris, Moore, Paul, Morris, Emmanuel, Moulin, Jacques, Muller, Thomas, Murach, Kaori, Nakashima, Mathieu Naurois (de), Amid, Nayerhoda, Hambeleleni, Ndiyavala, Jacek, Niemiec, Angel, Noel, Paul O( extquotesingle)Brien, Laenita Lorraine Oberholzer, Stefan, Ohm, Laura, Olivera-Nieto, Emma Ona-Wilhelmi (de), Michal, Ostrowski, Sebastian, Panny, Michael, Panter, Dan, Parsons, Giada, Peron, Santiago, Pita, Vincent, Poireau, Dmitry, Prokhorov, Heike, Prokoph, Gerd, Puehlhofer, Michael, Punch, Andreas, Quirrenbach, Patrick, Reichherzer, Anita, Reimer, Olaf, Reimer, Quentin, Remy, Matthieu, Renaud, Brian, Reville, Frank, Rieger, Carlo, Romoli, Gavin, Rowell, Bronislaw, Rudak, Hector Rueda Ricarte, Edna Ruiz Velasco, Vardan, Sahakian, Simon, Sailer, Heiko, Salzmann, David, Sanchez, Andrea, Santangelo, Manami, Sasaki, Johannes, Schaefer, Hester, Schutte, Ullrich, Schwanke, Fabian, Schüssler, Mohanraj, Senniappan, Albert, Seyffert, Shapopi, Jimmy N. S., Kleopas, Shiningayamwe, Rachel, Simoni, Atreyee, Sinha, Helene, Sol, Hugh, Spackman, Andreas, Specovius, Samuel Timothy Spencer, Marion, Spir-Jacob, Lukasz, Stawarz, Riaan, Steenkamp, Christian, Stegmann, Simon, Steinmassl, Constantin, Steppa, Lei, Sun, Tadayuki, Takahashi, Takaaki, Tanaka, Thomas, Tavernier, Andrew, Taylor, Regis, Terrier, Hannes, Thiersen, Charles, Thorpe-Morgan, Martin, Tluczykont, Lenka, Tomankova, Michelle, Tsirou, Naomi, Tsuji, Richard, Tuffs, Yasunobu, Uchiyama, Johann van der Walt, Christopher van Eldik, Carlo van Rensburg, Brian van Soelen, George, Vasileiadis, Johannes, Veh, Christo, Venter, Pascal, Vincent, Jacco, Vink, Völk, Heinrich J., Stefan, Wagner, Jason John Watson, Felix, Werner, Richard, White, Alicja, Wierzcholska, Yu Wun Wong, Hend, Yassin, Anke, Yusafzai, Michael, Zacharias, Roberta, Zanin, Davit, Zargaryan, Andrzej, Zdziarski, Andreas, Zech, Sylvia, Zhu, Andreas, Zmija, Samuel, Zouari, Natalia, Zywucka, The FACT Collaboration, The H.E.S.S. Collaboration, The IceCube Collaboration, The MAGIC Collaboration, The VERITAS Collaboration, and Współautorami artykułu są członkowie Magic Collaboration, IceCube Collaboration, FACT Collaboration, H.E.S.S. Collaboration, VERITAS Collaboration w liczbie 808

Subjects
Physics, High Energy Astrophysical Phenomena (astro-ph.HE), Point source, Astrophysics::High Energy Astrophysical Phenomena, Gamma ray, Astrophysics::Instrumentation and Methods for Astrophysics, FOS: Physical sciences, IACT, Astrophysics, law.invention, High Energy Physics - Experiment, Telescope, High Energy Physics - Experiment (hep-ex), law, HESS - Abteilung Hinton, ddc:530, High Energy Physics::Experiment, MAGIC (telescope), Neutrino, Blazar, Astrophysics - High Energy Astrophysical Phenomena, Cherenkov radiation
Abstract

The realtime follow-up of neutrino events is a promising approach to search for astrophysical neutrino sources. It has so far provided compelling evidence for a neutrino point source: the flaring gamma-ray blazar TXS 0506+056 observed in coincidence with the high-energy neutrino IceCube-170922A detected by IceCube. The detection of very-high-energy gamma rays (VHE, $\mathrm{E} > 100\,\mathrm{GeV}$) from this source helped establish the coincidence and constrained the modeling of the blazar emission at the time of the IceCube event. The four major imaging atmospheric Cherenkov telescope arrays (IACTs) - FACT, H.E.S.S., MAGIC, and VERITAS - operate an active follow-up program of target-of-opportunity observations of neutrino alerts sent by IceCube. This program has two main components. One are the observations of known gamma-ray sources around which a cluster of candidate neutrino events has been identified by IceCube (Gamma-ray Follow-Up, GFU). Second one is the follow-up of single high-energy neutrino candidate events of potential astrophysical origin such as IceCube-170922A. GFU has been recently upgraded by IceCube in collaboration with the IACT groups. We present here recent results from the IACT follow-up programs of IceCube neutrino alerts and a description of the upgraded IceCube GFU system., Presented at the 37th International Cosmic Ray Conference (ICRC 2021). See arXiv:2107.06966 for all IceCube contributions. See arXiv:2108.05257 for all H.E.S.S. contributions

Published
2022

17. Werner helicase is required for proliferation and DNA damage repair in multiple myeloma

Author

Dilara Akcora-Yildiz, Tulin Ozkan, Mehmet Ozen, Mehmet Gunduz, Asuman Sunguroglu, Meral Beksac, and Tıp Fakültesi

Subjects
Genomic Stability, Werner Helicase, DNA Repair, Genetics, NSC 19630, General Medicine, Multiple Myeloma, Molecular Biology
Abstract

Background Multiple myeloma (MM), characterized by extensive genomic instability and aberrant DNA damage repair, is a plasma cell malignancy due to the excessive proliferation of monoclonal antibody-producing plasma cells in the bone marrow. Despite the signifcant improvement in the survival of patients with the development of novel therapeutic agents, MM remains an incurable disease. Werner (WRN) helicase, a member of the RecQ helicase family that contributes to DNA replication, recombination, and repair, has been highlighted in cancer cell survival, yet the role and mechanism of WRN in MM remain unclear. Methods and results Increased mRNA expression of WRN in newly diagnosed and relapsed CD138+myeloma plasma cells than normal CD138+plasma cells and their matched CD138−non-tumorigenic cells were detected by qPCR. Using NSC19630, a specifc WRN helicase inhibitor, we further showed decreased cell viability, proliferation, and DNA repair and increased DNA damage and apoptosis in MM cells by MTT assay, cell cycle assay, apoptosis assay, and Western blotting. Conclusions The results of the present study demonstrate that WRN is essential in MM cell viability, proliferation, and genomic stability, indicating its inhibition may enhance the efcacy of chemotherapy in MM.

Published
2022

18. Dysmorphic Facial Features and Other Clinical Characteristics in Two Patients with PEX1 Gene Mutations

Author

Mehmet Gunduz and Ozlem Unal

Subjects
Pediatrics, RJ1-570
Abstract

Peroxisomal disorders are a group of genetically heterogeneous metabolic diseases related to dysfunction of peroxisomes. Dysmorphic features, neurological abnormalities, and hepatic dysfunction can be presenting signs of peroxisomal disorders. Here we presented dysmorphic facial features and other clinical characteristics in two patients with PEX1 gene mutation. Follow-up periods were 3.5 years and 1 year in the patients. Case I was one-year-old girl that presented with neurodevelopmental delay, hepatomegaly, bilateral hearing loss, and visual problems. Ophthalmologic examination suggested septooptic dysplasia. Cranial magnetic resonance imaging (MRI) showed nonspecific gliosis at subcortical and periventricular deep white matter. Case II was 2.5-year-old girl referred for investigation of global developmental delay and elevated liver enzymes. Ophthalmologic examination findings were consistent with bilateral nystagmus and retinitis pigmentosa. Cranial MRI was normal. Dysmorphic facial features including broad nasal root, low set ears, downward slanting eyes, downward slanting eyebrows, and epichantal folds were common findings in two patients. Molecular genetic analysis indicated homozygous novel IVS1-2A>G mutation in Case I and homozygous p.G843D (c.2528G>A) mutation in Case II in the PEX1 gene. Clinical findings and developmental prognosis vary in PEX1 gene mutation. Kabuki-like phenotype associated with liver pathology may indicate Zellweger spectrum disorders (ZSD).

Published
2016
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19. Taliglucerase-alfa experience with 34 Gaucher disease patients from Turkey

Author

Neslihan Onenli Mungan, Mahmut Coker, Gonca Kilic Yildirim, Ozlem Unal Uzun, Melike Ersoy, Ayse Cigdem Aktuglu Zeybek, Seda Gunes, Nur Arslan, Leyla Tümer, Mustafa Kilic, Tuba Eminoglu, Mehmet Gunduz, Mehmet Keskin, Deniz Kor, Ebru Canda, Derya Bulut, and Sema Kalkan Ucar

Subjects
Endocrinology, Endocrinology, Diabetes and Metabolism, Genetics, Molecular Biology, Biochemistry
Published
2023
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22. The Cloning of the Human Tumor Supressor Gene INGI: DNA Cloning into Plasmid Vector and DNA Analysis by Restriction Enzymes

Author

Elza Ibrahim Auerkari, Mamoru Ouchida, and Mehmet Gunduz

Subjects
Dentistry, RK1-715
Abstract

DNA cloning is one of the most important techniques In the field of molecular biology, with a critical role in analyzing the structure and function of genes and their adjacent regulatory regions. DNA cloning is helpful in learning fundamental molecular biological techniques, since DNA cloning involves a series of them, such as polymerase chain reaction (PCR), DNA ligation, bacterial transformation, bacterial culture, plasmid DNA extraction, DNA digestion with restriction enzymes and agarose gel electrophoresis. In this paper the cloning of the human tumor suppressor gene INGI has been used to illustrate the methodology. The gene was amplified by PCR, cloned into a TA-cloning vectore, and restriction enzyme mapping was used to distinguish the sense INGI construct from the antisense INGI construct.

Published
2015
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23. Searching for Dark Matter from the Sun with the IceCube Detector

Author

Lisa Johanna Schumacher, Elisa Lohfink, Javier Gonzalez, Roxanne Turcotte, Catherine De Clercq, Michael DuVernois, Barbara Skrzypek, Larissa Paul, Naoko Kurahashi, Frank G. Schröder, Thomas McElroy, Erin O'Sullivan, S. Böser, Gerald Przybylski, Jakob van Santen, Shiqi Yu, Federica Bradascio, Alexander Burgman, Simeon Reusch, K. Meagher, Mehr Nisa, Benedikt Riedel, Stephanie Hickford, Delia Tosi, Sebastian Baur, Sebastian Fiedlschuster, Markus Ackermann, S. W. Barwick, Sreetama Goswami, Ken'ichi Kin, Ryan Burley, A. Steuer, Qinrui Liu, Martina Karl, Raamis Hussain, Aaron Fienberg, John Evans, Amirreza Raissi, U. Katz, Sally Robertson, Judith Schneider, Andres Medina, Donghwa Kang, Merlin Schaufel, Dawn Williams, Martin Pittermann, Chris Weaver, Stephanie Bron, K. Hoshina, Hrvoje Dujmovic, Jurgen Borowka, Benjamin Bastian, Anastasia Maria Barbano, Brian Clark, Sebastian Sanchez Herrera, Glenn Spiczak, Zelong Zhang, Michael Stamatikos, Jan Soedingrekso, P. Schlunder, John Hardin, Spencer Axani, Kael Hanson, Saskia Philippen, D. F. Cowen, A. Goldschmidt, Julia Becker Tjus, Markus Ahlers, Martin Unland Elorrieta, Shefali Shefali, C. Walck, Alfonso Garcia, Ankur Sharma, Jeffrey Lazar, Le Viet Nguyen, J. J. Beatty, Tianlu Yuan, Matthias Vraeghe, Torsten Schmidt, Abdul Rehman, Carsten Rott, Dave Nygren, Mohamed Rameez, Cyril Martin Alispach, Karen Andeen, Felix Henningsen, Tyler Anderson, Surujhdeo Seunarine, Thomas K. Gaisser, Timo Karg, Hermann Kolanoski, Carlos Arguelles, Lutz Kopke, Chiara Bellenghi, Thomas Kintscher, Maximilian Meier, Jessie Micallef, Juan Pablo Yanez, IceCube, Josh Peterson, Emma Kun, Paolo Desiati, Matthias Huber, Juanan Aguilar, Lenka Tomankova, Yosuke Ashida, A. R. Fazely, J. L. Kelley, Kenneth Clark, Aya Ishihara, Matthew Weiss, Yuiry Popovych, Kirill Filimonov, Pranav Dave, Maximilian Karl Scharf, Alejandro Diaz, Krijn de Vries, Stef Verpoest, Andreas Weindl, Jenni Adams, Xianwu Xu, Jay Gallagher, Minjin Jeong, K.-H. Becker, Ruth Hoffmann, Kwok Lung Fan, Alexander Fritz, Colin Turley, Erik Ganster, Najia Moureen Binte Amin, Uwe Naumann, T. Stanev, Yiqian Xu, Emma C. Hettinger, Matt Dunkman, Federico Bontempo, Nora Valtonen-Mattila, Marcos Santander, Francesco Lucarelli, Maria Liubarska, Ramesh Koirala, Dennis Soldin, Martin Ha Minh, Hans Dembinski, Erin Carnie-Bronca, Harald Schieler, K. Rawlins, Christian Glaser, Simona Toscano, Christian Spiering, Manuel Silva, Samvel Ter-Antonyan, Ben Jones, Alan Coleman, Gisela Anton, Maria Prado Rodriguez, Devyn Rysewyk Cantu, Gwenhaël de Wasseige, D. Z. Besson, Reina H. Maruyama, R. Halliday, Daniel Bindig, Georg Schwefer, L. Gerhardt, James Vincent Mead, Thomas Stuttard, Ryo Nagai, A. Olivas, E. Blaufuss, T. Stezelberger, Sarah Pieper, Markus Dittmer, Jannis Necker, Tetiana Kozynets, Neha Lad, Dirk Ryckbosch, Elizabeth Friedman, Chad Finley, Rasha Abbasi, Summer Blot, Matthias Boddenberg, Ibrahim Safa, Daria Pankova, Damian Pieloth, Ali Kheirandish, Sarah Mancina, Gerrit Roellinghoff, Stephan Meighen-Berger, Jannes Brostean-Kaiser, Kurt Woschnagg, Simon Hauser, Anna Franckowiak, Tobias Hoinka, Vedant Basu, James Madsen, Thorsten Glusenkamp, Massimiliano Lincetto, Lu Lu, Paul Evenson, S. Yoshida, I. Taboada, Dustin Hebecker, Nathan Whitehorn, Steve Sclafani, Klas Hultqvist, Joanna Kiryluk, Christoph Tönnis, Sally-Ann Browne, Brandom Pries, Mirco Hunnefeld, Marie Oehler, Segev BenZvi, Timothée Grégoire, Paras Koundal, Mike Richman, Colton Hill, Carlos Perez de los Heros, Gabriel Collin, Simone Garrappa, Dmitry Chirkin, Johan Wulff, Jan Weldert, Etienne Bourbeau, Spencer Klein, Julian Saffer, Chris Wendt, Sebastian Schindler, Michael Kovacevich, Pablo Correa, S. Tilav, Teresa Montaruli, Christoph Günther, Alexander Kappes, Michael Campana, Emily Dvorak, Cristian Jesus Lozano Mariscal, Kendall Mahn, K. Helbing, Elisa Bernardini, Tomas Kontrimas, Christian Dappen, Justin Vandenbroucke, Timothyblake Watson, Yijia Li, Sourav Sarkar, Benjamin Hokanson-Fasig, L. Halve, Philipp Eller, Christian Spannfellner, R. Morse, Frank McNally, Chunfai Tung, Olga Botner, Jakob Bottcher, Kara Hoffman, D. J. Koskinen, Antonio Augusto Alves Junior, Chujie Chen, Raffaela Busse, Anna Obertacke Pollmann, Yang Lyu, Joeran Stettner, Cristina Lagunas Gualda, Grant Parker, Philip Weigel, M. Plum, Mehmet Gunduz, Agnieszka Leszczyńska, R. C. Bay, Hershal Pandya, Martin Rongen, Wolfgang Rhode, Spencer Griswold, Maryon Ahrens, Joshua Hignight, Timo Sturwald, Frederik Tenholt, Wing Yan Ma, Feifei Huang, Hannah Erpenbeck, Konstancja Satalecka, Theo Glauch, Xinhua Bai, Austin Schneider, Abhishek Desai, Juan Carlos Diaz-Velez, Robert Stein, Maria Tselengidou, James DeLaunay, Marjon Moulai, Ava Ghadimi, Martin Wolf, Franziska Tischbein, Hans Niederhausen, Robert A. Cross, Frederik Hermann Lauber, Koun Choi, Andrew Ludwig, Justin Lanfranchi, Ben Smithers, Jean Pierre Twagirayezu, Jiwoong Lee, Rui An, Nahee Park, Darren Grant, Derek B Fox, Immacolata Carmen Rea, Sarah Nowicki, Andreas Haungs, Robert Snihur, C. H. Wiebusch, Kunal Deoskar, A. Karle, Ioana Codrina Maris, Sam De Ridder, Christoph Raab, Nadège Iovine, D. Berley, G. C. Hill, Bunheng Ty, Patrick Reichherzer, Ralph Engel, Moritz Kellermann, Giovanni Renzi, D. Seckel, Tyce DeYoung, George Japaridze, Roger Moore, Woosik Kang, Richard Naab, Marek Kowalski, Seongjin In, Elisa Resconi, Jan Conrad, K. Mase, Yuya Makino, Alessio Porcelli, Alexander A. Harnisch, Nick van Eijndhoven, Lew Classen, René Reimann, Leander Fischer, Thomas Ehrhardt, Christian Haack, Alexander Sandrock, Kirsten Tollefson, Kayla Leonard, Alexander Trettin, Sukeerthi Dharani, Francis Halzen, Lilly Peters, Juliana Stachurska, V Aswathi Balagopal, Gerrit Wrede, Johannes Werthebach, Thomas Huber, Ek Narayan Paudel, Michael J Larson, Allan Hallgren, Sandro Kopper, William Luszczak, M. Kauer, David Kappesser, Matti Jansson, P. Buford Price, Mark Weyrauch, Joakim Sandroos, Daniela Mockler, G. W. Sullivan, James E. Braun, Philipp Furst, Tim Ruhe, Paul Coppin, Andrea Turcati, Ella Roberts, Alex Pizzuto, Gary Binder, Xinyue Kang, Claudio Kopper, Subir Sarkar, and David Vannerom

Subjects
Physics, Dark matter, Detector, Astronomy
Published
2021
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25. A rare case of the recurrent surgery for cribriform-morular variant of papillary thyroid carcinoma

Author

Muneki Hotomi, Kenji Warigaya, Keisuke Enomoto, Mehmet Gunduz, Shin-ichi Murata, Saori Takeda, Shunji Tamagawa, and Naoko Kumashiro

Subjects
Capsular Invasion, medicine.medical_specialty, endocrine system diseases, Article, Familial adenomatous polyposis, Thyroid carcinoma, 03 medical and health sciences, 0302 clinical medicine, Recurrence, Case report, medicine, Total thyroidectomy, Palsy, business.industry, Thyroid, virus diseases, medicine.disease, Surgery, medicine.anatomical_structure, 030220 oncology & carcinogenesis, Ligament, Cribriform, Immunohistochemistry, 030211 gastroenterology & hepatology, business, CMV-PTC
Abstract

Highlights • The cribriform-morular variant of papillary thyroid carcinoma (CMV-PTC) is an uncommon variant of PTC, which incidence of CMV-PTC is less than 0.3% of PTC. • The strong expression of β-Catenin is a hallmark staining in CMV-PTC. • Total thyroidectomy in CMV-PTC with FAP should be performed at initial surgery due to high recurrence., Introduction The cribriform-morular variant of papillary thyroid carcinoma (CMV-PTC) is an uncommon subtype of PTC, and it is associated with familial adenomatous polyposis (FAP). Presentation of case We describe a 32-year-old female who presented recurrent CMV-PTC with FAP. Surgery performed after the recurrent disease resulted in left recurrent laryngeal nerve palsy due to formation of strong scar after initial operation. The histopathological examination revealed the recurrent CMV-PTC without thyroid capsular invasion in remnant thyroid tissue of berry ligament. In addition, the immunohistochemical analysis showed that β-Catenin was diffusely positive in both cytoplasm and nucleus in CMV-PTC tissue. Conclusion Total thyroidectomy in CMV-PTC with FAP should be performed at initial surgery due to high recurrence.

Published
2020
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26. Symptoms and Problems in Children with Inherited Metabolic Diseases and Factors Affecting the Caregiver Burden of Mothers

Author

Ebru Kilicarslan Toruner, Tuba Arpaci, Naime Altay, and Mehmet Gunduz

Subjects
Male, medicine.medical_specialty, Psychometrics, business.industry, Mothers, Caregiver burden, Family income, Pediatrics, Nursing care, Caregivers, Cost of Illness, Metabolic Diseases, Surveys and Questionnaires, Family medicine, Pediatric hospital, Adaptation, Psychological, Nursing Interventions Classification, medicine, Humans, Female, Descriptive research, business
Abstract

Parents need to constantly monitor their children with inherited metabolic diseases (IMDs) and have difficulty coordinating care. The aim of this descriptive study was to determine the symptoms and problems in children with IMDs and factors affecting caregiver burden. The study was conducted in a pediatric hospital. The study sample consisted of 47 mothers of children with IMDs. Data were collected using a descriptive characteristics form (DCF), a data collection form related to symptoms and problems (DCFSP), and a caregiver burden inventory (CBI). The most common specific problems were hepatomegaly (36.2%), developmental delay (27.7%), and muscle weakness (14.9%). Mothers' CBI mean total score was 30.23 +/- 19.65. Mothers whose children were partially or completely dependent had significantly higher scores than others. Mothers who expressed the family income status as "an expenses more than income" had higher CBI scores. Understanding the problems of children with IMD and factors effecting caregiver burden of mothers can help health-care professionals to identify patients' and their families' needs and facilitate the development of nursing interventions for effective care and reduction of caregiver burden. These results can be used to improve the nursing care of children with IMDs and their families.

Published
2019
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27. The effect of peripheral blood eosinophilia on inflammatory markers in asthmatic patients with lower respiratory tract infections

Author

Mehmet Gunduz, Arif Kut, Sadik Erhan Ozaydin, Mustafa Özçetin, Yakup Pacal, Necmettin Toprak, Birgul Altinsoy Kertmen, Sakine Isik, Yakup Cag, and Maltepe Üniversitesi

Subjects
Male, Medicine (General), Clinical Research Reports, Neutrophils, Biochemistry, Lower respiratory tract infection, 03 medical and health sciences, R5-920, 0302 clinical medicine, neutrophil-to-lymphocyte ratio, Predictive Value of Tests, Inflammatory marker, Eosinophilia, medicine, Asthmatic patient, Humans, peripheral blood eosinophilia, 030212 general & internal medicine, Lymphocytes, Neutrophil to lymphocyte ratio, Respiratory Tract Infections, Retrospective Studies, Inflammation, Respiratory tract infections, business.industry, Biochemistry (medical), fungi, Allergic asthma, Cell Biology, General Medicine, medicine.disease, Asthma, Paediatric asthma, C-Reactive Protein, Cross-Sectional Studies, 030228 respiratory system, Immunology, Peripheral Blood Eosinophilia, Disease Progression, Female, Inflammation Mediators, business, allergic asthma, Biomarkers, Follow-Up Studies
Abstract

WOS: 000471695200014, PubMed ID: 31006357, Background To investigate the behaviour of the inflammatory marker neutrophil-to-lymphocyte ratio (NLR) in the presence of peripheral blood eosinophilia (PBE) in paediatric asthma patients with lower respiratory tract (LRT) infections. Methods This retrospective study enrolled consecutive patients aged >= 5 years who were diagnosed with asthma and whose haemogram values were available. The patients were further subdivided based on the presence or absence of LRT infections and allergies. NLR and C-reactive protein (CRP) were evaluated in relation to the presence or absence of PBE (>= 4% eosinophils). Results A total of 991 patients were enrolled in the study. Patients with LRT infections had significantly higher leucocyte and neutrophil counts, a greater NLR and a higher level of CRP compared with patients without LRT infections. Overall, patients with PBE had significantly lower NLRs and CRP regardless of the presence or absence of an LRT infection. The PBE percentage showed moderate inverse correlations with NLR (r = -0.34) and CRP (r = -0.20). Conclusion The presence of PBE was significantly associated with lower NLR and CRP regardless of the presence or absence of an infectious condition.

Published
2019

28. Cancer Stem Cells in Oropharyngeal Cancer

Author

Mehmet Gunduz, Esra Gunduz, Keisuke Enomoto, Shunji Tamagawa, and Muneki Hotomi

Subjects
0301 basic medicine, Oncology, Cancer Research, medicine.medical_specialty, cancer stem cells (CSCs), Drug resistance, Review, Tumor heterogeneity, Metastasis, 03 medical and health sciences, 0302 clinical medicine, Cancer stem cell, Internal medicine, tumor heterogeneity, medicine, oropharyngeal cancer (OPC), Human papillomavirus, RC254-282, business.industry, Cancer, Neoplasms. Tumors. Oncology. Including cancer and carcinogens, medicine.disease, Head and neck squamous-cell carcinoma, human papillomavirus (HPV), stomatognathic diseases, 030104 developmental biology, 030220 oncology & carcinogenesis, CSC markers, prognosis, Stem cell, business
Abstract

Simple Summary Although there has been improvement in our understanding about cancer stem cells recently, we still don’t know much about cancer stem cells of oropharyngeal cancer. Lack of knowledge solely on oropharyngeal cancer together with the information of human papilloma virus status, which is a specific factor of prognosis in oropharyngeal cancer, hardens to elucidate the distinction of the underlying mechanisms of cancer stem cell behavior. To proceed to an effective and durable therapy in oropharyngeal cancer it is necessary to reveal cancer stem cell function and related factors like its plasticity, niche, and pathways. Therefore in this review we aimed to contribute to this emerging area by focusing on the current literature and future prospects. Abstract Oropharyngeal cancer (OPC), which is a common type of head and neck squamous cell carcinoma (HNSCC), is associated with tobacco and alcohol use, and human papillomavirus (HPV) infection. Underlying mechanisms and as a result prognosis of the HPV-positive and HPV-negative OPC patients are different. Like stem cells, the ability of self-renewal and differentiate, cancer stem cells (CSCs) have roles in tumor invasion, metastasis, drug resistance, and recurrence after therapy. Research revealed their roles to some extent in all of these processes but there are still many unresolved points to connect to CSC-targeted therapy. In this review, we will focus on what we currently know about CSCs of OPC and limitations of our current knowledge. We will present perspectives that will broaden our understanding and recent literature which may connect to therapy.

Published
2021

29. A Convolutional Neural Network based Cascade Reconstruction for the IceCube Neutrino Observatory

Author

J. Werthebach, A. Franckowiak, Chujie Chen, Ioana Codrina Maris, K. Hoshina, A. Steuer, A. Weindl, Maryon Ahrens, P. Schlunder, Saskia Philippen, Glenn Spiczak, G. Momenté, Segev BenZvi, Spencer Klein, M. Rameez, Sam De Ridder, Frederik Tenholt, R. Nagai, D. F. Cowen, Martin Unland Elorrieta, Stephen L. Hauser, Christoph Raab, Nadège Iovine, Barbara Skrzypek, Kara Hoffman, Sarah Mancina, N. van Eijndhoven, U. Naumann, Raamis Hussain, D. Berley, G. C. Hill, Tobias Hoinka, Vedant Basu, Steve Sclafani, J. Kiryluk, B. J. P. Jones, Andres Medina, D. Mockler, Bunheng Ty, Ralph Engel, Moritz Kellermann, U. Katz, Emily Dvorak, Timo Karg, K. Andeen, D. R. Nygren, Marek Kowalski, D. Kang, Giovanni Renzi, K. D. de Vries, M. Stamatikos, Hershal Pandya, Wolfgang Rhode, Robert Stein, A.A. Alves, Pablo Correa, D. Seckel, S. Fahey, Javier Gonzalez, Roxanne Turcotte, Maximilian Karl Scharf, Alexander Trettin, P. B. Price, I. Taboada, Gisela Anton, Michael O. Wolf, Lenka Tomankova, Max Renschler, Y. Makino, Matthias Vraeghe, Tyce DeYoung, K. Tollefson, D. J. Koskinen, K. Rawlins, Nathan Whitehorn, C. Weaver, T. Anderson, B. A. Clark, Francesco Lucarelli, Brandom Pries, L. Schumacher, Devyn Rysewyk Cantu, P. Peiffer, J. Kim, Daria Pankova, E. Friedman, M. Kauer, Alan Coleman, John Hardin, Shefali Shefali, Nora Valtonen-Mattila, M. E. Huber, D. B. Fox, Alexander Fritz, D. Z. Besson, T. O. B. Schmidt, E. Bourbeau, Suyong Choi, M. Silva, Najia Moureen Binte Amin, J. P. Lazar, Sebastian Böser, R. Morse, Spencer Griswold, Jakob Bottcher, T. Montaruli, David A. Williams, A. Goldschmidt, K. Mase, Abdul Rehman, David Kappesser, Kurt Woschnagg, Paul Evenson, Clara E. Hill, Le Viet Nguyen, Sebastian Sanchez Herrera, Marcos Santander, Carsten Rott, L. Gerhardt, Y. Popovych, J. Evans, Maria Tselengidou, D. Soldin, J. B. Tjus, Chiara Bellenghi, Alexander A. Harnisch, Benjamin Bastian, Anastasia Maria Barbano, Markus Ackermann, S. W. Barwick, Matti Jansson, Immacolata Carmen Rea, P. Eller, Simone Garrappa, H. Schieler, Dmitry Chirkin, Kael Hanson, A. Kyriacou, A. Olivas, Hermann Kolanoski, Simeon Reusch, A. O. Pollmann, Elisa Bernardini, K. Meagher, S. Hickford, J. C. Gallagher, Kirill Filimonov, Mehmet Gunduz, Agnieszka Leszczyńska, R. C. Bay, Alexander Kappes, Pranav Dave, Jan Soedingrekso, K. Krings, Xianwu Xu, J. Sandroos, James Madsen, Lu Lu, M. J. Weiss, Stef Verpoest, H. Dujmovic, Austin Schneider, Juan Carlos Diaz-Velez, Jenni Adams, K.-H. Becker, Yiqian Xu, M. Plum, A. Wallace, Katharina Morik, J. Stettner, Daniel Bindig, Ramesh Koirala, Gerrit Wrede, C.P. de los Heros, Thomas Huber, Ek Narayan Paudel, Allan Hallgren, Matt Dunkman, R. Joppe, T. Stezelberger, Colin Turley, S. Kopper, Christian Glaser, Paolo Desiati, S. Sarker, C. Alispach, Damian Pieloth, R. G. Stokstad, Ali Kheirandish, Sreetama Goswami, Minjin Jeong, Martin Ha Minh, T. Glüsenkamp, Janet Conrad, G. Krückl, Jannis Necker, Sebastian Baur, R. Cross, Sebastian Fiedlschuster, Surujhdeo Seunarine, Ken'ichi Kin, Jannes Brostean-Kaiser, Chunfai Tung, Alejandro Diaz, M. J. Larson, M. U. Nisa, Tim Ruhe, E. O'Sullivan, René Reimann, Chad Finley, Federica Bradascio, A. V. Balagopal, Alexander Burgman, M. Meier, Michael Campana, F. Huang, Christoph Tönnis, Benjamin Hokanson-Fasig, E. Blaufuss, Leander Fischer, Gerrit Roellinghoff, Mirco Hunnefeld, Marie Oehler, Thomas Stuttard, William Luszczak, G. H. Collin, Sarah Pieper, Dirk Ryckbosch, S. Robertson, R. Snihur, A. Ludwig, Wing Yan Ma, Yang Lyu, Grant Parker, L. Köpke, Karl J. Clark, Juanan Aguilar, I. Safa, Merlin Schaufel, James DeLaunay, Marjon Moulai, Olga Botner, Cristian Jesus Lozano Mariscal, Kendall Mahn, L. Classen, Johan Wulff, K. Wiebe, Timothyblake Watson, J. J. Beatty, Tianlu Yuan, Stephan Meighen-Berger, S. Yoshida, Kayla Leonard, A. Ishihara, V. Baum, H. Niederhausen, Won Nam Kang, Joshua Hignight, A. Sharma, Sukeerthi Dharani, Francis Halzen, J. Merz, Paras Koundal, Mike Richman, X. Bai, Konstancja Satalecka, F. McNally, Emma C. Hettinger, I. Ansseau, Michael Kovacevich, Theo Glauch, Juliana Stachurska, H. Dembinski, Reina H. Maruyama, Frank G. Schröder, Summer Blot, Thomas Ehrhardt, D. Tosi, D. van Eijk, Mark Weyrauch, Spencer Axani, Elisa Lohfink, Aaron Fienberg, Amirreza Raissi, S. Tilav, Michael DuVernois, Carlos Arguelles, Jessie Micallef, Stephanie Bron, R. S. Busse, Y. L. Li, J. P. Yanez, Gerald Przybylski, Christian Haack, Christopher Wiebusch, R. Halliday, Kunal Deoskar, K. Helbing, Alexander Sandrock, N. Kurahashi, Todor Stanev, Benedikt Riedel, Cristina Lagunas Gualda, C. Wendt, G. W. Sullivan, A. Karle, James E. Braun, Philipp Furst, D. Hebecker, G. de Wasseige, George Japaridze, Roger Moore, Paul Coppin, Andrea Turcati, T. Gregoire, J. van Santen, R. Hoffmann, Alex Pizzuto, Gary Binder, J. Bourbeau, Richard Naab, Zhedong Zhang, C. Walck, Thomas K. Gaisser, Ava Ghadimi, Franziska Tischbein, Seongjin In, Elisa Resconi, Alessio Porcelli, P. Mallik, Catherine De Clercq, M. Rongen, Qinrui Liu, Martina Karl, Jochen M. Schneider, Christian Spiering, Justin Vandenbroucke, Maria Prado Rodriguez, Abhishek Desai, Xinyue Kang, Claudio Kopper, S. C. Nowicki, Subir Sarkar, T. Kintscher, Frederik Hermann Lauber, Justin Lanfranchi, David Vannerom, Ben Smithers, Jean Pierre Twagirayezu, A. Haungs, Rui An, Nahee Park, K. Hultqvist, Darren Grant, T. Stürwald, Z. Griffith, Felix Henningsen, A. R. Fazely, Simona Toscano, J. L. Kelley, Markus Ahlers, Erik Ganster, Samvel Ter-Antonyan, Rasha Abbasi, B. J. Whelan, Jan Weldert, L. Halve, Physics, Faculty of Sciences and Bioengineering Sciences, Vriendenkring VUB, Elementary Particle Physics, and collaboration, The IceCube

Subjects
FOS: Computer and information sciences, Computer Science - Machine Learning, Astrophysics::High Energy Astrophysical Phenomena, cs.LG, Data analysis, FOS: Physical sciences, Fitting methods, 01 natural sciences, Convolutional neural network, Calibration, Cluster finding, Neutrino detectors, Pattern recognition, High Energy Physics - Experiment, IceCube Neutrino Observatory, Machine Learning (cs.LG), High Energy Physics - Experiment (hep-ex), 0103 physical sciences, 010303 astronomy & astrophysics, Instrumentation, Mathematical Physics, 010308 nuclear & particles physics, business.industry, hep-ex, Deep learning, Detector, Neutrino detector, Computer engineering, Orders of magnitude (time), 13. Climate action, Cascade, Pattern recognition (psychology), Artificial intelligence, business
Abstract

Continued improvements on existing reconstruction methods are vital to the success of high-energy physics experiments, such as the IceCube Neutrino Observatory. In IceCube, further challenges arise as the detector is situated at the geographic South Pole where computational resources are limited. However, to perform real-time analyses and to issue alerts to telescopes around the world, powerful and fast reconstruction methods are desired. Deep neural networks can be extremely powerful, and their usage is computationally inexpensive once the networks are trained. These characteristics make a deep learning-based approach an excellent candidate for the application in IceCube. A reconstruction method based on convolutional architectures and hexagonally shaped kernels is presented. The presented method is robust towards systematic uncertainties in the simulation and has been tested on experimental data. In comparison to standard reconstruction methods in IceCube, it can improve upon the reconstruction accuracy, while reducing the time necessary to run the reconstruction by two to three orders of magnitude., Comment: 39 pages, 15 figures, submitted to Journal of Instrumentation; added references

Published
2021

30. Chronologic Presentation of a Severe Case of Progressive Hemifacial Atrophy (Parry-Romberg Syndrome) with the Loss of an Eye

Author

Mesut Kaya, Ceyda Sel Yilmaz, Hanifi Kurtaran, and Mehmet Gunduz

Subjects
Otorhinolaryngology, RF1-547
Abstract

Progressive hemifacial atrophy, also known as Parry-Romberg syndrome, is a slowly advancing degenerative disease that mostly affects the cutaneous, subcutaneous fatty tissue, muscle tissue, and bone structures on one side of the face. We describe the chronological progression of this very rare syndrome from early childhood until adulthood in a patient who developed severe atrophy and lost one eye. We also discuss the aetiology and pathophysiology of this syndrome.

Published
2014
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32. EV-Scale Sterile Neutrino Search Using Eight Years of Atmospheric Muon Neutrino Data from the IceCube Neutrino Observatory

Author

K. Tollefson, Albrecht Karle, U. Katz, R. S. Busse, G. H. Collin, Christopher Wiebusch, Kunal Deoskar, Thomas Ehrhardt, P. Schlunder, R. Hellauer, Spencer Axani, D. B. Fox, Kayla Leonard, R. Maunu, Alan Coleman, Sukeerthi Dharani, Francis Halzen, J. Merz, S. Hickford, R. Joppe, A. Wallace, Delia Tosi, Sebastian Baur, M. G. Aartsen, Carlos Arguelles, David Vannerom, I. Ansseau, Hermann Kolanoski, Juliana Stachurska, H. Dembinski, Stef Verpoest, Jessie Micallef, Matthias Vraeghe, George Japaridze, Roger Moore, Tim Ruhe, N. Kurahashi, Todor Stanev, C. Wendt, Ioana Codrina Maris, H. Bagherpour, Johan Wulff, Sebastian Böser, Olga Botner, J. Kim, Elisa Bernardini, A. Ludwig, Christoph Raab, Nadège Iovine, Timothyblake Watson, D. Heereman, Gisela Anton, M. Stamatikos, J. Bourbeau, K. Rawlins, G. de Wasseige, Won Nam Kang, V. Baum, Jenni Adams, D. Berley, G. C. Hill, H. Niederhausen, A. Steuer, C. Alispach, Bunheng Ty, Stephen L. Hauser, Raamis Hussain, Janet Conrad, B. Relethford, Jan Soedingrekso, Ralph Engel, Moritz Kellermann, Z. Griffith, Y. Makino, Seongjin In, R. Hoffmann, James Madsen, Konstancja Satalecka, Benjamin Bastian, Theo Glauch, Anastasia Maria Barbano, Saskia Philippen, F. Jonske, R. Cross, M. J. Larson, Lu Lu, T. Kittler, X. Bai, G. Neer, Alexander Fritz, A. Goldschmidt, D. van Eijk, Lenka Tomankova, Giovanni Renzi, D. Seckel, S. Fahey, Elisa Resconi, Alessio Porcelli, Claudio Kopper, Daniel Bindig, G. Krückl, Alejandro Diaz, C. Pérez de los Heros, E. O’Sullivan, Le Viet Nguyen, Wing Yan Ma, James DeLaunay, Marjon Moulai, R. G. Stokstad, K. Krings, M. Plum, P. B. Price, William Luszczak, M. Kauer, Suyong Choi, David Kappesser, S. E. Sanchez Herrera, Francesco Lucarelli, T. O. B. Schmidt, Tyce DeYoung, Chad Finley, Nathan Whitehorn, Immacolata Carmen Rea, Matti Jansson, D. Z. Besson, C. Walck, Thomas K. Gaisser, G. B. Yodh, A. Kyriacou, M. Silva, Najia Moureen Binte Amin, K.-H. Becker, Yiqian Xu, Qinrui Liu, J. Becker Tjus, T. Glüsenkamp, Subir Sarkar, Martina Karl, Matt Dunkman, Kendall Mahn, Christoph Tönnis, F. Huang, K. Meagher, Jochen M. Schneider, J. Stettner, T. R. Wood, Kurt Woschnagg, Paul Evenson, T. Palczewski, S. De Ridder, Y. L. Li, G. W. Sullivan, J. J. Beatty, Tianlu Yuan, Jeffrey Lazar, Chunfai Tung, James E. Braun, Alexander Trettin, E. Cheung, J. Werthebach, Thomas Stuttard, Mirco Hunnefeld, Marie Oehler, Alexander Sandrock, Elisa Lohfink, Thomas Meures, N. L. Strotjohann, M. A. Unland Elorrieta, M. Wallraff, Michael DuVernois, Benjamin Hokanson-Fasig, Felix Henningsen, Karl J. Clark, Simone Garrappa, Dmitry Chirkin, Sarah Pieper, D. Hebecker, Anatoli Fedynitch, K. Helbing, Chujie Chen, Dirk Ryckbosch, Joshua Hignight, M. Zöcklein, T. Grégoire, Timo Sturwald, J. C. Gallagher, Timo Karg, Gerald Przybylski, Federica Bradascio, Yang Lyu, Alexander Kappes, Alexander Burgman, M. Song, T. L. Carver, Paras Koundal, Mike Richman, Sarah Mancina, Paul Coppin, Anna Franckowiak, Tobias Hoinka, Vedant Basu, Steve Sclafani, F. McNally, A. R. Fazely, M. Usner, Grant Parker, R. Halliday, Stephan Meighen-Berger, K. D. de Vries, Gerrit Wrede, Andrea Turcati, J. van Santen, K. Hoshina, Glenn Spiczak, Thomas Huber, G. Momenté, Merlin Schaufel, A. Stößl, J. Kiryluk, K. Andeen, D. R. Nygren, Marek Kowalski, A. Weindl, Maryon Ahrens, Frederik Tenholt, R. Nagai, M. Medici, M. Rameez, Javier Gonzalez, Roxanne Turcotte, Alex Pizzuto, D. F. Cowen, Reina H. Maruyama, E. Pinat, N. Kulacz, U. Naumann, Martin Rongen, Ek Narayan Paudel, Allan Hallgren, Giorgio Maggi, K. Wiebe, A. Balagopal, Gary Binder, Zhedong Zhang, E. Unger, Simona Toscano, J. Auffenberg, Pablo Correa, Summer Blot, Brian Clark, C. De Clercq, P. Heix, K. Mase, P. Mallik, M. E. Huber, A. O'Murchadha, Marcos Santander, Ramesh Koirala, David A. Williams, L. Schumacher, Benedikt Riedel, S. Tilav, Max Renschler, D. Kang, D. J. Koskinen, Markus Ackermann, S. W. Barwick, L. Gerhardt, M. J. Weiss, E. Bourbeau, J. P. Yanez, Ben Smithers, Colin Turley, A. Olivas, S. Kopper, Spencer Griswold, I. Taboada, Michael O. Wolf, René Reimann, A. Haungs, M. Prado Rodriguez, Maria Tselengidou, D. Soldin, Nahee Park, Pranav Dave, K. Hultqvist, Darren Grant, E. Blaufuss, Mehmet Gunduz, Agnieszka Leszczyńska, R. C. Bay, M. Günder, Austin Schneider, Steven Robertson, Juan Carlos Diaz-Velez, Shefali Shefali, L. Classen, T. Stezelberger, Abdul Rehman, Carsten Rott, Y. Popovych, T. Kintscher, Frederik Hermann Lauber, Xianwu Xu, A. Terliuk, J. Sandroos, C. Bohm, Justin Lanfranchi, Christian Spiering, Justin Vandenbroucke, Abhishek Desai, S. C. Nowicki, Rasha Abbasi, B. J. Whelan, Jan Weldert, L. Halve, Philipp Eller, J. Felde, J. Buscher, D. Rysewyk Cantu, A. Obertacke Pollmann, J. L. Kelley, Markus Ahlers, Erik Ganster, Samvel Ter-Antonyan, Frank G. Schröder, J. Lünemann, N. van Eijndhoven, C. Haack, Emily Dvorak, Aaron Fienberg, Amirreza Raissi, Minjin Jeong, Chris Weaver, Stephanie Bron, C. J. Lozano Mariscal, H. Dujmovic, L. Rauch, S. Yoshida, Surujhdeo Seunarine, R. Snihur, Juanan Aguilar, Kael Hanson, A. Ishihara, Maximilian Meier, Paolo Desiati, Segev BenZvi, Spencer Klein, B. J. P. Jones, Andres Medina, Kara Hoffman, D. Mockler, Hershal Pandya, Daria Pankova, E. Friedman, Wolfgang Rhode, Robert Stein, L. Wills, P. Muth, R. Morse, Jakob Bottcher, T. Montaruli, Maximilian Karl Scharf, P. Peiffer, Ibrahim Safa, Damian Pieloth, Ali Kheirandish, W. Van Driessche, Jannes Brostean-Kaiser, M. U. Nisa, L. Köpke, T. Anderson, John Hardin, H. Schieler, Kirill Filimonov, Physics, Faculty of Sciences and Bioengineering Sciences, Vriendenkring VUB, and Elementary Particle Physics

Subjects
Sterile neutrino, Physics::Instrumentation and Detectors, General Physics and Astronomy, sterile [neutrino], 01 natural sciences, Cosmology, IceCube, High Energy Physics - Experiment, Subatomär fysik, High Energy Physics - Experiment (hep-ex), High Energy Physics - Phenomenology (hep-ph), Astronomi, astrofysik och kosmologi, Subatomic Physics, TOOL, Astronomy, Astrophysics and Cosmology, atmosphere [muon], Muon neutrino, Physics, oscillation [neutrino], Astrophysics::Instrumentation and Methods for Astrophysics, hep-ph, neutrino: sterile, mass difference [neutrino], ddc, muon: atmosphere, observatory, High Energy Physics - Phenomenology, Physique des particules élémentaires, signature, Particle physics, data analysis method, Scale (ratio), Astrophysics::High Energy Astrophysical Phenomena, neutrino: mass difference, FOS: Physical sciences, IceCube Neutrino Observatory, statistical analysis, 0103 physical sciences, OSCILLATIONS, ddc:530, 010306 general physics, hep-ex, ICE, High Energy Physics::Phenomenology, neutrino: mixing angle, CONVERSION, Physics and Astronomy, COSMOLOGY, High Energy Physics::Experiment, neutrino: oscillation, BAYESIAN-INFERENCE, mixing angle [neutrino], experimental results
Abstract

Physical review letters 125(14), 141801 (1-11) (2020). doi:10.1103/PhysRevLett.125.141801, The results of a 3+1 sterile neutrino search using eight years of data from the IceCube Neutrino Observatory are presented. A total of 305 735 muon neutrino events are analyzed in reconstructed energy-zenith space to test for signatures of a matter-enhanced oscillation that would occur given a sterile neutrino state with a mass-squared differences between 0.01 and 100 eV$^2$. The best-fit point is found to be at sin$^2$($2θ_{24}$)=0.10 and $Δm_{41}^2$=4.5 eV$^2$, which is consistent with the no sterile neutrino hypothesis with a $p$ value of 8.0%., Published by APS, College Park, Md.

Published
2020
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33. IceCube-Gen2: The Window to the Extreme Universe

Author

J. Kim, A. Gartner, A. Obertacke Pollmann, B. Hoffmann, J. L. Kelley, Markus Ahlers, Jenni Adams, Akimichi Taketa, D. van Eijk, Daniel Bindig, G. H. Collin, T. C. Arlen, Robert Lahmann, J. J. Beatty, Tianlu Yuan, U. Nauman, Azadeh Keivani, Y. L. Li, Karl J. Clark, T. Kintscher, M. Song, T. L. Carver, Paras Koundal, Michael Kovacevich, Christian Glaser, Frederik Hermann Lauber, T. Huege, Erik Ganster, Benedikt Riedel, D. Seckel, Anna Nelles, R. G. Stokstad, F. McNally, R. Maunu, M. Prado Rodriguez, Kayla Leonard, N. Kurahashi, James E. Braun, Amy Connolly, Samvel Ter-Antonyan, A. Terliuk, Justin Lanfranchi, Pranav Dave, Jannis Necker, C. Wendt, S. Wren, A. Sharma, Sukeerthi Dharani, David Vannerom, M. H. Shaevitz, Alexander Trettin, Reina H. Maruyama, Francis Halzen, J. Merz, K. Krings, Rasha Abbasi, Ben Smithers, Qinrui Liu, M. J. Larson, T. Anderson, Summer Blot, G. de Wasseige, I. Ansseau, D. Hebecker, Jorge Torres, Killian Holzapfel, Martina Karl, C. J. Lozano Mariscal, John Hardin, Jean Pierre Twagirayezu, Daniel García-Fernández, T. Stezelberger, S. Mandalia, E. O'Sullivan, R. Hoffmann, M. Plum, Juliana Stachurska, H. Dembinski, C. Pérez de los Heros, S. Márka, G. WSullivan, A. Haungs, Paul Coppin, Z. Griffith, J. C. Gallagher, Saskia Philippen, Federica Bradascio, Jochen M. Schneider, Srubabati Goswami, Andrea Turcati, Wing Yan Ma, Nahee Park, Y. Makino, Sarah Mancina, C. Walck, M. Kauer, Suyong Choi, Anna Franckowiak, Tobias Hoinka, Chad Finley, David Kappesser, T. Gregoire, Ella Roberts, J. van Santen, S. De Ridder, Jan Weldert, Chunfai Tung, F. Jonske, Ken'ichi Kin, L. Halve, Philipp Eller, K. Hultqvist, N. L. Strotjohann, H. Dujmovic, Vedant Basu, M. A. Unland Elorrieta, Alex Pizzuto, K. D. de Vries, I. CMariş, Gerrit Wrede, R. Gernhaeuser, Thomas Huber, Matti Jansson, Thomas K. Gaisser, M. Richman, Christoph Tönnis, James DeLaunay, Gary Binder, K.-H. Becker, Ek Narayan Paudel, Allan Hallgren, U. Latif, Hiroyuki Tanaka, I. Safa, Steve Sclafani, J. Kiryluk, K. Andeen, P. B. Price, H. Schieler, Kirill Filimonov, Segev BenZvi, Alexander Fritz, D. Z. Besson, Darren Grant, Marjon Moulai, Yiqian Xu, Felix Henningsen, S. Robertson, Aswathi Balagopal, Francesco Lucarelli, Pisin Chen, Matt Dunkman, Merlin Schaufel, Patrick Allison, Spencer Klein, Cosmin Deaconu, Tim Ruhe, A. Ludwig, George Japaridze, Javier Gonzalez, C. B. Krauss, Roxanne Turcotte, T. O. B. Schmidt, Simona Toscano, Roger Moore, P. Heix, R. S. Busse, Chujie Chen, Pablo Correa, L. Gerhard, S. De Kockere, J. Felde, Surujhdeo Seunarine, R. Snihur, J. Buscher, D. Rysewyk Cantu, A. Weindl, R. Hellauer, Giorgio Maggi, H. Niederhausen, Mauricio Bustamante, D. Southall, Julia Böttcher, J. Bourbeau, Lenka Tomankova, Maryon Ahrens, A. Burgman, Christopher Wiebusch, Darko Veberič, Juanan Aguilar, T. R. Wood, Christian Spiering, Frederik Tenholt, R. Nagai, L. Schumacher, C. De Clercq, Benjamin Hokanson-Fasig, L. V. Nguyen, C. Lagunas Gualda, K. Hughes, Kara Hoffman, C. Alispach, J. M. LoSecco, Joshua Hignight, K. Helbing, Timo Sturwald, Xinyue Kang, Richard Naab, Kunal Deoskar, Janet Conrad, Zackary Meyers, K. Meagher, Mehmet Gunduz, Agnieszka Leszczyńska, R. C. Bay, David A. Williams, Kurt Woschnagg, M. Zöcklein, M. Silva, Claudio Kopper, Eric Oberla, Ramesh Koirala, E. Cheung, Thomas Stuttard, Martin Rongen, Najia Moureen Binte Amin, R. Cross, Paul Evenson, A. Karle, Sebastian Böser, Seongjin In, Johannes Werthebach, J. P. Lazar, Markus Ackermann, Austin Schneider, Yang Lyu, Justin Vandenbroucke, Juan Carlos Diaz-Velez, Beverley A. Clark, Timo Karg, Sarah Pieper, Hershal Pandya, Wolfgang Rhode, Zhedong Zhang, P. Schlunder, A. Ishihara, Elisa Resconi, Subir Sarkar, William Luszczak, Clara E. Hill, Ava Ghadimi, Alessio Porcelli, Alan Coleman, J. Auffenberg, Grant Parker, Robert Stein, Dirk Ryckbosch, Benjamin Bastian, Anastasia Maria Barbano, Abhishek Desai, T. Kittler, J. Nam, P. Mallik, E. Blaufuss, S. Zierke, T. Stanev, M. Bohmer, Stephan Meighen-Berger, Simone Garrappa, P. Muth, Dmitry Chirkin, M. E. Huber, Marcos Santander, Christoph Raab, Nadège Iovine, J. Becker Tjus, L. Classen, Colin Turley, S. C. Nowicki, K. Farrag, M. Kleifges, O. Kalekin, A. Olivas, Alexander Kappes, D. Berley, G. C. Hill, Abigail G. Vieregg, Frank G. Schröder, D. Heinen, Erin Carnie-Bronca, N. Kulacz, D. Tosi, J. C. Hanson, Bunheng Ty, Ralph Engel, Moritz Kellermann, Gisela Anton, Elisa Lohfink, Elisa Bernardini, Damian Pieloth, Ali Kheirandish, Jan Soedingrekso, Giovanni Renzi, Michael DuVernois, Jannes Brostean-Kaiser, K. Wiebe, S. Fahey, A. R. Fazely, Tyce DeYoung, J. Lünemann, Thomas Ehrhardt, Nathan Whitehorn, Immacolata Carmen Rea, M. U. Nisa, Aaron Fienberg, Gerald Przybylski, G. Krückl, L. Papp, Amirreza Raissi, L. Köpke, Chris Weaver, R. Halliday, Alejandro Diaz, Stephanie Bron, S. Söldner-Rembold, James Pinfold, Ryan Burley, M. Riegel, H. Bagherpour, Stephanie Wissel, Olga Botner, Y. Pan, A. Steuer, S. Tilav, D. Kang, M. deWith, V. Baum, J. P. Yanez, I. Taboada, Stephen L. Hauser, Raamis Hussain, Michael O. Wolf, M. Stamatikos, John Evans, Shefali Shefali, Christoph Welling, Abdul Rehman, Carsten Rott, K. Tollefson, A. Goldschmidt, Y. Popovych, Troels Petersen, S. E. Sanchez Herrera, Simeon Reusch, S. Hickford, Xianwu Xu, J. Sandroos, C. Bohm, R. Joppe, Spencer Axani, Sebastian Baur, Carlos Arguelles, Jessie Micallef, Teppei Katori, K. Rawlins, James Madsen, Lu Lu, M. G. Aartsen, T. Glüsenkamp, M. Meier, Michael Campana, P. Sandstrom, Kendall Mahn, B. J. P. Jones, K. Hoshina, Glenn Spiczak, Andres Medina, G. Momenté, D. Mockler, M. Rameez, D. F. Cowen, Daria Pankova, E. Friedman, R. Morse, T. Montaruli, E. Unger, Maximilian Karl Scharf, P. Peiffer, J. Stettner, Gerrit Roellinghoff, Mirco Hunnefeld, Marie Oehler, Max Renschler, D. J. Koskinen, E. Bourbeau, Spencer Griswold, Maria Tselengidou, D. Soldin, Z. Márka, Minjin Jeong, L. Rauch, S. Yoshida, N. van Eijndhoven, C. Haack, Emily Dvorak, D. R. Nygren, Marek Kowalski, Kael Hanson, Paolo Desiati, J. Haugen, Lars Steffen Weinstock, Johan Wulff, Won Nam Kang, Timothyblake Watson, X. Bai, G. Neer, Konstancja Satalecka, Theo Glauch, U. Katz, Alexander Sandrock, Ilse Plaisier, K. Mase, D. B. Fox, Hermann Kolanoski, M. J. Weiss, Stef Verpoest, Imre Bartos, David J. Smith, S. Kopper, René Reimann, Leander Fischer, F. Huang, Matthias Vraeghe, Physics, Faculty of Sciences and Bioengineering Sciences, Vriendenkring VUB, and Elementary Particle Physics

Subjects
Physics, High Energy Astrophysical Phenomena (astro-ph.HE), astro-ph.HE, Nuclear and High Energy Physics, Active galactic nucleus, 010308 nuclear & particles physics, High-energy astronomy, Gravitational wave, media_common.quotation_subject, Astrophysics::High Energy Astrophysical Phenomena, Astrophysics::Instrumentation and Methods for Astrophysics, Astronomy, FOS: Physical sciences, Cosmic ray, 01 natural sciences, Universe, Neutron star, 0103 physical sciences, Neutrino, Neutrino astronomy, Astrophysics - High Energy Astrophysical Phenomena, 010303 astronomy & astrophysics, media_common
Abstract

The observation of electromagnetic radiation from radio to $\gamma$-ray wavelengths has provided a wealth of information about the universe. However, at PeV (10$^{15}$ eV) energies and above, most of the universe is impenetrable to photons. New messengers, namely cosmic neutrinos, are needed to explore the most extreme environments of the universe where black holes, neutron stars, and stellar explosions transform gravitational energy into non-thermal cosmic rays. The discovery of cosmic neutrinos with IceCube has opened this new window on the universe. In this white paper, we present an overview of a next-generation instrument, IceCube-Gen2, which will sharpen our understanding of the processes and environments that govern the universe at the highest energies. IceCube-Gen2 is designed to: 1) Resolve the high-energy neutrino sky from TeV to EeV energies; 2) Investigate cosmic particle acceleration through multi-messenger observations; 3) Reveal the sources and propagation of the highest energy particles in the universe; 4) Probe fundamental physics with high-energy neutrinos. IceCube-Gen2 will increase the annual rate of observed cosmic neutrinos by a factor of ten compared to IceCube, and will be able to detect sources five times fainter than its predecessor. Furthermore, through the addition of a radio array, IceCube-Gen2 will extend the energy range by several orders of magnitude compared to IceCube. Construction will take 8 years and cost about \$350M. The goal is to have IceCube-Gen2 fully operational by 2033. IceCube-Gen2 will play an essential role in shaping the new era of multi-messenger astronomy, fundamentally advancing our knowledge of the high-energy universe. This challenging mission can be fully addressed only in concert with the new survey instruments across the electromagnetic spectrum and gravitational wave detectors which will be available in the coming years., Comment: 56 pages, 29 figures

Published
2020
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34. IceCube Search for High-Energy Neutrino Emission from TeV Pulsar Wind Nebulae

Author

C. Haack, Immacolata Carmen Rea, Emily Dvorak, K.-H. Becker, K. Hoshina, Yiqian Xu, Matt Dunkman, K. Mase, Yuya Makino, Minjin Jeong, Timothyblake Watson, Thomas Meures, B. Relethford, E. Cheung, Saskia Philippen, M. J. Weiss, Konstancja Satalecka, Theo Glauch, L. Rauch, U. Katz, Thomas Stuttard, S. De Ridder, Jeffrey Lazar, P. B. Price, D. Heereman, S. Yoshida, D. B. Fox, S. Kopper, Sarah Pieper, K. Jero, N. L. Strotjohann, Hermann Kolanoski, Dirk Ryckbosch, Stef Verpoest, Colin Turley, Felix Henningsen, M. Zöcklein, René Reimann, C. Alispach, Lenka Tomankova, T. Grégoire, Timo Karg, A. Steuer, Stephan Meighen-Berger, Janet Conrad, Thomas Ehrhardt, Frank G. Schröder, A. R. Fazely, M. Silva, Francesco Lucarelli, Raamis Hussain, R. Cross, A. Obertacke Pollmann, E. Pinat, T. O. B. Schmidt, Johannes Werthebach, M. Usner, Kael Hanson, Karl J. Clark, Maximilian Meier, S. Hickford, R. Joppe, Delia Tosi, Sebastian Baur, Chujie Chen, A. Weindl, Maryon Ahrens, Frederik Tenholt, R. Nagai, K. Helbing, Won Nam Kang, X. Bai, G. Neer, Simona Toscano, P. Heix, R. Maunu, J. Lünemann, William Luszczak, S. Tilav, M. Medici, Christian Spiering, L. Wills, P. Muth, P. Schlunder, Daria Pankova, E. Friedman, R. S. Busse, M. Song, T. L. Carver, Mike Richman, Amirreza Raissi, Federica Bradascio, Alexander Burgman, T. R. Wood, Ramesh Koirala, J. P. Yanez, Karim Ghorbani, Spencer Axani, Christopher Wiebusch, Kunal Deoskar, Paolo Desiati, Chris Weaver, Stephanie Bron, Kurt Woschnagg, C. J. Lozano Mariscal, G. Merino, Tim Ruhe, Justin Vandenbroucke, H. Bagherpour, Alexander Sandrock, J. L. Kelley, Markus Ahlers, Martin Rongen, George Japaridze, Roger Moore, A. Ludwig, Olga Botner, Paul Evenson, M. G. Aartsen, N. Wandkowsky, H. Dujmovic, Merlin Schaufel, M. Stamatikos, E. Blaufuss, Ioana Codrina Maris, L. Wille, H. Niederhausen, Carlos Arguelles, Ibrahim Safa, V. Baum, Jessie Micallef, L. Classen, Damian Pieloth, Ali Kheirandish, N. Kurahashi, J. Bourbeau, D. Kang, Todor Stanev, K. Tollefson, Surujhdeo Seunarine, Albrecht Karle, D. van Eijk, Christoph Raab, Nadège Iovine, P. Mallik, Simone Garrappa, Dmitry Chirkin, S. C. Nowicki, W. Van Driessche, C. Wendt, Alexander Kappes, Erik Ganster, K. Mallot, R. Morse, James W. Wood, Z. Griffith, Jakob Bottcher, D. Berley, G. C. Hill, Bunheng Ty, R. Snihur, T. Montaruli, Jannes Brostean-Kaiser, Juanan Aguilar, G. de Wasseige, G. W. Sullivan, K. Rawlins, Donglian Xu, Seongjin In, B. J. P. Jones, Ralph Engel, Moritz Kellermann, Elisa Resconi, I. Taboada, Samvel Ter-Antonyan, Elisa Lohfink, James E. Braun, Gisela Anton, James Madsen, Lu Lu, Alessio Porcelli, T. Kintscher, Frederik Hermann Lauber, Giovanni Renzi, A. Goldschmidt, D. Hebecker, Qinrui Liu, R. Hoffmann, T. Glüsenkamp, Le Viet Nguyen, L. Köpke, D. Seckel, S. Fahey, Michael O. Wolf, Alexander Fritz, D. Z. Besson, Martina Karl, A. Wallace, A. Terliuk, Paul Coppin, Andrea Turcati, Justin Lanfranchi, J. van Santen, Mehr Nisa, Jochen M. Schneider, B. J. Whelan, Claudio Kopper, A. Ishihara, Tyce DeYoung, Andres Medina, Alexander Trettin, Nathan Whitehorn, Alex Pizzuto, D. R. Nygren, Gerald Przybylski, S. E. Sanchez Herrera, M. A. Unland Elorrieta, Gary Binder, R. Halliday, A. Haungs, C. Pérez de los Heros, K. Krings, D. Mockler, Nahee Park, K. Hultqvist, M. Wallraff, Darren Grant, Kendall Mahn, C. Walck, Alan Coleman, E. O’Sullivan, T. Anderson, Marek Kowalski, J. C. Gallagher, M. Plum, Subir Sarkar, Jan Weldert, Thomas K. Gaisser, G. B. Yodh, A. Kyriacou, Gerrit Wrede, K. Meagher, L. Halve, Philipp Eller, Thomas Huber, Allan Hallgren, Benjamin Hokanson-Fasig, Yang Lyu, Elisa Bernardini, J. Auffenberg, Chunfai Tung, J. Becker Tjus, J. Felde, J. Buscher, D. Rysewyk Cantu, Jenni Adams, P. Peiffer, Joshua Hignight, Timo Sturwald, H. Schieler, Kirill Filimonov, K. Wiebe, Steven Robertson, R. G. Stokstad, Segev BenZvi, Shefali Shefali, Spencer Klein, Abdul Rehman, Carsten Rott, Kara Hoffman, Javier Gonzalez, Roxanne Turcotte, Giorgio Maggi, Matthias Vraeghe, C. De Clercq, Hershal Pandya, Wolfgang Rhode, David A. Williams, Xianwu Xu, Robert Stein, J. Sandroos, Markus Ackermann, S. W. Barwick, C. Bohm, J. Kim, Daniel Bindig, K. D. de Vries, N. Kulacz, Brian Clark, Chad Finley, Christoph Tönnis, Pranav Dave, M. Günder, T. Stezelberger, G. H. Collin, Sarah Mancina, Anna Franckowiak, Tobias Hoinka, Kayla Leonard, Steve Sclafani, Jan Soedingrekso, Francis Halzen, J. Kiryluk, K. Andeen, I. Ansseau, G. Krückl, Juliana Stachurska, Alejandro Diaz, Pablo Correa, H. Dembinski, M. Kauer, Suyong Choi, David Kappesser, R. Hellauer, Matti Jansson, T. Palczewski, Sebastian Böser, Benjamin Bastian, Anastasia Maria Barbano, T. Kittler, B. Eberhardt, M. E. Huber, Marcos Santander, L. Gerhardt, A. Olivas, M. J. Larson, Wing Yan Ma, James DeLaunay, Marjon Moulai, J. J. Beatty, Tianlu Yuan, F. McNally, A. Stößl, Reina H. Maruyama, Summer Blot, F. Jonske, L. Schumacher, F. Huang, Mehmet Gunduz, Agnieszka Leszczyńska, R. C. Bay, Austin Schneider, Juan Carlos Diaz-Velez, Glenn Spiczak, G. Momenté, M. Rameez, D. F. Cowen, U. Naumann, E. Unger, A. O'Murchadha, Max Renschler, D. J. Koskinen, E. Bourbeau, Spencer Griswold, Maria Tselengidou, D. Soldin, J. Stettner, Mirco Hunnefeld, Marie Oehler, N. van Eijndhoven, Physics, Faculty of Sciences and Bioengineering Sciences, Vriendenkring VUB, and Elementary Particle Physics

Subjects
010504 meteorology & atmospheric sciences, High-energy astronomy, Astrophysics::High Energy Astrophysical Phenomena, Neutrino astronomy, High energy astrophysics, FOS: Physical sciences, Cosmic ray, Astrophysics, Astrophysics::Cosmology and Extragalactic Astrophysics, 01 natural sciences, 7. Clean energy, Pulsar, 0103 physical sciences, 010303 astronomy & astrophysics, Astrophysics::Galaxy Astrophysics, 0105 earth and related environmental sciences, Physics, High Energy Astrophysical Phenomena (astro-ph.HE), astro-ph.HE, Astronomy and Astrophysics, Galactic plane, COSMIC-RAYS, CRAB-NEBULA, Crab Nebula, Physics and Astronomy, 13. Climate action, Space and Planetary Science, GALACTIC SOURCES, DISCOVERY, Physique des particules élémentaires, High Energy Physics::Experiment, Neutrino, Astrophysics - High Energy Astrophysical Phenomena, GAMMA-RAY EMISSION, Lepton
Abstract

Pulsar wind nebulae (PWNe) are the main gamma-ray emitters in the Galactic plane. They are diffuse nebulae that emit nonthermal radiation. Pulsar winds, relativistic magnetized outflows from the central star, shocked in the ambient medium produce a multiwavelength emission from the radio through gamma-rays. Although the leptonic scenario is able to explain most PWNe emission, a hadronic contribution cannot be excluded. A possible hadronic contribution to the high-energy gamma-ray emission inevitably leads to the production of neutrinos. Using 9.5 yr of all-sky IceCube data, we report results from a stacking analysis to search for neutrino emission from 35 PWNe that are high-energy gamma-ray emitters. In the absence of any significant correlation, we set upper limits on the total neutrino emission from those PWNe and constraints on hadronic spectral components., SCOPUS: ar.j, info:eu-repo/semantics/published

Published
2020
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36. Two Cases of Ectopic Lingual Thyroid

Author

Muneki Hotomi, Naoko Kumashiro, Keisuke Enomoto, Takashi Ozaki, Sachiko Hayata, and Mehmet Gunduz

Subjects
Pathology, medicine.medical_specialty, Otorhinolaryngology, business.industry, medicine, Lingual thyroid, business
Published
2019
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38. Investigating myelin oligodendrocyte glycoprotein antibodies in hereditary citrullinemia

Author

Ibrahim Oncel, Mohammadreza Yousefi, Asli Inci, Zumrut Arslan Gulten, Pelin Teke Kisa, Meryem Karaca, Özlem Unal, Mehmet Gunduz, Deniz Kor, Neslihan Onenli Mungan, Nur Arslan, Leyla Tumer, Kivilcim Gucuyener, Atay Vural, and Banu Anlar

Subjects
immune system diseases, General Medicine
Abstract

Metabolites like lipids, amino acids or peptides can affect the immune system. Citrulline is an amino acid that activates several inflammatory pathways. Serum citrulline levels are markedly elevated in hereditary citrullinemia type 1 (CTLN1), and cases with CTLN1 have have been described with inflammatory lesions of the central nervous system (CNS). This suggests the presence of a relatively proinflammatory state in CTLN1. We therefore tested sera of CTLN1 patients for anti-myelin oligodendrocyte glycoprotein (MOG) antibodies which are a frequent cause of inflammatory CNS disorders in young patients. Patients with CTLN1 (n = 15) and control groups consisting of phenylketonuria (n = 22), juvenile idiopathic arthritis (n = 13), pediatric onset systemic lupus erythematosus (n = 17) and healthy controls (n = 48) were tested for serum anti-MOG IgG and anti-MOG IgG1 antibodies in a live-cell based assay. Serum citrulline levels were elevated in 14/15 CTLN1 patients at the time of the study. No clear anti-MOG IgG positivity was detected in any of the CTLN1 or control groups. One CTLN1 and one healthy control case with anti-MOG IgG titers close to borderline were also tested for MOG-specific IgG1, with similar results. These findings did not support the role of elevated serum citrulline levels in facilitating antibody response against MOG. Other pathways that can be investigated in CTLN1 include lymphocytic responses against neural antigens or any direct effects of citrulline on neural tissue.

Published
2022
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39. Role of Surrogate Markers of Atherosclerosis in Clinical and Subclinical Thyroidism

Author

Mehmet Gunduz, Ercan Gunduz, Fatih Kircelli, Nazan Okur, and Mesut Ozkaya

Subjects
Diseases of the endocrine glands. Clinical endocrinology, RC648-665
Abstract

Background. Data on the relationship between homocysteine, plasminogen activator inhibitor 1, hs-CRP, fibrinogen, and carotid intima media thickness (CA-IMT) is plenty but contradicting and the majority of the studies investigated this issue in only specific thyroidism groups. The aim of this paper was to investigate these relations in patients with subclinical and clinical hypo- and hyperthyroidism. Methods. In this cross-sectional study, 16 patients from each thyroidism group and 20 healthy cases were enrolled. Fibrinogen levels and plasminogen activator inhibitor 1 (PAI-1) activity were assessed. CA-IMT was determined by gray-scale high-resolution color Doppler ultrasound. Results. Serum homocysteine levels were higher in hypothyroidic patients compared to the control (𝑃=0.003). Fibrinogen levels were higher in patients with subclinical hypothyroidism compared to other groups (𝑃

Published
2012
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40. Gene Expression Profiles of Tumor Necrosis Factor-α and Endothelin-1 in Obstructive Sleep Apnea

Author

Mehmet Gunduz, Murat Oznur, Kadriye Serife Ugur, Aydın Köşüş, Duygu Ozol, Elif Dağlı, Muradiye Acar, TOBB ETÜ, Tıp Fakültesi, Cerrahi Tıp Bilimleri Bölümü, TOBB ETU, Faculty of Medicine, Department of Surgical Sciences, and Uğur, Kadriye Şerife

Subjects
Adult, Male, medicine.medical_specialty, Polysomnography, 0211 other engineering and technologies, 02 engineering and technology, 01 natural sciences, Gastroenterology, Body Mass Index, EDN-1, Pathogenesis, Young Adult, 010104 statistics & probability, Internal medicine, Gene expression, medicine, Humans, Prospective Studies, RNA, Messenger, 0101 mathematics, Aged, Aged, 80 and over, Sleep Apnea, Obstructive, 021103 operations research, Endothelin-1, medicine.diagnostic_test, Tumor Necrosis Factor-alpha, business.industry, Middle Aged, medicine.disease, Obstructive sleep apnea, Endothelin 1, nervous system diseases, respiratory tract diseases, Cross-Sectional Studies, POLYMORPHISM, PATHOGENESIS, INFLAMMATION, ASSOCIATION, Otorhinolaryngology, Apnea–hypopnea index, Case-Control Studies, Female, Tumor necrosis factor alpha, Endothelin receptor, business, TNF-alpha
Abstract

Background/Aims: The aim of this study was to observe the relationship between the gene expression profiles of tumor necrosis factor (TNF)-α and endothelin (EDN)-1 and obstructive sleep apnea (OSA). Methods: A prospective, cross-sectional study performed at a tertiary-care academic center; 108 patients with snoring and day-time sleeplessness were included in this study carried out in the Otolaryngology Department. All patients were evaluated with 1-night polysomnography (PSG). There were 63 patients with OSA and 45 patients without OSA. In the OSA group, the median apnea hypopnea index (AHI) was 29.1; in the non-OSA group, the median AHI was 2.1. Blood samples were obtained from all 108 patients for the genetic analysis of the expression of TNF-α and EDN-1. PSG findings and gene expression levels were evaluated in both groups. Results: The median (range) age was 46 (20–81) years, BMI 24.9 (15–49), EDN-1 gene expression 0.45 (0.02–67.88) pg/µL, and TNF-α gene expression 1.71 (0.08–59.52) pg/µL. We found that EDN-1 and TNF-α gene expression levels were significantly higher in the OSA group than in the control group (p = 0.009 vs. p < 0.001). Conclusion: EDN-1 and TNF-α gene expression levels were associated with the occurrence of OSA.

Published
2018
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41. Paroxysmal Nocturnal Hemoglobinuria Refractory Anemia

Author

Yasin Ertug Cekdemir, Hasan Ergenç, Ali Tamer, Aysin Tulunay, Demet Çekdemir, Aysenur Ucar, Zeynep Kahyaoğlu, Hakan Cinemre, Mehmet Gunduz, and Cengiz Karacaer

Subjects
medicine.medical_specialty, business.industry, Internal medicine, Paroxysmal nocturnal hemoglobinuria, medicine, Refractory anemia, medicine.disease, business, Gastroenterology
Published
2019
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44. LeptonInjector and LeptonWeighter: A neutrino event generator and weighter for neutrino observatories

Author

Janet Conrad, R. Cross, D. Hebecker, William Luszczak, K.-H. Becker, Yiqian Xu, Matt Dunkman, Ioana Codrina Maris, Thomas Stuttard, Christian Spiering, Thomas Ehrhardt, Sarah Pieper, A. Kyriacou, Ken'ichi Kin, Christoph Raab, Nadège Iovine, Dirk Ryckbosch, S. De Ridder, Stephan Meighen-Berger, D. Berley, G. C. Hill, Bunheng Ty, Paul Coppin, Justin Vandenbroucke, Andrea Turcati, J. Becker Tjus, J. J. Beatty, Christian Haack, Tianlu Yuan, M. J. Larson, Ralph Engel, Moritz Kellermann, F. McNally, Wing Yan Ma, Emma C. Hettinger, Reina H. Maruyama, A. Obertacke Pollmann, Summer Blot, Frank G. Schröder, U. Katz, Giovanni Renzi, Damian Pieloth, Ali Kheirandish, T. Gregoire, James DeLaunay, Marjon Moulai, S. Fahey, M. Kauer, Tyce DeYoung, Abhishek Desai, J. Werthebach, D. B. Fox, J. van Santen, J. L. Kelley, Markus Ahlers, Suyong Choi, Alex Pizzuto, Jannes Brostean-Kaiser, Nathan Whitehorn, Immacolata Carmen Rea, David Kappesser, Jan Soedingrekso, Brandom Pries, L. Schumacher, Maximilian Karl Scharf, S. C. Nowicki, Gary Binder, Karl J. Clark, D. van Eijk, Shefali Shefali, P. B. Price, Matti Jansson, A. Franckowiak, Hermann Kolanoski, M. U. Nisa, Mehmet Gunduz, Agnieszka Leszczyńska, R. C. Bay, Abdul Rehman, Francesco Lucarelli, Carsten Rott, Chujie Chen, Austin Schneider, George Japaridze, Juan Carlos Diaz-Velez, Roger Moore, L. Köpke, Mark Weyrauch, Stef Verpoest, Aaron Fienberg, Timo Karg, D. Tosi, Y. L. Li, Amirreza Raissi, T. O. B. Schmidt, Paras Koundal, Mike Richman, N. van Eijndhoven, Erik Ganster, Y. Makino, P. Peiffer, Johan Wulff, A. Weindl, Segev BenZvi, Elisa Lohfink, Timothyblake Watson, J. Bourbeau, Nora Valtonen-Mattila, Michael Kovacevich, M. E. Huber, Spencer Klein, Javier Gonzalez, Roxanne Turcotte, Maryon Ahrens, Samvel Ter-Antonyan, Kurt Woschnagg, Marcos Santander, Richard Naab, S. Tilav, Daria Pankova, L. Gerhardt, G. Krückl, Konstancja Satalecka, A. Olivas, Alexander Fritz, D. Z. Besson, Stephanie Bron, E. Friedman, Paul Evenson, Frederik Tenholt, R. Nagai, C. De Clercq, C. Lagunas Gualda, Y. Popovych, C. J. Lozano Mariscal, C. Weaver, Martin Rongen, Theo Glauch, Alejandro Diaz, Michael DuVernois, Seongjin In, Elisa Resconi, Alessio Porcelli, H. Dujmovic, Matthias Vraeghe, Rasha Abbasi, B. J. Whelan, Kara Hoffman, J. Kim, G. W. Sullivan, James E. Braun, T. Kintscher, Simone Garrappa, Xianwu Xu, J. Sandroos, Dmitry Chirkin, Alexander Kappes, K. Rawlins, J. P. Yanez, G. H. Collin, J. Evans, Alan Coleman, David A. Williams, Markus Ackermann, S. W. Barwick, Philipp Furst, Zhedong Zhang, Ava Ghadimi, F. Huang, Emily Dvorak, Hershal Pandya, Frederik Hermann Lauber, R. S. Busse, Surujhdeo Seunarine, R. Snihur, K. Tollefson, E. O'Sullivan, R. Morse, Jakob Bottcher, T. Montaruli, Jan Weldert, Wolfgang Rhode, Robert Stein, Alexander Trettin, N. Kurahashi, Christopher Wiebusch, Kunal Deoskar, Juanan Aguilar, L. Halve, Franziska Tischbein, Justin Lanfranchi, M. Ha Minh, C. Wendt, P. Mallik, M. Stamatikos, K. Meagher, C. Pérez de los Heros, Gerald Przybylski, A. Karle, James Madsen, Chad Finley, Daniel Bindig, R. Halliday, B. J. P. Jones, G. de Wasseige, A. Wallace, Kayla Leonard, Ben Smithers, P. Eller, Simeon Reusch, Lu Lu, T. Anderson, J. C. Gallagher, A. Sharma, Sukeerthi Dharani, Christoph Tönnis, R. Hoffmann, John Hardin, Jean Pierre Twagirayezu, A. Ishihara, Tim Ruhe, A. Haungs, Rui An, Nahee Park, A. Ludwig, Francis Halzen, J. Merz, D. Rysewyk Cantu, C. Walck, Elisa Bernardini, Gerrit Wrede, T. Stanev, K. Hultqvist, Benedikt Riedel, D. Seckel, K. Mase, Andres Medina, Darren Grant, Benjamin Hokanson-Fasig, I. Ansseau, D. Mockler, Thomas Huber, Thomas K. Gaisser, Chiara Bellenghi, Yang Lyu, T. Glüsenkamp, Grant Parker, Jenni Adams, M. Meier, Michael Campana, H. Niederhausen, H. Schieler, Ek Narayan Paudel, Allan Hallgren, Colin Turley, Saskia Philippen, Juliana Stachurska, H. Dembinski, K. Helbing, A. Steuer, Kendall Mahn, A. Goldschmidt, Alexander A. Harnisch, Kirill Filimonov, Kael Hanson, Spencer Axani, Christian Glaser, K. Wiebe, Barbara Skrzypek, S. E. Sanchez Herrera, Stephen L. Hauser, M. J. Weiss, R. G. Stokstad, Lenka Tomankova, Carlos Arguelles, Jessie Micallef, Jannis Necker, Raamis Hussain, D. Kang, M. Silva, I. Taboada, Najia Moureen Binte Amin, Federica Bradascio, Alexander Burgman, J. P. Lazar, Michael O. Wolf, M. Prado Rodriguez, Clara E. Hill, S. Kopper, Paolo Desiati, K. D. de Vries, S. Hickford, I. Safa, Pranav Dave, René Reimann, Merlin Schaufel, Minjin Jeong, Leander Fischer, Qinrui Liu, R. Joppe, Martina Karl, Jochen M. Schneider, Srubabati Goswami, M. A. Unland Elorrieta, Sebastian Baur, Sebastian Fiedlschuster, D. R. Nygren, Marek Kowalski, Olga Botner, V. Baum, T. Stezelberger, S. Yoshida, Won Nam Kang, Sarah Mancina, X. Bai, Tobias Hoinka, Vedant Basu, Steve Sclafani, J. Kiryluk, K. Andeen, A.A. Alves, Alexander Sandrock, Pablo Correa, B. A. Clark, P. Schlunder, Sebastian Böser, Benjamin Bastian, Anastasia Maria Barbano, Gisela Anton, Max Renschler, Chunfai Tung, D. J. Koskinen, S. Robertson, E. Bourbeau, Joshua Hignight, Spencer Griswold, Maria Tselengidou, D. Soldin, Ramesh Koirala, E. Blaufuss, L. Classen, K. Hoshina, Glenn Spiczak, G. Momenté, M. Rameez, D. F. Cowen, U. Naumann, David Vannerom, Le Viet Nguyen, K. Krings, J. Stettner, M. Plum, Gerrit Roellinghoff, Mirco Hunnefeld, Marie Oehler, Z. Griffith, Xinyue Kang, Claudio Kopper, Subir Sarkar, Felix Henningsen, A. R. Fazely, Simona Toscano, C. Alispach, Physics, Faculty of Sciences and Bioengineering Sciences, Elementary Particle Physics, and Vriendenkring VUB

Subjects
Particle physics, Physics::Instrumentation and Detectors, Computer science, Astrophysics::High Energy Astrophysical Phenomena, FOS: Physical sciences, General Physics and Astronomy, CHERENKOV LIGHT YIELD, Weighting, 01 natural sciences, High Energy Physics - Experiment, 010305 fluids & plasmas, Standard Model, High Energy Physics - Experiment (hep-ex), Neutrino interaction, High Energy Physics - Phenomenology (hep-ph), 0103 physical sciences, 010306 general physics, Cherenkov radiation, Event generator, Neutrino generator, Neutrino simulation, Generator (computer programming), hep-ex, Event (computing), ICE, High Energy Physics::Phenomenology, Detector, hep-ph, Computational Physics (physics.comp-ph), Quantitative Biology::Genomics, High Energy Physics - Phenomenology, physics.comp-ph, Hardware and Architecture, High Energy Physics::Experiment, Neutrino, Physics - Computational Physics, Lepton
Abstract

We present a high-energy neutrino event generator, called LeptonInjector, alongside an event weighter, called LeptonWeighter. Both are designed for large-volume Cherenkov neutrino telescopes such as IceCube. The neutrino event generator allows for quick and flexible simulation of neutrino events within and around the detector volume, and implements the leading Standard Model neutrino interaction processes relevant for neutrino observatories: neutrino-nucleon deep-inelastic scattering and neutrino-electron annihilation. In this paper, we discuss the event generation algorithm, the weighting algorithm, and the main functions of the publicly available code, with examples., Comment: 28 pages, 10 figures, 3 tables

Published
2021
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45. Evaluation of Monocyte to High-Density Lipoprotein Cholesterol Ratio in the Presence and Severity of Metabolic Syndrome

Author

Gülten Tarhan, Mustafa Karagulle, Ali Ugur Uslu, Nuray Canakcı, Yahya Sekin, and Mehmet Gunduz

Subjects
Adult, Male, medicine.medical_specialty, 030204 cardiovascular system & hematology, Logistic regression, Gastroenterology, Sensitivity and Specificity, Severity of Illness Index, Monocytes, 03 medical and health sciences, chemistry.chemical_compound, 0302 clinical medicine, High-density lipoprotein, Internal medicine, medicine, Humans, 030212 general & internal medicine, National Cholesterol Education Program, Retrospective Studies, marker, Inflammation, Metabolic Syndrome, monocyte to high-density lipoprotein cholesterol ratio, Cholesterol, business.industry, Monocyte, Cholesterol, HDL, Retrospective cohort study, Hematology, General Medicine, Original Articles, Middle Aged, medicine.disease, medicine.anatomical_structure, chemistry, Case-Control Studies, Population study, Female, Metabolic syndrome, business, Biomarkers
Abstract

Monocyte to high-density lipoprotein cholesterol ratio (MHR) is a systemic inflammatory marker, and recently, it has been used quite commonly for the assessment of inflammation in cardiovascular disorders. The aim of the present study is to investigate the relevance of MHR as a marker to assess metabolic syndrome (MetS) and MetS severity in clinical practice. A total of 147 patients with MetS who were diagnosed according to National Cholesterol Education Program Adult Treatment Panel III criteria and 134 healthy controls, matched for age and gender, were included in our retrospective study. MHR values were 13.15 ± 6.07 for patients with MetS and 9.74 ± 5.24 for the control group. MHR values of the patients were found to be statistically significantly higher than the control group ( P < .0001). MHR showed a significantly positive correlation with the severity of MetS ( r = .429; P < .0001). When patients with MetS were assessed with MHR in the study population, receiver–operating characteristic curve analysis yielded a cutoff value of 9.36 with a sensitivity of 72%, a specificity of 61%, and a P value

Published
2017

46. Allogeneic Transplantation in Chronic Myeloid Leukemia and the Effect of Tyrosine Kinase Inhibitors on Survival: A Quasi-Experimental Study

Author

Bengi Ozturk, Hamdi Akan, Taner Demirer, Pervin Topcuoglu, Gülşen Bolat, Osman Ilhan, Gunhan Gurman, Mutlu Arat, Celalettin Ustun, Mehmet Gunduz, Muhit Ozcan, Erden Atilla, Meral Beksac, Onder Arslan, and Mehmet Ozen

Subjects
Oncology, Male, Non-Randomized Controlled Trials as Topic, medicine.medical_treatment, Hematopoietic stem cell transplantation, 0302 clinical medicine, Recurrence, hemic and lymphatic diseases, Medicine, Chronic myeloid leukemia, Hematopoietic Stem Cell Transplantation, Myeloid leukemia, lcsh:Diseases of the blood and blood-forming organs, Hematology, Middle Aged, Hematologic remission, Leukemia, Treatment Outcome, 030220 oncology & carcinogenesis, Female, Research Article, Adult, Risk, lcsh:Internal medicine, medicine.medical_specialty, Allogeneic transplantation, Adolescent, Disease-Free Survival, 03 medical and health sciences, Young Adult, Sex Factors, Internal medicine, Leukemia, Myelogenous, Chronic, BCR-ABL Positive, CD135, Humans, Transplantation, Homologous, lcsh:RC31-1245, Protein Kinase Inhibitors, Neoplasm Staging, Tyrosine kinase inhibitors, lcsh:RC633-647.5, business.industry, medicine.disease, Confidence interval, respiratory tract diseases, Transplantation, Relative risk, business, 030215 immunology
Abstract

Tyrosine kinase inhibitors (TKIs) have changed the indications for allogeneic hematopoietic stem cell transplantation (allo-HSCT) in chronic myeloid leukemia (CML). Therefore, we aimed to evaluate the effect of TKIs on allo-HSCT in CML.In this quasi-experimental study, we compared patient, disease, and transplantation characteristics as well as allo-HSCT outcomes between the pre-TKI era (before 2002) and the post-TKI era (2002 and later) in patients with CML. A total of 193 allo-HSCTs were performed between 1989 and 2012.Patients in the post-TKI era had more advanced disease (chronic phase 1) at the time of transplant and more frequently received reduced-intensity conditioning compared to patients in the pre-TKI era. Relapse/progression occurred more frequently in the year ≥2002 group than in the year2002 group (48% vs. 32% at 5 years, p=0.01); however, overall survival (OS) was similar in these two groups (5-year survival was 50.8% vs. 59.5%, respectively; p=0.3). TKIs (with donor lymphocyte infusions or alone) for treatment of relapse after allo-HSCT were available in the post-TKI era and were associated with improved OS. While the rates of hematologic remission at 3 months after allo-HSCT were similar between TKI eras, patients having remission had better disease-free survival (DFS) [relative risk (RR): 0.15, confidence interval (CI) 95%: 0.09-0.24, p0.001] and OS (RR: 0.14, CI 95%: 0.09-0.23, p0.001). Male allo-HSCT recipients had worse DFS (RR: 1.7, CI 95%: 1.2-2.5, p=0.007) and OS (RR: 1.7, CI 95%: 1.1-2.6, p=0.02) than females.TKIs are an effective option for the treatment of relapse after allo-HSCT in CML. Hematologic remission after allo-HSCT is also an important factor for survival in CML patients.Amaç: Tirozin kinaz inhibitörleri (TKİ) kronik myeloid lösemide (KML) allojenik hematopoetik kök hücre nakli (AHKHN) endikasyonlarını değiştirdi. Bu nedenle de biz KML’de TKİ’nin AHKHN üzerine etkisini değerlendirmeyi amaçladık. Gereç ve Yöntemler: Bu öncesi-sonrası çalışmasında KML’li hastalarda TKİ öncesi dönem (yıl2002) ve TKİ sonrası dönem (yıl ≥2002) arasında hasta, hastalık ve nakil karakteristikleri ile AHKHN sonuçlarını kıyasladık. Toplamda 193 AHKHN, 1989 ve 2012 arasında yapıldı. Bulgular: TKİ sonrası dönemdeki hastalar, TKİ öncesi döneme göre nakil sırasında daha ileri hastalığa (kronik faz 1’den ileri) sahipti ve daha sık azaltılmış yoğunluklu hazırlık rejimi aldı. Relaps/progresyon ≥2002 grupta2002 grubundan daha fazlaydı (5 yıllık %32’ye karşın %48; p=0,01); bununla birlikte toplam sağkalım (TS) bu iki grupta benzerdi (5-yıllık-sağkalım sırasıyla %50,8’e karşın %59,5; p=0,3). TKİ tedavisi (verici lenfosit infüzyonu ile birlikte veya tek başına) AHKHN sonrası relaps tedavisinde TKİ sonrası dönemde mevcuttu ve artmış TS ile ilişkiliydi. AHKHN sonrası 3. aydaki hematolojik remisyon oranları TKİ dönemleri arasında benzer iken; remisyonda olan hastalar daha iyi hastalıksız sağkalıma (HsS) [Göreceli risk (GR): 0,15; %95 güven aralığı (GA): 0,09-0,24; p0,001] ve TS’ye sahipti (GR: 0,14; %95 GA: 0,09-0,23; p0,001). Erkek AHKHN alıcılarının HsS (GR: 1,7; %95 GA: 1,2-2,5; p=0,007) ve TS’leri (GR: 1,7; %95 GA: 1,1-2,6; p=0,02) kadınlardan daha kötüydü. Sonuç: TKİ, KML’de AHKHN sonrası relapsın tedavisinde etkin bir seçenektir. AHKHN sonrası hematolojik remisyon da KML hastalarında sağkalımda önemli bir faktördür.

Published
2017

47. Comparison of Two Alkylating Agents Among Refractory Multiple Myeloma: Published and Our Retrospective Bendamustine Combination Experience with Melflufen As Single Agent

Author

Erden Atilla, Muhit Ozcan, Sevgi Çolak, Ekin Kircali, Mehmet Ozen, Pinar Ataca Atilla, Guldane Cengiz, Mehmet Gunduz, and Meral Beksac

Subjects
Oncology, Bendamustine, medicine.medical_specialty, business.industry, Immunology, Refractory Multiple Myeloma, Cell Biology, Hematology, Biochemistry, Internal medicine, Medicine, Single agent, business, medicine.drug
Abstract

Introduction: Bendamustine is a synthetic alkylating agent made of both mustard and benzimidazole groups. It is used mainly in myeloma patients who have run out of classical treatment options and yet, have eligible performance status. Although data is still accumulating, there is not enough information to recommend a certain standard bendamustine dose or regimen in multiple myeloma. Melflufen is also an alkylator that is activated once metabolized by peptidases [1]. The logic this molecule selects and exterminates myeloma tumor cells by is that, myeloma cells overexpress aminopeptidases. Here, we have compared our and published bendamustine combination with melfufen data. Methods: We retrospectively analyzed our relapsed or refractory multiple myeloma patients who received bendamustine between 2002 and 2020 at Ankara University Medical School. All statistical analyses were performed via SPSS statistics version 20.0 software. After Pubmed search, all published bendamustine combination and melflufen clinical data among relapse refractory myeloma patients were included in the analysis. Results: Female/ male ratio was 14/ 18 (43.7 % / 56.3 %). Median age was 62 (36- 77) years. 22 (68.7 %) patients had Ig G myeloma, 6 (18.7 %) had Ig A myeloma and 4 (12.6 %) had light chain myeloma. ISS scores were as follows: I/ II/ III: 8 (25 %)/ 17 (53.1 %)/ 7 (21.9 %). FISH defined cytogenetics were available for 18 patients; 8 of them had normal chromosome analysis, 3 had only del13q, 1 had tri7. High risk cytogenetics was observed among 6 (33.3 %). R-ISS scores were as follows: I/ II/ III: 4 (22.2 %)/ 12 (66.7 %)/ 2 (11.1 %). Median prior lines of therapy was 3 (1- 6). 30 (93.8 %) patients had a history of bortezomib, 21 (65.6 %) had lenalidomide, 9 (28.1 %) had thalidomide. 21 (65.6 %) patients had undergone high-dose chemotherapy supported by autologous stem cell transplantation before bendamustine. 15 (46.9 %) patients were in treatment- refractory status at bendamustin initiation while 17 (53.1 %) used it for disease progression. Bendamustin was given either with Dexa (n= 13, 40.6 %) Bortezomib+ Dexa (n=6, 18.8 %), Lenalidomide+ Dexa (n=6, 18.8 %), Pomalidomide+ Dexa (n=5, 15.6 %) or Thalidomide+ Dexa (n= 2, 6.3 %). Bendamustine dose was 100- 120 mg/ m2/ day, 2 days monthly. 32 patients were followed up for median 26 months. Response to bendamustine treatment were as follows: Complete remission 4 (12.5 %), very good partial response 12 (37.5 %), partial response 8 (25 %), unresponsive 8 (25 %). Median progression free survival (PFS) was 5.6 (1- 40.6) months and overall survival (OS) was 17.3 (2- 79) months with bendamustine based treatment protocols. 15 (46.9 %) patients suffered grade ≥3 myelosuppression. Febrile neutropenia was experienced by 7 (21.9 %) patients, and 6 (18.7 %) had CMV reactivation during bendamustine treatment. There was no drug related mortality. Conclusion: Although bendamustine is effective among highly refractory myeloma patients, toxicity profile and immune plus myelosuppression prevents long term use. Bendamustine in our experience in combination has provided efficacy comparable to earlier publications. Current single agent Melflufen data in advanced stages may be even more promising if combined with proteasome inhibitors or IMIDs. References 1. Richardson, P.G., et al., Melflufen plus dexamethasone in relapsed and refractory multiple myeloma (O-12-M1): a multicentre, international, open-label, phase 1-2 study. The Lancet Haematology, 2020. 2. Knop, S., et al., The efficacy and toxicity of bendamustine in recurrent multiple myeloma after high-dose chemotherapy. haematologica, 2005. 90(9): p. 1287-1288. 3. Grey-Davies, E., et al., Bendamustine, thalidomide and dexamethasone is an effective salvage regimen for advanced stage multiple myeloma. British journal of haematology, 2012. 156(4): p. 552-555. 4. Damaj, G., et al., Efficacy of bendamustine in relapsed/refractory myeloma patients: results from the French compassionate use program. Leukemia & lymphoma, 2012. 53(4): p. 632-634. 5. Ludwig, H., et al., Bendamustine-bortezomib-dexamethasone is an active and well-tolerated regimen in patients with relapsed or refractory multiple myeloma. Blood, The Journal of the American Society of Hematology, 2014. 123(7): p. 985-991. Disclosures Ozcan: Abdi Ibrahim: Other; Archigen Biotech: Research Funding; Amgen: Honoraria, Other: Travel support; Bristol Myers Squibb: Other: Travel support; Jazz Pharmaceuticals: Other; Sanofi: Other; F. Hoffmann-La Roche Ltd: Other: Travel support, Research Funding; Celgene: Research Funding; MSD: Research Funding; Janssen: Other: Travel support, Research Funding; AbbVie: Other: Travel support, Research Funding; Bayer: Research Funding; Takeda: Honoraria, Other: Travel support, Research Funding.

Published
2020
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48. Postoperative pain management for circumcision; Comparison of frequently used methods

Author

Caglar, Munevveroglu and Mehmet, Gunduz

Subjects
Postoperative pain, Circumcision, CHEOPS, Original Article, Analgesia methods
Abstract

Objective: To determine the ideal method for postoperative pain management after circumcision by comparing the most frequently used different methods like; dorsal penile block, caudal epidural block, subcutaneous ring block, intravenous paracetamol and intravenous tramadol HCl. Methods: Between May 1st 2015 to May 1st 2016, 500 children between 2-10 year old were circumcised at the department of pediatric surgery of Istanbul Medipol University Health Care Practice & Research Center Sefakoy Hospital. Five groups were formed according to postoperative analgesia methods which were planned to be compared; Group-I. penile block, Group-II. Caudal epidural block, Group-III. subcutaneous ring block, Group-IV as intravenous paracetamol and Group-V as intravenous tramadol HCl. In order to evaluate the postoperative pain levels of children, Children’s Hospital Eastern Ontario Pain Scale (CHEOPS) was filled at 30, 60, 120, 180 minutes after circumcision by a researcher who does not know which method was applied. Results: No significant difference is found between the groups (p>0.05). In the statistical analysis, no significant difference was found in the effect of analgesia methods on CHEOPS scores between 30, 60, 120 and 180 minutes (p>0.05). In parallel with this result, no significant difference was found in the effect of heart beat rates and respiration rate averages between 30, 60, 120 and 180 minutes (p>0.05). Conclusion: It has been shown that none of the five method has any superiority in reducing pain after circumcision and that all five methods can be used. However, we think that side effects of regional anesthesia and systemic analgesic applications should not be ignored.

Published
2020

49. A search for time-dependent astrophysical neutrino emission with IceCube data from 2012 to 2017

Author

Alexander Trettin, J. C. Gallagher, Gerrit Wrede, Federica Bradascio, S. Tilav, K. Rawlins, Alexander Burgman, C. J. Lozano Mariscal, K. Helbing, Thomas Huber, Ek Narayan Paudel, Allan Hallgren, J. P. Yanez, H. Dujmovic, D. Tosi, James Madsen, Lu Lu, P. Schlunder, Rasha Abbasi, B. J. Whelan, Won Nam Kang, D. Kang, Elisa Lohfink, X. Bai, I. Safa, A. Wallace, Surujhdeo Seunarine, R. Snihur, Juanan Aguilar, I. Taboada, Michael DuVernois, P. B. Price, Francesco Lucarelli, Merlin Schaufel, Michael O. Wolf, T. O. B. Schmidt, Sarah Mancina, Minjin Jeong, T. Glüsenkamp, Kurt Woschnagg, Simon Hauser, Paul Evenson, K. D. de Vries, Simone Garrappa, M. Meier, David Vannerom, Michael Campana, Dmitry Chirkin, Gerald Przybylski, Alexander Kappes, Jan Weldert, L. Halve, M. Ha Minh, Tobias Hoinka, R. Halliday, Antonio Augusto Alves Jr., A. Ishihara, K. Tollefson, A. Desai, Vedant Basu, Steve Sclafani, M. Stamatikos, B. J. P. Jones, Thomas Ehrhardt, J. Kiryluk, Alexander Sandrock, Kendall Mahn, Gisela Anton, Karl J. Clark, K. Andeen, Christian Haack, C. Pérez de los Heros, Jan Soedingrekso, Frank G. Schröder, Paras Koundal, Mike Richman, Andres Medina, Z. Griffith, A. Goldschmidt, George Japaridze, Saskia Philippen, Pablo Correa, D. Mockler, Simeon Reusch, Michael Kovacevich, Roger Moore, S. Yoshida, B. A. Clark, G. Krückl, Benjamin Hokanson-Fasig, D. Rysewyk Cantu, A. Obertacke Pollmann, U. Katz, K. Hoshina, D. Hebecker, J. Bourbeau, D. R. Nygren, Yang Lyu, Richard Naab, Grant Parker, Lenka Tomankova, Alejandro Diaz, N. van Eijndhoven, D. F. Cowen, Glenn Spiczak, Marek Kowalski, J. L. Kelley, Markus Ahlers, Spencer Axani, Aaron Fienberg, Daria Pankova, E. Friedman, M. Silva, Seongjin In, Elisa Resconi, Alessio Porcelli, E. O'Sullivan, Lisa Johanna Schumacher, Najia Moureen Binte Amin, C. Alispach, Amirreza Raissi, Janet Conrad, Stephanie Bron, Felix Henningsen, M. J. Larson, Le Viet Nguyen, Emily Dvorak, G. Momenté, M. Rameez, M. Prado Rodriguez, Pranav Dave, Carlos Arguelles, K. Wiebe, J. P. Lazar, Clara E. Hill, Erik Ganster, Shefali Shefali, Samvel Ter-Antonyan, A. Steuer, Chunfai Tung, D. B. Fox, Jessie Micallef, Chad Finley, Christoph Tönnis, Raamis Hussain, Abdul Rehman, Carsten Rott, Y. Popovych, K. Krings, Jenni Adams, K. Mase, Alexander A. Harnisch, S. Robertson, Joshua Hignight, R. Cross, Johannes Werthebach, Wing Yan Ma, James DeLaunay, Marjon Moulai, Simona Toscano, Benedikt Riedel, D. Seckel, M. Plum, Y. Makino, Alexander Fritz, D. Z. Besson, Javier Gonzalez, Roxanne Turcotte, M. J. Weiss, R. Morse, Jakob Bottcher, T. Montaruli, S. De Ridder, Xianwu Xu, J. Sandroos, Matthias Vraeghe, Christian Glaser, Brandom Pries, S. Hickford, Paul Coppin, Maximilian Karl Scharf, Xinyue Kang, Olga Botner, S. Kopper, J. Kim, René Reimann, Hermann Kolanoski, R. G. Stokstad, A. V. Balagopal, Andrea Turcati, J. Evans, C. De Clercq, Kael Hanson, U. Naumann, Claudio Kopper, A. Franckowiak, T. Stezelberger, Timo Karg, V. Baum, Leander Fischer, R. Joppe, Stef Verpoest, Jannis Necker, C. Lagunas Gualda, Chujie Chen, T. Gregoire, A. Weindl, Maryon Ahrens, Subir Sarkar, K. Meagher, William Luszczak, P. Peiffer, Daniel Bindig, G. H. Collin, Frederik Tenholt, R. Nagai, Johan Wulff, Timothyblake Watson, Paolo Desiati, C. Weaver, M. E. Huber, Sebastian Baur, Marcos Santander, Ramesh Koirala, Sebastian Fiedlschuster, Alan Coleman, David A. Williams, J. van Santen, J. Stettner, L. Gerhardt, A. Olivas, Konstancja Satalecka, E. Blaufuss, Alex Pizzuto, Markus Ackermann, Theo Glauch, S. W. Barwick, Elisa Bernardini, A. Kyriacou, L. Classen, Gary Binder, D. van Eijk, Sebastian Böser, F. Huang, Gerrit Roellinghoff, J. Becker Tjus, Mark Weyrauch, Kayla Leonard, Y. L. Li, Sukeerthi Dharani, Francis Halzen, J. Merz, Mirco Hunnefeld, Marie Oehler, I. Ansseau, Benjamin Bastian, Anastasia Maria Barbano, Juliana Stachurska, H. Dembinski, G. W. Sullivan, Max Renschler, James E. Braun, D. J. Koskinen, M. Kauer, Suyong Choi, E. Bourbeau, David Kappesser, Matti Jansson, N. Kurahashi, Spencer Griswold, Todor Stanev, C. Wendt, Maria Tselengidou, D. Soldin, Philipp Furst, Mehmet Gunduz, G. de Wasseige, R. Hoffmann, C. Walck, Thomas K. Gaisser, Agnieszka Leszczyńska, R. C. Bay, Tim Ruhe, Austin Schneider, A. Ludwig, H. Niederhausen, Juan Carlos Diaz-Velez, Ken'ichi Kin, J. J. Beatty, Tianlu Yuan, F. McNally, Emma C. Hettinger, Reina H. Maruyama, Summer Blot, Segev BenZvi, Spencer Klein, Kara Hoffman, Hershal Pandya, Wolfgang Rhode, Robert Stein, T. Anderson, John Hardin, Chiara Bellenghi, H. Schieler, Kirill Filimonov, Damian Pieloth, Ali Kheirandish, Jannes Brostean-Kaiser, Ben Smithers, M. U. Nisa, L. Köpke, Jean Pierre Twagirayezu, A. Haungs, Nahee Park, K. Hultqvist, Darren Grant, T. Kintscher, Frederik Hermann Lauber, Justin Lanfranchi, Christian Spiering, Justin Vandenbroucke, S. C. Nowicki, S. E. Sanchez Herrera, K.-H. Becker, Yiqian Xu, Matt Dunkman, Thomas Stuttard, Sarah Pieper, Dirk Ryckbosch, Stephan Meighen-Berger, Qinrui Liu, Martina Karl, Jochen M. Schneider, Srubabati Goswami, M. A. Unland Elorrieta, Martin Rongen, Zhedong Zhang, Ava Ghadimi, Franziska Tischbein, P. Mallik, P. Eller, Colin Turley, R. S. Busse, Christopher Wiebusch, Kunal Deoskar, A. Karle, Ioana Codrina Maris, Christoph Raab, Nadège Iovine, D. Berley, G. C. Hill, Bunheng Ty, Ralph Engel, Moritz Kellermann, Giovanni Renzi, S. Fahey, A. R. Fazely, Tyce DeYoung, Nathan Whitehorn, Immacolata Carmen Rea, Physics, Faculty of Sciences and Bioengineering Sciences, Elementary Particle Physics, and Vriendenkring VUB

Subjects
010504 meteorology & atmospheric sciences, High-energy astronomy, Astrophysics::High Energy Astrophysical Phenomena, media_common.quotation_subject, model [emission], FOS: Physical sciences, Cosmic ray, Astrophysics, 01 natural sciences, law.invention, IceCube Neutrino Observatory, IceCube, blazar, law, emission [gamma ray], 0103 physical sciences, Cosmic ray sources, High-energy astrophysics, Particle astrophysics, energy: high [neutrino], Blazar, 010303 astronomy & astrophysics, 0105 earth and related environmental sciences, media_common, High Energy Astrophysical Phenomena (astro-ph.HE), astro-ph.HE, Astroparticle physics, Physics, background, Astronomy and Astrophysics, Universe, messenger, observatory, Space and Planetary Science, ddc:520, time dependence, acceleration [cosmic radiation], Neutrino, Astrophysics - High Energy Astrophysical Phenomena, Flare
Abstract

High-energy neutrinos are unique messengers of the high-energy universe, tracing the processes of cosmic ray acceleration. This paper presents analyses focusing on time-dependent neutrino point-source searches. A scan of the whole sky, making no prior assumption about source candidates, is performed, looking for a space and time clustering of high-energy neutrinos in data collected by the IceCube Neutrino Observatory between 2012 and 2017. No statistically significant evidence for a time-dependent neutrino signal is found with this search during this period, as all results are consistent with the background expectation. Within this study period, the blazar 3C 279, showed strong variability, inducing a very prominent gamma-ray flare observed in 2015 June. This event motivated a dedicated study of the blazar, which consists of searching for a time-dependent neutrino signal correlated with the gamma-ray emission. No evidence for a time-dependent signal is found. Hence, an upper limit on the neutrino fluence is derived, allowing us to constrain a hadronic emission model.

Published
2020
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50. Neutrinos below 100 TeV from the southern sky employing refined veto techniques to IceCube data

Author

A. O'Murchadha, D. J. Koskinen, Timothyblake Watson, Timo Karg, A. Kyriacou, E. Bourbeau, R. Maunu, C. Pérez de los Heros, T. Menne, Matthias Vraeghe, Maria Tselengidou, E. O’Sullivan, B. Relethford, J. Auffenberg, Raffaela Busse, D. Soldin, K. Rawlins, Claudio Kopper, J. Becker Tjus, Konstancja Satalecka, Subir Sarkar, Z. Griffith, Theo Glauch, R. Hellauer, K. Mallot, B. J. P. Jones, U. Katz, Minjin Jeong, James W. Wood, James Madsen, Thomas Meures, K. Hoshina, M. E. Huber, P. B. Price, Benjamin Hokanson-Fasig, N. L. Strotjohann, Segev BenZvi, Felix Henningsen, Glenn Spiczak, G. Momenté, M. Rameez, Lu Lu, Marcos Santander, R. Ström, Won Nam Kang, A. R. Fazely, H. Bagherpour, E. Pinat, P. Backes, X. Bai, D. van Eijk, Simona Toscano, D. F. Cowen, U. Naumann, K. D. de Vries, Spencer Klein, Andres Medina, Olga Botner, S. Tilav, E. Unger, L. Gerhardt, G. Neer, T. Kintscher, Francesco Lucarelli, Frederik Hermann Lauber, S. Hickford, A. Olivas, J. J. Beatty, Daniel Bindig, J. P. Yanez, N. Kulacz, G. H. Collin, Azadeh Keivani, T. Glüsenkamp, T. O. B. Schmidt, V. Baum, Teresa Montaruli, K. Jero, Tianlu Yuan, Sebastian Böser, C. Chen, Kara Hoffman, Kendall Mahn, K. Wiebe, J. Stettner, Hermann Kolanoski, A. Terliuk, S. Westerhoff, T. R. Wood, Justin Lanfranchi, R. Turcotte, K. Helbing, Yiqian Xu, Karl J. Clark, Matt Dunkman, Hrvoje Dujmovic, Sander Vanheule, Javier Gonzalez, L. Rauch, Anastasia Maria Barbano, Kurt Woschnagg, T. Kittler, G. W. Sullivan, Giorgio Maggi, James E. Braun, Alexander Sandrock, Thomas Ehrhardt, E. Cheung, Thomas Stuttard, H.-P. Bretz, Qinrui Liu, Martina Karl, M. Song, T. L. Carver, Mike Richman, Jochen M. Schneider, Paul Evenson, Hershal Pandya, C. De Clercq, Mirco Hunnefeld, Wolfgang Rhode, Dirk Ryckbosch, Nahee Park, K. Hultqvist, Stephan Meighen-Berger, Chunfai Tung, S. Yoshida, Elisa Bernardini, David A. Williams, Robert Stein, Lenka Tomankova, D. Hebecker, Karim Ghorbani, Spencer Axani, Simone Garrappa, Darren Grant, L. Wills, Markus Ackermann, S. W. Barwick, M. Stamatikos, D. Rysewyk, M. Silva, Kayla Leonard, M. J. Larson, M. A. Unland Elorrieta, Dmitry Chirkin, Sarah Mancina, Sarah Nowicki, Alexander Kappes, N. Kurahashi, Jenni Adams, I. Taboada, P. Peiffer, Joshua Hignight, Todor Stanev, C. Wendt, Paul Coppin, Michael O. Wolf, P. Nakarmi, Carlos Arguelles, J. P. A. M. de André, N. van Eijndhoven, C. Haack, Delia Tosi, Anna Franckowiak, Tobias Hoinka, Andrea Turcati, Jessie Micallef, A. Goldschmidt, Jung-Hyun Kim, Ibrahim Safa, Francis Halzen, P. Schlunder, G. de Wasseige, M. Wallraff, F. Huang, J. van Santen, A. Stößl, M. Börner, Steve Sclafani, Damian Pieloth, Ali Kheirandish, W. Van Driessche, J. Kiryluk, Alex Pizzuto, Daria Pankova, R. Hoffmann, E. Friedman, George Japaridze, Roger Moore, Gary Binder, Christian Spiering, D. R. Nygren, Reina H. Maruyama, I. Ansseau, K. Becker, Jan Soedingrekso, C. Walck, Marek Kowalski, Steven Robertson, Elisa Lohfink, K. Andeen, Jannes Brostean-Kaiser, Summer Blot, Thomas K. Gaisser, G. B. Yodh, J. Bourbeau, E. Jacobi, R. G. Stokstad, R. Nahnhauer, Gisela Anton, A. Stasik, Justin Vandenbroucke, Juliana Stachurska, H. Dembinski, Emily Dvorak, L. Köpke, Alexander Fritz, D. Z. Besson, Chad Finley, G. Krückl, L. Schumacher, Carsten Rott, Tim Ruhe, Colin Turley, C. Alispach, Seongjin In, Gerald Przybylski, Elisa Resconi, T. Anderson, M. G. Aartsen, Janet Conrad, Federica Bradascio, Alexander Burgman, Pablo Correa, H. Niederhausen, K. Mase, Yuya Makino, R. Cross, Xianwu Xu, Christoph Tönnis, J. Sandroos, Mehmet Gunduz, Johannes Werthebach, M. S. Sutherland, A. Ishihara, R. C. Bay, M. J. Weiss, Kirill Filimonov, Austin Schneider, J. C. Gallagher, Juan Carlos Diaz-Velez, M. Usner, S. Kopper, M. Leuermann, Gerrit Wrede, Kael Hanson, René Reimann, William Luszczak, Allan Hallgren, M. Kauer, Martin Rongen, Pranav Dave, Samridha Kunwar, D. Altmann, K. Meagher, David Kappesser, L. Wille, S. E. Sanchez Herrera, Maximilian Meier, T. Palczewski, Paolo Desiati, M. Günder, D. Heereman, T. Stezelberger, A. Steuer, B. Eberhardt, Raamis Hussain, J. Lünemann, Amirreza Raissi, Chris Weaver, Stephanie Bron, C. J. Lozano Mariscal, G. Merino, N. Wandkowsky, Surujhdeo Seunarine, R. Snihur, Juanan Aguilar, B. J. Whelan, Immacolata Carmen Rea, K. Krings, Jan Weldert, L. Halve, Philipp Eller, M. Plum, Ramesh Koirala, E. Blaufuss, J. Felde, Merlin Schaufel, L. Classen, A. Obertacke Pollmann, A. Wallace, J. L. Kelley, Da Xu, Markus Ahlers, James DeLaunay, Marjon Moulai, S. De Ridder, Christopher Wiebusch, Kunal Deoskar, M. Labare, A. Karle, Erik Ganster, Ioana Codrina Maris, Christian Bohm, Samvel Ter-Antonyan, Christoph Raab, Nadège Iovine, D. Berley, G. C. Hill, Bunheng Ty, Maryon Ahrens, Giovanni Renzi, D. Seckel, Frederik Tenholt, S. Fahey, R. Nagai, M. Medici, S. Miarecki, Tyce DeYoung, Nathan Whitehorn, Jeffrey Lazar, Physics, Faculty of Sciences and Bioengineering Sciences, Vriendenkring VUB, and Elementary Particle Physics

Subjects
background [atmosphere], Physics::Instrumentation and Detectors, media_common.quotation_subject, Astrophysics::High Energy Astrophysical Phenomena, pole, FOS: Physical sciences, 01 natural sciences, High Energy Physics - Experiment, IceCube Neutrino Observatory, IceCube, charged current, High Energy Physics - Experiment (hep-ex), Neutrinos, Point sources, Veto techniques, SEARCH, TRACK RECONSTRUCTION, 0103 physical sciences, supernova, Muon neutrino, atmosphere [muon], 010303 astronomy & astrophysics, Astrophysics::Galaxy Astrophysics, media_common, High Energy Astrophysical Phenomena (astro-ph.HE), Physics, neutrino muon, Muon, 010308 nuclear & particles physics, ICE, Galactic Center, High Energy Physics::Phenomenology, Astronomy, Astronomy and Astrophysics, flux [neutrino], Galactic plane, observatory, Supernova, Physics and Astronomy, Sky, energy [neutrino], gamma ray, ddc:540, spectral, High Energy Physics::Experiment, galaxy, Neutrino, Astrophysics - High Energy Astrophysical Phenomena
Abstract

Many Galactic sources of gamma rays, such as supernova remnants, are expected to produce neutrinos with a typical energy cutoff well below 100 TeV. For the IceCube Neutrino Observatory located at the South Pole, the southern sky, containing the inner part of the Galactic plane and the Galactic Center, is a particularly challenging region at these energies, because of the large background of atmospheric muons. In this paper, we present recent advancements in data selection strategies for track-like muon neutrino events with energies below 100 TeV from the southern sky. The strategies utilize the outer detector regions as veto and features of the signal pattern to reduce the background of atmospheric muons to a level which, for the first time, allows IceCube searching for point-like sources of neutrinos in the southern sky at energies between 100 GeV and several TeV in the muon neutrino charged current channel. No significant clustering of neutrinos above background expectation was observed in four years of data recorded with the completed IceCube detector. Upper limits on the neutrino flux for a number of spectral hypotheses are reported for a list of astrophysical objects in the southern hemisphere., 19 pages, 17 figures, 2 tables

Published
2020
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