43 results on '"Brunetti T"'
Search Results
2. Thymic iNKT single cell analyses unmask the common developmental program of mouse innate T cells
- Author
-
Krovi, SH, Zhang, J, Michaels-Foster, MJ, Brunetti, T, Loh, L, Scott-Browne, J, Gapin, L, Krovi, SH, Zhang, J, Michaels-Foster, MJ, Brunetti, T, Loh, L, Scott-Browne, J, and Gapin, L
- Abstract
Most T lymphocytes leave the thymus as naïve cells with limited functionality. However, unique populations of innate-like T cells differentiate into functionally distinct effector subsets during their development in the thymus. Here, we profiled >10,000 differentiating thymic invariant natural killer T (iNKT) cells using single-cell RNA sequencing to produce a comprehensive transcriptional landscape that highlights their maturation, function, and fate decisions at homeostasis. Our results reveal transcriptional profiles that are broadly shared between iNKT and mucosal-associated invariant T (MAIT) cells, illustrating a common core developmental program. We further unmask a mutual requirement for Hivep3, a zinc finger transcription factor and adapter protein. Hivep3 is expressed in early precursors and regulates the post-selection proliferative burst, differentiation and functions of iNKT cells. Altogether, our results highlight the common requirements for the development of innate-like T cells with a focus on how Hivep3 impacts the maturation of these lymphocytes.
- Published
- 2020
3. Role of Genetic Ancestry as a Modifier of Air Pollution Exposure Risk on Asthma Morbidity Among Peruvian Children
- Author
-
Lorizio, W., primary, Psoter, K.J., additional, Romero, K., additional, Akenroye, A.T., additional, Pollard, S., additional, Brunetti, T., additional, Campbell, M., additional, Barnes, K., additional, Koehler, K., additional, Checkley, W., additional, Mathias, R., additional, and Hansel, N.N., additional
- Published
- 2020
- Full Text
- View/download PDF
4. P1.04-03 HLA Affinity for Mutant EGFR Derived Peptides Identifies a Group of Patients with EGFR Driven NSCLC and Favorable Prognosis
- Author
-
Dimou, A., primary, Grewe, P., additional, Campbell, M., additional, Brunetti, T., additional, Sidney, J., additional, Sette, A., additional, Van Bokhoven, A., additional, Norman, P., additional, and Doebele, R., additional
- Published
- 2019
- Full Text
- View/download PDF
5. Characterization and Pharmacological Actions of Tecostanine, an Alkaloid of Tecoma stans.
- Author
-
Costantino, L., primary, Lins, A. P., additional, Barlocco, D., additional, Celotti, F., additional, El-Abady, S. A., additional, Brunetti, T., additional, Maggi, R., additional, and Antolini, L., additional
- Published
- 2003
- Full Text
- View/download PDF
6. 4,5,6,7-Tetrahydro-isoxazolo-[4,5-c]-pyridines as a new class of cytotoxic Hsp90 inhibitors
- Author
-
Riccardo Rondanin, Maria Meli, Paolo Marchetti, Gianfranco Battistuzzi, Cristiana Costantini, Daniele Simoni, Valeria Carollo, Giuseppe Giannini, Stefania Mangiola, Loredana Vesci, Riccardo Baruchello, Tiziana Brunetti, Walter Cabri, Manlio Tolomeo, Baruchello, R, Simoni, D, Marchetti, P, Rondanin, R, Mangiola, S, Costantini, C, Meli, M, Giannini, G, Vesci, L, Carollo, V, Brunetti, T, Battistuzzi, G, Tolomeo, M, Cabri W, Baruchello R., Simoni D., Marchetti P., Rondanin R., Mangiola S., Costantini C, Meli M., Giannini G, Vesci L., Carollo V., Brunetti T., Battistuzzi G., and Tolomeo M.
- Subjects
Spectrometry, Mass, Electrospray Ionization ,Magnetic Resonance Spectroscopy ,medicine.drug_class ,Stereochemistry ,Pyridines ,Carboxamide ,Apoptosis ,Resorcinol ,Anti-cancer drugs ,chemistry.chemical_compound ,Residue (chemistry) ,Amide ,Drug Discovery ,Heat shock protein 90, Anti-cancer drugs, 4,5,6,7-Tetrahydro-isoxazolo-[4,5-c]- pyridines ,medicine ,Cytotoxic T cell ,Humans ,Heat shock protein 90 ,HSP90 Heat-Shock Proteins ,Pharmacology ,Hydroxamic acid ,Chemistry ,Cell growth ,Organic Chemistry ,General Medicine ,Nuclear magnetic resonance spectroscopy ,4 5 6 7-Tetrahydro-isoxazolo-[4 5-c]-pyridines ,Flow Cytometry ,Settore CHIM/08 - Chimica Farmaceutica ,hsp90 ,Settore BIO/14 - Farmacologia ,K562 Cells ,Cell Division - Abstract
Hsp90 is considered an interesting therapeutic target for anticancer drug development. Here we describe a new class of 4,5,6,7-tetrahydro-isoxazolo-[4,5-c]-pyridine compounds. A small library of derivatives has been synthesized and investigated. Some reported compounds show interesting properties combining both notable binding to Hsp90 and potent cell growth inhibitory activity. N-5 substitution with a 2,4 resorcinol carboxamide appears crucial for activity. Moreover, a derivative bearing a hydroxamic acid residue bound to C-3 amide portion was found to inhibit both Hsp90 and HDAC6.
- Published
- 2013
7. Exploring bis-(indolyl)methane moiety as an alternative and innovative CAP group in the design of histone deacetylase (HDAC) inhibitors
- Author
-
Claudio Pisano, Walter Cabri, Gianfranco Battistuzzi, Riccardo Pezzi, Giuseppe Giannini, Loredana Vesci, Tiziana Brunetti, Maria Di Marzo, Mauro Marzi, Giannini G, Marzi M, Di Marzo M, Battistuzzi G, Pezzi R, Brunetti T, Cabri W, Vesci L, and Pisano C
- Subjects
Indoles ,Surface Properties ,medicine.drug_class ,Stereochemistry ,Clinical Biochemistry ,Pharmaceutical Science ,Antineoplastic Agents ,Hydroxamic Acids ,Biochemistry ,Chemical synthesis ,Histone Deacetylases ,chemistry.chemical_compound ,Cell Line, Tumor ,Drug Discovery ,medicine ,Humans ,Moiety ,Enzyme Inhibitors ,Molecular Biology ,chemistry.chemical_classification ,Hydroxamic acid ,biology ,Chemistry ,hdac ,Organic Chemistry ,Histone deacetylase inhibitor ,Protein Structure, Tertiary ,Histone Deacetylase Inhibitors ,Enzyme ,Enzyme inhibitor ,Drug Design ,biology.protein ,Molecular Medicine ,Histone deacetylase ,Pharmacophore - Abstract
In order to gather further knowledge about the structural requirements on histone deacetylase inhibitors (HDACi), starting from the schematic model of the common pharmacophore that characterizes this class of molecules (surface recognition CAP group-connection unit-linker region-Zinc Binding Group), we designed and synthesized a series of hydroxamic acids containing a bis-(indolyl) methane moiety. HDAC inhibition pro. le and antiproliferative activity were evaluated. (C) 2009 Elsevier Ltd. All rights reserved.
- Published
- 2009
8. Novel Substituted Aminoalkylguanidines as Potential Antihyperglycemic and Food Intake-Reducing Agents
- Author
-
Secondo Dottori, Massimiliano Travagli, Paolo Carminati, Fabio Giannessi, Michela L. Renzulli, Pompeo Pessotto, Suvi Rajamaki, Emanuela Tassoni, Tiziana Brunetti, Maurizio Botta, Samanta Prati, Walter Cabri, Federico Corelli, Tassoni E, Giannessi F, Brunetti T, Pessotto P, Renzulli M, Travagli M, Rajamaki S, Prati S, Dottori S, Corelli F, Cabri W, Carminati P, and Botta M
- Subjects
Food intake ,Chemistry ,Reducing agent ,Stereochemistry ,Drinking ,Biological activity ,Diabetic mouse ,Guanidines ,Chemical synthesis ,aminoalkylguanidines ,Mice, Inbred C57BL ,Eating ,Mice ,Structure-Activity Relationship ,chemistry.chemical_compound ,Drug Discovery ,Animals ,Hypoglycemic Agents ,Molecular Medicine ,Anti-Obesity Agents ,Guanidine ,Antihyperglycemics - Abstract
We report the synthesis and evaluation of aminoalkylguanidine analogues and derivatives in C57BL/KsJ db/db diabetic mice, following identification by random screening of 1a and 1b as potential antihyperglycemics and/or modulators of food intake. These compounds are related to galegine, a gamma,gamma-dimethylallylguanidine. Between the newly identified compounds, 1h N-(cyclopropylmethyl)- N'-(4-(aminomethyl)cyclohexylmethyl)guanidine showed the most balanced activity as antihyperglycemic and food intake-reducing agent.
- Published
- 2008
9. New retinoid derivatives as back-ups of Adarotene
- Author
-
Tiziana Brunetti, Claudio Pisano, Federica Bucci, Gianfranco Battistuzzi, Gianandrea Quattrociocchi, Rosanna Foderà, Mario B. Guglielmi, Raffaella Nannei, Lucio Merlini, Loredana Vesci, Maria Grazia Cima, Giuseppe Giannini, Domenico Alloatti, Raffaella Cincinelli, Walter Cabri, Sabrina Dallavalle, Giannini G, Brunetti T, Battistuzzi G, Alloatti D, Quattrociocchi G, Cima MG, Merlini L, Dallavalle S, Cincinelli R, Nannei R, Vesci L, Bucci F, Fodera R, Guglielmi MB, Pisano C, and Cabri W
- Subjects
Carbamate ,Lung Neoplasms ,medicine.drug_class ,Metabolite ,medicine.medical_treatment ,Transplantation, Heterologous ,Clinical Biochemistry ,Mice, Nude ,Pharmaceutical Science ,Antineoplastic Agents ,Ether ,Biochemistry ,Mice ,Retinoids ,chemistry.chemical_compound ,Ovarian tumor ,Carcinoma, Non-Small-Cell Lung ,Cell Line, Tumor ,Drug Discovery ,medicine ,Animals ,Humans ,Retinoid ,Molecular Biology ,Cell Proliferation ,Organic Chemistry ,Esterases ,Prodrug ,In vitro ,chemistry ,Molecular Medicine ,retinoids adarotene ,Glucuronide - Abstract
Adarotene belongs to the so-called class of atypical retinoids. The presence of the phenolic hydroxyl group on Adarotene structure allows a rapid O-glucuronidation as a major mechanism of elimination of the drug, favoring a fast excretion of its glucuronide metabolite in the urines. A series of ether, carbamate and ester derivatives was synthesized. All of them were studied and evaluated for their stability at different pH. The cytotoxic activity in vitro on NCI-H460 non-small cell lung carcinoma and A2780 ovarian tumor cell lines was also tested. A potential back-up of Adarotene has been selected to be evaluated in tumor models. (C) 2012 Elsevier Ltd. All rights reserved.
- Published
- 2012
10. Novel 3,4-isoxazolediamides as potent inhibitors of chaperone heat shock protein 90
- Author
-
Maria Luisa Cervoni, Tiziana Brunetti, Walter Cabri, Mario B. Guglielmi, Giuseppina Grisolia, Loredana Vesci, Giuseppina Barbato, Rosanna Foderà, Ferdinando Maria Milazzo, Andrea Ciacci, Stefania Mangiola, Claudio Pisano, Massimo Castorina, Grazia Gallo, Giuseppe Giannini, Riccardo Rondanin, Paolo Marchetti, Daniele Simoni, Riccardo Baruchello, Marcella Barbarino, Domenico Alloatti, Baruchello R, Simoni D, Grisolia G, Barbato G, Marchetti P, Rondanin R, Mangiola S, Giannini G, Brunetti T, Alloatti D, Gallo G, Ciacci A, Vesci L, Castorina M, Milazzo FM, Cervoni ML, Guglielmi MB, Barbarino M, Fodera R, Pisano C, and Cabri W
- Subjects
Models, Molecular ,HSP90 inhibitor ,Stereochemistry ,Protein Conformation ,Transplantation, Heterologous ,Mice, Nude ,Antineoplastic Agents ,Crystallography, X-Ray ,Hsp90 inhibitor ,chemistry.chemical_compound ,Mice ,Structure-Activity Relationship ,Morpholine ,Heat shock protein ,Cell Line, Tumor ,Drug Discovery ,Structure–activity relationship ,Animals ,Humans ,HSP90 Heat-Shock Proteins ,Isoxazole ,Cell Proliferation ,biology ,Chemistry ,Isoxazoles ,Resorcinols ,Hsp90 ,Amides ,Epidermoid carcinoma ,Chaperone (protein) ,biology.protein ,Molecular Medicine ,Female ,Drug Screening Assays, Antitumor ,Neoplasm Transplantation - Abstract
A structural investigation on the isoxazole scaffold led to the discovery of 3,4-isoxazolediamide compounds endowed with potent Hsp90 inhibitory properties. We have found that compounds possessing a nitrogen atom directly attached to the C-4 heterocycle ring possess in vitro Hsp90 inhibitory properties at least comparable to those of the structurally related 4,S-diarylisoxazole derivatives. A group of compounds from this series of diamides combine potent binding affinity and cell growth inhibitory activity in both series of alkyl- and aryl- or heteroarylarnides, with IC50 in the low nanomolar range. The 3,4-isoxazolediamides were also very effective in causing dramatic depletion of the examined client proteins and, as expected for the Hsp90 inhibitors, always induced a very strong increase in the expression levels of the chaperone Hsp70. In vivo studies against human epidermoid carcinoma A431 showed an antitumor effect of morpholine derivative 73 comparable to that induced by the reference compound 10.
- Published
- 2011
11. Derivatives of R-aminocarnitine without ammonium moiety as liver carnitine palmitoyltransferase I (L-CPT I) inhibitors
- Author
-
Lucilla Mastrofrancesco, Fabio Giannessi, Silvia Vincenti, Tiziana Brunetti, Walter Cabri, Emanuela Tassoni, Grazia Gallo, Roberto Conti, Tassoni E, Conti R, Gallo G, Vincenti S, Mastrofrancesco L, Brunetti T, Cabri W, and Giannessi F
- Subjects
endocrine system ,Aminocarnitine ,endocrine system diseases ,Drug Evaluation, Preclinical ,Administration, Oral ,Mice, Inbred Strains ,Mitochondria, Liver ,Biochemistry ,Mitochondria, Heart ,chemistry.chemical_compound ,Mice ,Carnitine ,Drug Discovery ,medicine ,Moiety ,Animals ,Hypoglycemic Agents ,heterocyclic compounds ,Ammonium ,General Pharmacology, Toxicology and Pharmaceutics ,Enzyme Inhibitors ,neoplasms ,Antidiabetic agents ,Pharmacology ,Carnitine O-Palmitoyltransferase ,Chemistry ,Organic Chemistry ,digestive system diseases ,Rats ,Betaine ,Quaternary Ammonium Compounds ,Molecular Medicine ,Carnitine palmitoyltransferase I ,medicine.drug - Abstract
Dealing with diabetes: Carnitine palmitoyltransferases (CPT) are promising new targets for the treatment of diabetes. Here, derivatives of R‐aminocarnitine, with the quaternary ammonium moiety replaced by groups lacking a permanent cationic charge, were designed and evaluated in vitro and in vivo as L‐ CPT I inhibitors.
- Published
- 2011
12. N-Hydroxy-(4-oxime)-cinnamide: A versatile scaffold for the synthesis of novel histone deacetilase (HDAC) inhibitors
- Author
-
Walter Cabri, Tiziana Brunetti, Maria Di Marzo, Giuseppe Giannini, Gianfranco Battistuzzi, Mauro Marzi, Claudio Pisano, Riccardo Pezzi, Loredana Vesci, Giannini G, Marzi M, Pezzi R, Brunetti T, Battistuzzi G, Di Marzo M, Cabri W, Vesci L, and Pisano C
- Subjects
Scaffold ,biology ,Organic Chemistry ,Clinical Biochemistry ,Pharmaceutical Science ,HDAC8 ,HDAC6 ,Oxime ,Biochemistry ,In vitro ,chemistry.chemical_compound ,Histone ,chemistry ,HDAC ,Drug Discovery ,biology.protein ,Molecular Medicine ,Cytotoxic T cell ,cancer ,Selectivity ,Molecular Biology - Abstract
With the aim to discover novel HDAC inhibitors with high potency and good safety profiles, we have designed a small library based on a N-hydroxy-(4-oxime)-cinnamide scaffold. We describe the synthesis of these novel compounds and some preliminary in vitro cytotoxic activity on three tumor cell lines, NB4, H460 and HCT116, as well as their inhibitory activity against class I, II and IV HDAC. Several 4-oxime derivatives demonstrated a promising inhibitory activity on HDAC6 and HDAC8 coupled to a good selectivity profile. (C) 2009 Elsevier Ltd. All rights reserved.
- Published
- 2009
13. Unraveling the phenotypic states of human innate-like T cells: Comparative insights with conventional T cells and mouse models.
- Author
-
Loh L, Carcy S, Krovi HS, Domenico J, Spengler A, Lin Y, Torres J, Prabakar RK, Palmer W, Norman PJ, Stone M, Brunetti T, Meyer HV, and Gapin L
- Subjects
- Humans, Animals, Mice, T-Lymphocytes immunology, T-Lymphocytes metabolism, Thymus Gland immunology, Thymus Gland cytology, Single-Cell Analysis, Cell Differentiation, Mice, Inbred C57BL, Immunity, Innate, Phenotype
- Abstract
The "innate-like" T cell compartment, known as T
inn , represents a diverse group of T cells that straddle the boundary between innate and adaptive immunity. We explore the transcriptional landscape of Tinn compared to conventional T cells (Tconv ) in the human thymus and blood using single-cell RNA sequencing (scRNA-seq) and flow cytometry. In human blood, the majority of Tinn cells share an effector program driven by specific transcription factors, distinct from those governing Tconv cells. Conversely, only a fraction of thymic Tinn cells displays an effector phenotype, while others share transcriptional features with developing Tconv cells, indicating potential divergent developmental pathways. Unlike the mouse, human Tinn cells do not differentiate into multiple effector subsets but develop a mixed type 1/type 17 effector potential. Cross-species analysis uncovers species-specific distinctions, including the absence of type 2 Tinn cells in humans, which implies distinct immune regulatory mechanisms across species., Competing Interests: Declaration of interests The authors declare no competing interests., (Copyright © 2024 The Author(s). Published by Elsevier Inc. All rights reserved.)- Published
- 2024
- Full Text
- View/download PDF
14. Screening of Anal HPV Precancerous Lesions: A Review after Last Recommendations.
- Author
-
Natale A, Brunetti T, Orioni G, and Gaspari V
- Abstract
Over the last decades, the incidence of anal cancer has increased worldwide. The discovery of the HPV virus as its primary cause and the natural progression of the disease, involving precancerous lesions, have resulted in significant interest in screening for anal cancer. The use of cytology testing, high-risk HPV DNA research, high-resolution anoscopy, and their combination has been adopted with variable success in detecting anal HPV precancerous lesions. Various studies have been carried out to evaluate the sensitivity and specificity of these techniques in different populations. High-risk populations for developing anal cancer have been identified through study of incidence and prevalence. Therefore, different scientific societies and experts worldwide have provided different recommendations for screening, but a universal approach has not yet been established. The inhomogeneity of different risk groups, the variable accessibility to specifical techniques, and the lack of data regarding the cost-benefit ratio of screening are the main problems to address in order to define a consensus guideline acceptable worldwide. The purpose of this paper is to provide a comprehensive review of the literature on HPV precancerous lesions and its screening, particularly after the release of recent recommendations.
- Published
- 2024
- Full Text
- View/download PDF
15. Vimentin regulates mitochondrial ROS production and inflammatory responses of neutrophils.
- Author
-
Huynh TN, Toperzer J, Scherer A, Gumina A, Brunetti T, Mansour MK, Markovitz DM, and Russo BC
- Subjects
- Animals, Mice, Inflammation immunology, Inflammation metabolism, Extracellular Traps immunology, Extracellular Traps metabolism, Phagocytosis, Inflammasomes metabolism, Inflammasomes immunology, Cytokines metabolism, Humans, Rotenone pharmacology, Reactive Oxygen Species metabolism, Neutrophils immunology, Neutrophils metabolism, Vimentin metabolism, Mitochondria metabolism
- Abstract
The intermediate filament vimentin is present in immune cells and is implicated in proinflammatory immune responses. Whether and how it supports antimicrobial activities of neutrophils are not well established. Here, we developed an immortalized neutrophil model to examine the requirement of vimentin. We demonstrate that vimentin restricts the production of proinflammatory cytokines and reactive oxygen species (ROS), but enhances phagocytosis and swarming. We observe that vimentin is dispensable for neutrophil extracellular trap (NET) formation, degranulation, and inflammasome activation. Moreover, gene expression analysis demonstrated that the presence of vimentin was associated with changes in expression of multiple genes required for mitochondrial function and ROS overproduction. Treatment of wild-type cells with rotenone, an inhibitor for complex I of the electron transport chain, increases the ROS levels. Likewise, treatment with mitoTEMPO, a SOD mimetic, rescues the ROS production in cells lacking vimentin. Together, these data show vimentin regulates neutrophil antimicrobial functions and alters ROS levels through regulation of mitochondrial activity., Competing Interests: MM consults for NED Biosystems, Vericel. He received grants from Karius, Danaher, Genentech, and Thermo-Fisher Scientific. He is a medical writer for UpToDate. The remaining authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest., (Copyright © 2024 Huynh, Toperzer, Scherer, Gumina, Brunetti, Mansour, Markovitz and Russo.)
- Published
- 2024
- Full Text
- View/download PDF
16. Rare Case of Cellular Neurothekeoma in an Infant with an Asymptomatic Abdominal Nodule.
- Author
-
Brunetti T, Chessa MA, Virdi A, and Neri I
- Published
- 2024
- Full Text
- View/download PDF
17. A Rare Case of Young Patient With Keloid After Topical Treatment with Potassium Hydroxide 5% of Molluscum Contagiosum.
- Author
-
Bardazzi F, Brunetti T, Misciali C, Clarizio G, Loi C, and Pileri A
- Published
- 2024
- Full Text
- View/download PDF
18. Identification of a DNA-cytosine methyltransferase that impacts global transcription to promote group B streptococcal vaginal colonization.
- Author
-
Manzer HS, Brunetti T, and Doran KS
- Subjects
- Female, Humans, Streptococcal Infections microbiology, Pregnancy, Gene Expression Regulation, Bacterial, DNA-Cytosine Methylases metabolism, DNA-Cytosine Methylases genetics, Transcription, Genetic, Bacterial Proteins genetics, Bacterial Proteins metabolism, Vagina microbiology, Streptococcus agalactiae genetics, Streptococcus agalactiae enzymology
- Abstract
Importance: Group B Streptococcus (GBS) colonizes the female reproductive tract (FRT) in one-third of women, and carriage leads to numerous adverse pregnancy outcomes including the preterm premature rupture of membranes, chorioamnionitis, and stillbirth. The presence of GBS in the FRT during pregnancy is also the largest predisposing factor for the transmission of GBS and invasive neonatal diseases, including pneumonia, sepsis, and meningitis. The factors contributing to GBS colonization are still being elucidated. Here, we show for the first time that GBS transcription is regulated by an orphan DNA cytosine methyltransferase (Dcm). Many GBS factors are regulated by Dcm, especially those involved in carbohydrate transport and metabolism. We show that GBS persistence in the FRT is dependent on the catabolism of sugars found on the vaginal mucin MUC5B. Collectively, this work highlights the regulatory importance of a DNA methyltransferase and identifies both host and bacterial factors required for GBS colonization., Competing Interests: The authors declare no conflict of interest.
- Published
- 2023
- Full Text
- View/download PDF
19. Unraveling the Phenotypic States of Human innate-like T Cells: Comparative Insights with Conventional T Cells and Mouse Models.
- Author
-
Loh L, Carcy S, Krovi HS, Domenico J, Spengler A, Lin Y, Torres J, Palmer W, Norman PJ, Stone M, Brunetti T, Meyer HV, and Gapin L
- Abstract
The "innate-like" T cell compartment, known as T
inn , represents a diverse group of T cells that straddle the boundary between innate and adaptive immunity, having the ability to mount rapid responses following activation. In mice, this ability is acquired during thymic development. We explored the transcriptional landscape of Tinn compared to conventional T cells (Tconv ) in the human thymus and blood using single cell RNA sequencing and flow cytometry. We reveal that in human blood, the majority of Tinn cells, including iNKT, MAIT, and Vδ2+ Vγ9+ T cells, share an effector program characterized by the expression of unique chemokine and cytokine receptors, and cytotoxic molecules. This program is driven by specific transcription factors, distinct from those governing Tconv cells. Conversely, only a fraction of thymic Tinn cells displays an effector phenotype, while others share transcriptional features with developing Tconv cells, indicating potential divergent developmental pathways. Unlike the mouse, human Tinn cells do not differentiate into multiple effector subsets but develop a mixed type I/type III effector potential. To conduct a comprehensive cross-species analysis, we constructed a murine Tinn developmental atlas and uncovered additional species-specific distinctions, including the absence of type II Tinn cells in humans, which implies distinct immune regulatory mechanisms across species. The study provides insights into the development and functionality of Tinn cells, emphasizing their role in immune responses and their potential as targets for therapeutic interventions., Competing Interests: Competing interests: The authors declare that they have no competing interests.- Published
- 2023
- Full Text
- View/download PDF
20. Hemin treatment drives viral reactivation and plasma cell differentiation of EBV latently infected B cells.
- Author
-
Burnet AM, Brunetti T, and Rochford R
- Subjects
- Humans, Herpesvirus 4, Human genetics, Heme, Cell Differentiation, Basic-Leucine Zipper Transcription Factors genetics, Hemin pharmacology, Epstein-Barr Virus Infections
- Abstract
Epstein-Barr virus (EBV) and Plasmodium falciparum have a well described role in the development of endemic Burkitt lymphoma (BL), yet the mechanisms involved remain unknown. A major hallmark of malarial disease is hemolysis and bystander eryptosis of red blood cells, which causes release of free heme in large quantities into peripheral blood. We hypothesized that heme released during malaria infection drives differentiation of latently infected EBV-positive B cells, resulting in viral reactivation and release of infectious virus. To test this hypothesis, we used the EBV-positive Mutu I B-cell line and treated with hemin (the oxidized form of heme) and evaluated evidence of EBV reactivation. Hemin treatment resulted in the expression of EBV immediate early, early and late lytic gene transcripts. In addition, expression of CD138, a marker of plasma cells was co-expressed with the late lytic protein gp350 on hemin treated Mutu I cells. Finally, DNase-resistant EBV DNA indicative of virion production was detected in supernatant. To assess the transcriptional changes induced by hemin treatment, RNA sequencing was performed on mock- and hemin-treated Mutu I cells, and a shift from mature B cell transcripts to plasma cell transcripts was identified. To identify the mechanism of hemin-induced B cell differentiation, we measured levels of the plasma cell transcriptional repressor, BACH2, that contains specific heme binding sites. Hemin treatment caused significant degradation of BACH2 by 24 hours post-treatment in four BL cell lines (two EBV positive, two EBV negative). Knockdown of BACH2 in Mutu I cells using siRNAs significantly increased CD138+gp350+ cells to levels similar to treatment with hemin. This suggested that hemin induced BACH2 degradation was responsible for plasma cell differentiation and viral reactivation. Together, these data support a model where EBV reactivation can occur during malaria infection via heme modulation, providing a mechanistic link between malaria and EBV., Competing Interests: The authors have declared that no competing interests exist., (Copyright: © 2023 Burnet et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.)
- Published
- 2023
- Full Text
- View/download PDF
21. Diagnostic Accuracy of Line-Field Confocal Optical Coherence Tomography for the Diagnosis of Skin Carcinomas.
- Author
-
Cinotti E, Brunetti T, Cartocci A, Tognetti L, Suppa M, Malvehy J, Perez-Anker J, Puig S, Perrot JL, and Rubegni P
- Abstract
Line-field confocal optical coherence tomography (LC-OCT) is a new, noninvasive imaging technique for the diagnosis of skin cancers. A total of 243 benign (54%) and malignant (46%) skin lesions were consecutively enrolled from 27 August 2020, to 6 October 2021 at the Dermatology Department of the University Hospital of Siena, Italy. Dermoscopic- and LC-OCT-based diagnoses were given by an expert dermatologist and compared with the ground truth. Considering all types of malignant skin tumours (79 basal cell carcinomas (BCCs), 22 squamous cell carcinomas, and 10 melanomas), a statistically significant increase ( p = 0.013) in specificity was observed from dermoscopy (0.73, CI 0.64-0.81) to LC-OCT (0.87, CI 0.79-0.93) while sensitivity was the same with the two imaging techniques (0.95 CI 0.89-0.98 for dermoscopy and 0.95 CI 0.90-0.99 for LC-OCT). The increase in specificity was mainly driven by the ability of LC-OCT to differentiate BCCs from other diagnoses. In conclusion, our real-life study showed that LC-OCT can play an important role in helping the noninvasive diagnosis of malignant skin neoplasms and especially of BCCs. LC-OCT could be positioned after the dermoscopic examination, to spare useless biopsy of benign lesions without decreasing sensitivity.
- Published
- 2023
- Full Text
- View/download PDF
22. Discovering metabolite quantitative trait loci in asthma using an isolated population.
- Author
-
Johnson RK, Brunetti T, Quinn K, Doenges K, Campbell M, Arehart C, Taub MA, Mathias RA, Reisdorph N, Barnes KC, and Daya M
- Subjects
- Genetic Predisposition to Disease, Genome-Wide Association Study, Humans, Polymorphism, Single Nucleotide, Asthma genetics, Quantitative Trait Loci
- Abstract
Background: Integration of metabolomics with genetics may advance understanding of disease pathogenesis but has been underused in asthma genetic studies., Objective: We sought to discover new genetic effects in asthma and to characterize the molecular consequences of asthma genetic risk through integration with the metabolome in a homogeneous population., Methods: From fasting serum samples collected on 348 Tangier Island residents, we quantified 2612 compounds using untargeted metabolomics. Genotyping was performed using Illumina's MEGA array imputed to the TOPMed reference panel. To prioritize metabolites for genome-wide association analysis, we performed a metabolome-wide association study with asthma, selecting asthma-associated metabolites with heritability q value less than 0.01 for genome-wide association analysis. We also tested the association between all metabolites and 8451 candidate asthma single nucleotide polymorphisms previously associated with asthma in the UK Biobank. We followed up significant associations by characterizing shared genetic signal for metabolites and asthma using colocalization analysis. For detailed Methods, please see this article's Online Repository at www.jacionline.org., Results: A total of 60 metabolites were associated with asthma (P < .01), including 40 heritable metabolites tested in genome-wide association analysis. We observed a strong association peak for the endocannabinoid linoleoyl ethanolamide on chromosome 6 in VNN1 (P < 2.7 × 10
-9 ). We found strong evidence (colocalization posterior probability >75%) for a shared causal variant between 3 metabolites and asthma, including the polyamine acisoga and variants in LPP, and derivative leukotriene B4 and intergenic variants in chr10p14., Conclusions: We identified novel metabolite quantitative trait loci with asthma associations. Identification and characterization of these genetically driven metabolites may provide insight into the functional consequences of genetic risk factors for asthma., (Copyright © 2021 American Academy of Allergy, Asthma & Immunology. Published by Elsevier Inc. All rights reserved.)- Published
- 2022
- Full Text
- View/download PDF
23. Current insights in mouse iNKT and MAIT cell development using single cell transcriptomics data.
- Author
-
Krovi SH, Loh L, Spengler A, Brunetti T, and Gapin L
- Subjects
- Mice, Humans, Animals, Receptors, Antigen, T-Cell metabolism, Mucosal-Associated Invariant T Cells, Natural Killer T-Cells metabolism
- Abstract
Innate T (T
inn ) cells are a collection of T cells with important regulatory functions that have a crucial role in immunity towards tumors, bacteria, viruses, and in cell-mediated autoimmunity. In mice, the two main αβ Tinn cell subsets include the invariant NKT (iNKT) cells that recognize glycolipid antigens presented by non-polymorphic CD1d molecules and the mucosal associated invariant T (MAIT) cells that recognize vitamin B metabolites presented by the non-polymorphic MR1 molecules. Due to their ability to promptly secrete large quantities of cytokines either after T cell antigen receptor (TCR) activation or upon exposure to tissue- and antigen-presenting cell-derived cytokines, Tinn cells are thought to act as a bridge between the innate and adaptive immune systems and have the ability to shape the overall immune response. Their swift response reflects the early acquisition of helper effector programs during their development in the thymus, independently of pathogen exposure and prior to taking up residence in peripheral tissues. Several studies recently profiled, in an unbiased manner, the transcriptomes of mouse thymic iNKT and MAIT cells at the single cell level. Based on these data, we re-examine in this review how Tinn cells develop in the mouse thymus and undergo effector differentiation., (Copyright © 2022 Elsevier Ltd. All rights reserved.)- Published
- 2022
- Full Text
- View/download PDF
24. Genome-wide association study of asthma, total IgE, and lung function in a cohort of Peruvian children.
- Author
-
Akenroye AT, Brunetti T, Romero K, Daya M, Kanchan K, Shankar G, Chavan S, Preethi Boorgula M, Ampleford EA, Fonseca HF, Hawkins GA, Pitangueira Teixeira HM, Campbell M, Rafaels N, Winters A, Bleecker ER, Cruz AA, Barreto ML, Meyers DA, Ortega VE, Figueiredo CA, Barnes KC, Checkley W, Hansel NN, and Mathias RA
- Subjects
- Adolescent, Americas, Asthma epidemiology, Child, Cohort Studies, Female, Genetic Predisposition to Disease, Genome-Wide Association Study, HLA-DQ Antigens metabolism, Humans, Lung immunology, Male, Peru epidemiology, Polymorphism, Single Nucleotide, RNA, Long Noncoding genetics, Spain, Young Adult, Asthma genetics, Genotype, Immunoglobulin E metabolism, Indigenous Peoples, Lung metabolism
- Abstract
Background: Genetic ancestry plays a role in asthma health disparities., Objective: Our aim was to evaluate the impact of ancestry on and identify genetic variants associated with asthma, total serum IgE level, and lung function., Methods: A total of 436 Peruvian children (aged 9-19 years) with asthma and 291 without asthma were genotyped by using the Illumina Multi-Ethnic Global Array. Genome-wide proportions of indigenous ancestry populations from continental America (NAT) and European ancestry from the Iberian populations in Spain (IBS) were estimated by using ADMIXTURE. We assessed the relationship between ancestry and the phenotypes and performed a genome-wide association study., Results: The mean ancestry proportions were 84.7% NAT (case patients, 84.2%; controls, 85.4%) and 15.3% IBS (15.8%; 14.6%). With adjustment for asthma, NAT was associated with higher total serum IgE levels (P < .001) and IBS was associated with lower total serum IgE levels (P < .001). NAT was associated with higher FEV
1 percent predicted values (P < .001), whereas IBS was associated with lower FEV1 values in the controls but not in the case patients. The HLA-DR/DQ region on chromosome 6 (Chr6) was strongly associated with total serum IgE (rs3135348; P = 3.438 × 10-10 ) and was independent of an association with the haplotype HLA-DQA1∼HLA-DQB1:04.01∼04.02 (P = 1.55 × 10-05 ). For lung function, we identified a locus (rs4410198; P = 5.536 × 10-11 ) mapping to Chr19, near a cluster of zinc finger interacting genes that colocalizes to the long noncoding RNA CTD-2537I9.5. This novel locus was replicated in an independent sample of pediatric case patients with asthma with similar admixture from Brazil (P = .005)., Conclusion: This study confirms the role of HLA in atopy, and identifies a novel locus mapping to a long noncoding RNA for lung function that may be specific to children with NAT., (Copyright © 2021 American Academy of Allergy, Asthma & Immunology. Published by Elsevier Inc. All rights reserved.)- Published
- 2021
- Full Text
- View/download PDF
25. Zika Virus Congenital Syndrome and MTOR gene variants: insights from a family of dizygotic twins.
- Author
-
de O da Silva LR, Oliveira P, Sardi S, Soares G, Bandeira AC, Costa RDS, Rafaels N, Campbell M, Brunetti T, Crooks K, Daya M, Teixeira MG, Carneiro VL, Barnes K, and Figueiredo CA
- Abstract
Congenital Zika virus syndrome (CZS) is associated with damage to neural progenitor cells by ZIKA virus infection. There are no accurate statistics on the percentage of pregnant mothers who have had babies affected by the syndrome. Few cases of discordant twins have been described in the literature and, therefore, we hypothesize that the genetic background of the progeny and/or mother may play a role in the fate of the syndrome. We performed a complete exome sequencing in a set of dizygotic individuals and their parents. After that, we selected discordant variants on the MTOR gene between the affected and unaffected twin and we observed a mutation (rs2295079), placed in a region restricted to proximal 5'-UTR, as a strong possible causal variant. In addition, in most brain tissues (including fetal brain) evaluated for expression quantitative trait loci (eQTL), this locus is strongly correlated with post-translational modifications of histones (promoter and enhancer marks) and hypersensitivity to DNAse I (open chromatin mark). Taken together, our data suggest that changes in the MTOR gene may be related to CZS. Additional functional studies should be carried out to prove how and why a MTOR mutation can predispose the fetus to the syndrome., Competing Interests: The authors declare no conflict of interest., (© 2021 The Author(s).)
- Published
- 2021
- Full Text
- View/download PDF
26. Thymic iNKT single cell analyses unmask the common developmental program of mouse innate T cells.
- Author
-
Harsha Krovi S, Zhang J, Michaels-Foster MJ, Brunetti T, Loh L, Scott-Browne J, and Gapin L
- Subjects
- Animals, Cell Differentiation genetics, Cells, Cultured, DNA-Binding Proteins genetics, DNA-Binding Proteins immunology, DNA-Binding Proteins metabolism, Gene Expression Profiling methods, Immunity, Innate genetics, Mice, Inbred C57BL, Mice, Knockout, Mucosal-Associated Invariant T Cells cytology, Mucosal-Associated Invariant T Cells immunology, Mucosal-Associated Invariant T Cells metabolism, Natural Killer T-Cells cytology, Natural Killer T-Cells metabolism, Sequence Analysis, RNA methods, T-Lymphocytes cytology, T-Lymphocytes metabolism, Thymocytes cytology, Thymocytes immunology, Thymocytes metabolism, Thymus Gland cytology, Thymus Gland metabolism, Cell Differentiation immunology, Immunity, Innate immunology, Natural Killer T-Cells immunology, Single-Cell Analysis methods, T-Lymphocytes immunology, Thymus Gland immunology
- Abstract
Most T lymphocytes leave the thymus as naïve cells with limited functionality. However, unique populations of innate-like T cells differentiate into functionally distinct effector subsets during their development in the thymus. Here, we profiled >10,000 differentiating thymic invariant natural killer T (iNKT) cells using single-cell RNA sequencing to produce a comprehensive transcriptional landscape that highlights their maturation, function, and fate decisions at homeostasis. Our results reveal transcriptional profiles that are broadly shared between iNKT and mucosal-associated invariant T (MAIT) cells, illustrating a common core developmental program. We further unmask a mutual requirement for Hivep3, a zinc finger transcription factor and adapter protein. Hivep3 is expressed in early precursors and regulates the post-selection proliferative burst, differentiation and functions of iNKT cells. Altogether, our results highlight the common requirements for the development of innate-like T cells with a focus on how Hivep3 impacts the maturation of these lymphocytes.
- Published
- 2020
- Full Text
- View/download PDF
27. Deletion of p53 and Hyper-Activation of PIK3CA in Keratin-15 + Stem Cells Lead to the Development of Spontaneous Squamous Cell Carcinoma.
- Author
-
Chen SMY, Li B, Nicklawsky AG, Krinsky AL, Brunetti T, Woolaver RA, Wang X, Chen Z, Young CD, Gao D, Wang XJ, and Wang JH
- Subjects
- Animals, Carcinoma, Squamous Cell mortality, Class I Phosphatidylinositol 3-Kinases genetics, Head and Neck Neoplasms mortality, Humans, Lymphocytes, Tumor-Infiltrating, Mice, Transgenic, Neoplasms, Experimental, Tumor Microenvironment, Carcinoma, Squamous Cell etiology, Class I Phosphatidylinositol 3-Kinases metabolism, Genes, p53, Head and Neck Neoplasms etiology, Keratin-15 metabolism
- Abstract
Squamous cell carcinoma (SCC) is the second commonest type of skin cancer, and SCCs make up about 90% of head and neck cancers (HNSCCs). HNSCCs harbor two frequent molecular alterations, namely, gain-of-function alterations of phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit alpha ( PIK3CA) and loss-of-function mutations of tumor protein p53 ( TP53 ). However, it remains poorly understood whether HNSCCs harboring different genetic alterations exhibit differential immune tumor microenvironments (TME). It also remains unknown whether PIK3CA hyperactivation and TP53 deletion can lead to SCC development spontaneously. Here, we analyzed the Cancer Genome Atlas (TCGA) datasets of HNSCCs and found that patients with both PIK3CA and TP53 alterations exhibited worse survival, significantly lower CD8 tumor infiltrating lymphocytes (TILs) and higher M0 macrophages than other controls. To better model human tumorigenesis, we deleted TP53 and constitutively activated PIK3CA in mouse keratin-15-expressing stem cells, which leads to the spontaneous development of multilineage tumors including SCCs, termed Keratin-15-p53-PIK3CA (KPPA) tumors. KPPA tumors were heavily infiltrated with myeloid-derived suppressor cells (MDSCs), with a drastically increased ratio of polymorphonuclear-MDSC (PMN-MDSC) versus monocytic-MDSC (M-MDSC). CD8 TILs expressed more PD-1 and reduced their polyfunctionality. Overall, we established a genetic model to mimic human HNSCC pathogenesis, manifested with an immunosuppressive TME, which may help further elucidate immune evasion mechanisms and develop more effective immunotherapies for HNSCCs.
- Published
- 2020
- Full Text
- View/download PDF
28. Human Organoids Share Structural and Genetic Features with Primary Pancreatic Adenocarcinoma Tumors.
- Author
-
Romero-Calvo I, Weber CR, Ray M, Brown M, Kirby K, Nandi RK, Long TM, Sparrow SM, Ugolkov A, Qiang W, Zhang Y, Brunetti T, Kindler H, Segal JP, Rzhetsky A, Mazar AP, Buschmann MM, Weichselbaum R, Roggin K, and White KP
- Subjects
- Animals, Humans, Mice, Adenocarcinoma genetics, Organoids metabolism, Pancreatic Neoplasms genetics
- Abstract
Patient-derived pancreatic ductal adenocarcinoma (PDAC) organoid systems show great promise for understanding the biological underpinnings of disease and advancing therapeutic precision medicine. Despite the increased use of organoids, the fidelity of molecular features, genetic heterogeneity, and drug response to the tumor of origin remain important unanswered questions limiting their utility. To address this gap in knowledge, primary tumor- and patient-derived xenograft (PDX)-derived organoids, and 2D cultures for in-depth genomic and histopathologic comparisons with the primary tumor were created. Histopathologic features and PDAC representative protein markers (e.g., claudin 4 and CA19-9) showed strong concordance. DNA- and RNA-sequencing (RNAseq) of single organoids revealed patient-specific genomic and transcriptomic consistency. Single-cell RNAseq demonstrated that organoids are primarily a clonal population. In drug response assays, organoids displayed patient-specific sensitivities. In addition, the in vivo PDX response to FOLFIRINOX and gemcitabine/abraxane treatments were examined, which was recapitulated in vitro with organoids. This study has demonstrated that organoids are potentially invaluable for precision medicine as well as preclinical drug treatment studies because they maintain distinct patient phenotypes and respond differently to drug combinations and dosage. IMPLICATIONS: The patient-specific molecular and histopathologic fidelity of organoids indicate that they can be used to understand the etiology of the patient's tumor and the differential response to therapies and suggests utility for predicting drug responses., (©2018 American Association for Cancer Research.)
- Published
- 2019
- Full Text
- View/download PDF
29. The transcription factor POU3F2 regulates a gene coexpression network in brain tissue from patients with psychiatric disorders.
- Author
-
Chen C, Meng Q, Xia Y, Ding C, Wang L, Dai R, Cheng L, Gunaratne P, Gibbs RA, Min S, Coarfa C, Reid JG, Zhang C, Jiao C, Jiang Y, Giase G, Thomas A, Fitzgerald D, Brunetti T, Shieh A, Xia C, Wang Y, Wang Y, Badner JA, Gershon ES, White KP, and Liu C
- Subjects
- Cell Differentiation genetics, Cell Proliferation genetics, Databases, Genetic, Gene Expression Regulation, Genetic Predisposition to Disease, Genetic Variation, Genome-Wide Association Study, Homeodomain Proteins genetics, Humans, Neural Stem Cells metabolism, POU Domain Factors genetics, Postmortem Changes, RNA, Messenger genetics, RNA, Messenger metabolism, Reproducibility of Results, Brain metabolism, Gene Regulatory Networks, Homeodomain Proteins metabolism, Mental Disorders genetics, POU Domain Factors metabolism
- Abstract
Schizophrenia and bipolar disorder are complex psychiatric diseases with risks contributed by multiple genes. Dysregulation of gene expression has been implicated in these disorders, but little is known about such dysregulation in the human brain. We analyzed three transcriptome datasets from 394 postmortem brain tissue samples from patients with schizophrenia or bipolar disorder or from healthy control individuals without a known history of psychiatric disease. We built genome-wide coexpression networks that included microRNAs (miRNAs). We identified a coexpression network module that was differentially expressed in the brain tissue from patients compared to healthy control individuals. This module contained genes that were principally involved in glial and neural cell genesis and glial cell differentiation, and included schizophrenia risk genes carrying rare variants. This module included five miRNAs and 545 mRNAs, with six transcription factors serving as hub genes in this module. We found that the most connected transcription factor gene POU3F2 , also identified on a genome-wide association study for bipolar disorder, could regulate the miRNA hsa-miR-320e and other putative target mRNAs. These regulatory relationships were replicated using PsychENCODE/BrainGVEX datasets and validated by knockdown and overexpression experiments in SH-SY5Y cells and human neural progenitor cells in vitro. Thus, we identified a brain gene expression module that was enriched for rare coding variants in genes associated with schizophrenia and that contained the putative bipolar disorder risk gene POU3F2 The transcription factor POU3F2 may be a key regulator of gene expression in this disease-associated gene coexpression module., (Copyright © 2018 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works.)
- Published
- 2018
- Full Text
- View/download PDF
30. The DGCR5 long noncoding RNA may regulate expression of several schizophrenia-related genes.
- Author
-
Meng Q, Wang K, Brunetti T, Xia Y, Jiao C, Dai R, Fitzgerald D, Thomas A, Jay L, Eckart H, Grennan K, Imamura-Kawasawa Y, Li M, Sestan N, White KP, Chen C, and Liu C
- Subjects
- Adult, Brain pathology, DNA Copy Number Variations genetics, Humans, Molecular Sequence Annotation, Open Reading Frames genetics, RNA, Long Noncoding genetics, Risk Factors, Gene Expression Regulation, RNA, Long Noncoding metabolism, Schizophrenia genetics
- Abstract
A number of studies indicate that rare copy number variations (CNVs) contribute to the risk of schizophrenia (SCZ). Most of these studies have focused on protein-coding genes residing in the CNVs. Here, we investigated long noncoding RNAs (lncRNAs) within 10 SCZ risk-associated CNV deletion regions (CNV-lncRNAs) and examined their potential contribution to SCZ risk. We used RNA sequencing transcriptome data derived from postmortem brain tissue from control individuals without psychiatric disease as part of the PsychENCODE BrainGVEX and Developmental Capstone projects. We carried out weighted gene coexpression network analysis to identify protein-coding genes coexpressed with CNV-lncRNAs in the human brain. We identified one neuronal function-related coexpression module shared by both datasets. This module contained a lncRNA called DGCR5 within the 22q11.2 CNV region, which was identified as a hub gene. Protein-coding genes associated with SCZ genome-wide association study signals, de novo mutations, or differential expression were also contained in this neuronal module. Using DGCR5 knockdown and overexpression experiments in human neural progenitor cells derived from human induced pluripotent stem cells, we identified a potential role for DGCR5 in regulating certain SCZ-related genes., (Copyright © 2018 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works.)
- Published
- 2018
- Full Text
- View/download PDF
31. Comprehensive functional genomic resource and integrative model for the human brain.
- Author
-
Wang D, Liu S, Warrell J, Won H, Shi X, Navarro FCP, Clarke D, Gu M, Emani P, Yang YT, Xu M, Gandal MJ, Lou S, Zhang J, Park JJ, Yan C, Rhie SK, Manakongtreecheep K, Zhou H, Nathan A, Peters M, Mattei E, Fitzgerald D, Brunetti T, Moore J, Jiang Y, Girdhar K, Hoffman GE, Kalayci S, Gümüş ZH, Crawford GE, Roussos P, Akbarian S, Jaffe AE, White KP, Weng Z, Sestan N, Geschwind DH, Knowles JA, and Gerstein MB
- Subjects
- Datasets as Topic, Deep Learning, Enhancer Elements, Genetic, Epigenesis, Genetic, Epigenomics, Gene Regulatory Networks, Genome-Wide Association Study, Humans, Quantitative Trait Loci, Single-Cell Analysis, Transcriptome, Brain metabolism, Gene Expression Regulation, Mental Disorders genetics
- Abstract
Despite progress in defining genetic risk for psychiatric disorders, their molecular mechanisms remain elusive. Addressing this, the PsychENCODE Consortium has generated a comprehensive online resource for the adult brain across 1866 individuals. The PsychENCODE resource contains ~79,000 brain-active enhancers, sets of Hi-C linkages, and topologically associating domains; single-cell expression profiles for many cell types; expression quantitative-trait loci (QTLs); and further QTLs associated with chromatin, splicing, and cell-type proportions. Integration shows that varying cell-type proportions largely account for the cross-population variation in expression (with >88% reconstruction accuracy). It also allows building of a gene regulatory network, linking genome-wide association study variants to genes (e.g., 321 for schizophrenia). We embed this network into an interpretable deep-learning model, which improves disease prediction by ~6-fold versus polygenic risk scores and identifies key genes and pathways in psychiatric disorders., (Copyright © 2018 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works.)
- Published
- 2018
- Full Text
- View/download PDF
32. Functional assessment of human enhancer activities using whole-genome STARR-sequencing.
- Author
-
Liu Y, Yu S, Dhiman VK, Brunetti T, Eckart H, and White KP
- Subjects
- Cell Line, Chromatin, Chromatin Immunoprecipitation, Genomic Library, High-Throughput Nucleotide Sequencing, Humans, Enhancer Elements, Genetic, Genome, Human, Genomics methods, Whole Genome Sequencing
- Abstract
Background: Genome-wide quantification of enhancer activity in the human genome has proven to be a challenging problem. Recent efforts have led to the development of powerful tools for enhancer quantification. However, because of genome size and complexity, these tools have yet to be applied to the whole human genome., Results: In the current study, we use a human prostate cancer cell line, LNCaP as a model to perform whole human genome STARR-seq (WHG-STARR-seq) to reliably obtain an assessment of enhancer activity. This approach builds upon previously developed STARR-seq in the fly genome and CapSTARR-seq techniques in targeted human genomic regions. With an improved library preparation strategy, our approach greatly increases the library complexity per unit of starting material, which makes it feasible and cost-effective to explore the landscape of regulatory activity in the much larger human genome. In addition to our ability to identify active, accessible enhancers located in open chromatin regions, we can also detect sequences with the potential for enhancer activity that are located in inaccessible, closed chromatin regions. When treated with the histone deacetylase inhibitor, Trichostatin A, genes nearby this latter class of enhancers are up-regulated, demonstrating the potential for endogenous functionality of these regulatory elements., Conclusion: WHG-STARR-seq provides an improved approach to current pipelines for analysis of high complexity genomes to gain a better understanding of the intricacies of transcriptional regulation.
- Published
- 2017
- Full Text
- View/download PDF
33. 4,5,6,7-Tetrahydro-isoxazolo-[4,5-c]-pyridines as a new class of cytotoxic Hsp90 inhibitors.
- Author
-
Baruchello R, Simoni D, Marchetti P, Rondanin R, Mangiola S, Costantini C, Meli M, Giannini G, Vesci L, Carollo V, Brunetti T, Battistuzzi G, Tolomeo M, and Cabri W
- Subjects
- Apoptosis drug effects, Cell Division drug effects, Flow Cytometry, Humans, K562 Cells, Magnetic Resonance Spectroscopy, Pyridines chemistry, Spectrometry, Mass, Electrospray Ionization, HSP90 Heat-Shock Proteins antagonists & inhibitors, Pyridines pharmacology
- Abstract
Hsp90 is considered an interesting therapeutic target for anticancer drug development. Here we describe a new class of 4,5,6,7-tetrahydro-isoxazolo-[4,5-c]-pyridine compounds. A small library of derivatives has been synthesized and investigated. Some reported compounds show interesting properties combining both notable binding to Hsp90 and potent cell growth inhibitory activity. N-5 substitution with a 2,4 resorcinol carboxamide appears crucial for activity. Moreover, a derivative bearing a hydroxamic acid residue bound to C-3 amide portion was found to inhibit both Hsp90 and HDAC6., (Copyright © 2014 Elsevier Masson SAS. All rights reserved.)
- Published
- 2014
- Full Text
- View/download PDF
34. New retinoid derivatives as back-ups of Adarotene.
- Author
-
Giannini G, Brunetti T, Battistuzzi G, Alloatti D, Quattrociocchi G, Cima MG, Merlini L, Dallavalle S, Cincinelli R, Nannei R, Vesci L, Bucci F, Foderà R, Guglielmi MB, Pisano C, and Cabri W
- Subjects
- Animals, Antineoplastic Agents pharmacology, Carcinoma, Non-Small-Cell Lung drug therapy, Cell Line, Tumor, Cell Proliferation drug effects, Esterases metabolism, Humans, Lung Neoplasms drug therapy, Mice, Mice, Nude, Retinoids pharmacology, Retinoids toxicity, Transplantation, Heterologous, Retinoids chemistry
- Abstract
Adarotene belongs to the so-called class of atypical retinoids. The presence of the phenolic hydroxyl group on Adarotene structure allows a rapid O-glucuronidation as a major mechanism of elimination of the drug, favoring a fast excretion of its glucuronide metabolite in the urines. A series of ether, carbamate and ester derivatives was synthesized. All of them were studied and evaluated for their stability at different pH. The cytotoxic activity in vitro on NCI-H460 non-small cell lung carcinoma and A2780 ovarian tumor cell lines was also tested. A potential back-up of Adarotene has been selected to be evaluated in tumor models., (Copyright © 2012 Elsevier Ltd. All rights reserved.)
- Published
- 2012
- Full Text
- View/download PDF
35. Novel 3,4-isoxazolediamides as potent inhibitors of chaperone heat shock protein 90.
- Author
-
Baruchello R, Simoni D, Grisolia G, Barbato G, Marchetti P, Rondanin R, Mangiola S, Giannini G, Brunetti T, Alloatti D, Gallo G, Ciacci A, Vesci L, Castorina M, Milazzo FM, Cervoni ML, Guglielmi MB, Barbarino M, Foderà R, Pisano C, and Cabri W
- Subjects
- Amides chemistry, Amides pharmacology, Animals, Antineoplastic Agents chemistry, Antineoplastic Agents pharmacology, Cell Line, Tumor, Cell Proliferation drug effects, Crystallography, X-Ray, Drug Screening Assays, Antitumor, Female, Humans, Isoxazoles chemistry, Isoxazoles pharmacology, Mice, Mice, Nude, Models, Molecular, Neoplasm Transplantation, Protein Conformation, Resorcinols chemistry, Resorcinols pharmacology, Structure-Activity Relationship, Transplantation, Heterologous, Amides chemical synthesis, Antineoplastic Agents chemical synthesis, HSP90 Heat-Shock Proteins antagonists & inhibitors, Isoxazoles chemical synthesis, Resorcinols chemical synthesis
- Abstract
A structural investigation on the isoxazole scaffold led to the discovery of 3,4-isoxazolediamide compounds endowed with potent Hsp90 inhibitory properties. We have found that compounds possessing a nitrogen atom directly attached to the C-4 heterocycle ring possess in vitro Hsp90 inhibitory properties at least comparable to those of the structurally related 4,5-diarylisoxazole derivatives. A group of compounds from this series of diamides combine potent binding affinity and cell growth inhibitory activity in both series of alkyl- and aryl- or heteroarylamides, with IC50 in the low nanomolar range. The 3,4-isoxazolediamides were also very effective in causing dramatic depletion of the examined client proteins and, as expected for the Hsp90 inhibitors, always induced a very strong increase in the expression levels of the chaperone Hsp70. In vivo studies against human epidermoid carcinoma A431 showed an antitumor effect of morpholine derivative 73 comparable to that induced by the reference compound 10.
- Published
- 2011
- Full Text
- View/download PDF
36. Derivatives of R-aminocarnitine without ammonium moiety as liver carnitine palmitoyltransferase I (L-CPT I) inhibitors.
- Author
-
Tassoni E, Conti R, Gallo G, Vincenti S, Mastrofrancesco L, Brunetti T, Cabri W, and Giannessi F
- Subjects
- Administration, Oral, Animals, Betaine chemistry, Drug Evaluation, Preclinical, Enzyme Inhibitors administration & dosage, Hypoglycemic Agents administration & dosage, Hypoglycemic Agents chemistry, Hypoglycemic Agents pharmacology, Mice, Mice, Inbred Strains, Mitochondria, Heart drug effects, Mitochondria, Heart enzymology, Mitochondria, Liver drug effects, Mitochondria, Liver enzymology, Quaternary Ammonium Compounds chemistry, Rats, Betaine analogs & derivatives, Carnitine chemistry, Carnitine O-Palmitoyltransferase antagonists & inhibitors, Enzyme Inhibitors chemistry, Enzyme Inhibitors pharmacology
- Published
- 2011
- Full Text
- View/download PDF
37. Exploring bis-(indolyl)methane moiety as an alternative and innovative CAP group in the design of histone deacetylase (HDAC) inhibitors.
- Author
-
Giannini G, Marzi M, Marzo MD, Battistuzzi G, Pezzi R, Brunetti T, Cabri W, Vesci L, and Pisano C
- Subjects
- Antineoplastic Agents chemistry, Antineoplastic Agents toxicity, Cell Line, Tumor, Drug Design, Enzyme Inhibitors chemistry, Enzyme Inhibitors toxicity, Histone Deacetylases metabolism, Humans, Hydroxamic Acids chemical synthesis, Hydroxamic Acids chemistry, Indoles chemistry, Indoles toxicity, Protein Structure, Tertiary, Surface Properties, Antineoplastic Agents chemical synthesis, Enzyme Inhibitors chemical synthesis, Histone Deacetylase Inhibitors, Indoles chemical synthesis
- Abstract
In order to gather further knowledge about the structural requirements on histone deacetylase inhibitors (HDACi), starting from the schematic model of the common pharmacophore that characterizes this class of molecules (surface recognition CAP group-connection unit-linker region-Zinc Binding Group), we designed and synthesized a series of hydroxamic acids containing a bis-(indolyl)methane moiety. HDAC inhibition profile and antiproliferative activity were evaluated.
- Published
- 2009
- Full Text
- View/download PDF
38. N-Hydroxy-(4-oxime)-cinnamide: a versatile scaffold for the synthesis of novel histone deacetylase [correction of deacetilase] (HDAC) inhibitors.
- Author
-
Giannini G, Marzi M, Pezzi R, Brunetti T, Battistuzzi G, Marzo MD, Cabri W, Vesci L, and Pisano C
- Subjects
- Antineoplastic Agents chemical synthesis, Antineoplastic Agents pharmacology, Cell Line, Tumor, Cinnamates metabolism, Cinnamates pharmacology, Histone Deacetylases classification, Histone Deacetylases metabolism, Humans, Isoenzymes antagonists & inhibitors, Isoenzymes classification, Isoenzymes metabolism, Protein Binding physiology, Cinnamates chemical synthesis, Histone Deacetylase Inhibitors
- Abstract
With the aim to discover novel HDAC inhibitors with high potency and good safety profiles, we have designed a small library based on a N-hydroxy-(4-oxime)-cinnamide scaffold. We describe the synthesis of these novel compounds and some preliminary in vitro cytotoxic activity on three tumor cell lines, NB4, H460 and HCT116, as well as their inhibitory activity against class I, II and IV HDAC. Several 4-oxime derivatives demonstrated a promising inhibitory activity on HDAC6 and HDAC8 coupled to a good selectivity profile.
- Published
- 2009
- Full Text
- View/download PDF
39. Novel substituted aminoalkylguanidines as potential antihyperglycemic and food intake-reducing agents.
- Author
-
Tassoni E, Giannessi F, Brunetti T, Pessotto P, Renzulli M, Travagli M, Rajamäki S, Prati S, Dottori S, Corelli F, Cabri W, Carminati P, and Botta M
- Subjects
- Animals, Anti-Obesity Agents chemistry, Anti-Obesity Agents pharmacology, Drinking drug effects, Guanidines chemistry, Guanidines pharmacology, Hypoglycemic Agents chemistry, Hypoglycemic Agents pharmacology, Mice, Mice, Inbred C57BL, Structure-Activity Relationship, Anti-Obesity Agents chemical synthesis, Eating drug effects, Guanidines chemical synthesis, Hypoglycemic Agents chemical synthesis
- Abstract
We report the synthesis and evaluation of aminoalkylguanidine analogues and derivatives in C57BL/KsJ db/db diabetic mice, following identification by random screening of 1a and 1b as potential antihyperglycemics and/or modulators of food intake. These compounds are related to galegine, a gamma,gamma-dimethylallylguanidine. Between the newly identified compounds, 1h N-(cyclopropylmethyl)- N'-(4-(aminomethyl)cyclohexylmethyl)guanidine showed the most balanced activity as antihyperglycemic and food intake-reducing agent.
- Published
- 2008
- Full Text
- View/download PDF
40. 2-{3-[2-(4-chlorophenyl)ethoxy]phenylthio}-2-methylpropanoic acid: a fibrate-like compound with hypolipidemic and antidiabetic activity.
- Author
-
Dell'Uomo N, Tassoni E, Brunetti T, Pessotto P, Sciarroni AF, Milazzo FM, De Angelis F, Peschechera A, Tinti MO, Carminati P, and Giannessi F
- Subjects
- Animals, Clofibric Acid chemistry, Clofibric Acid therapeutic use, Hypoglycemic Agents chemistry, Hypolipidemic Agents chemistry, Mice, Molecular Structure, Clofibric Acid analogs & derivatives, Hypoglycemic Agents therapeutic use, Hypolipidemic Agents therapeutic use
- Published
- 2006
- Full Text
- View/download PDF
41. Isolation and pharmacological activities of the Tecoma stans alkaloids.
- Author
-
Costantino L, Raimondi L, Pirisino R, Brunetti T, Pessotto P, Giannessi F, Lins AP, Barlocco D, Antolini L, and El-Abady SA
- Subjects
- Adipocytes metabolism, Alkaloids pharmacology, Animals, Brazil, Diabetes Mellitus, Type 2 drug therapy, Egypt, Glucose metabolism, Hypoglycemic Agents pharmacology, In Vitro Techniques, Male, Mice, Plant Extracts chemistry, Plant Leaves chemistry, Rats, Rats, Wistar, Alkaloids isolation & purification, Bignoniaceae chemistry, Hypoglycemic Agents isolation & purification
- Abstract
Tecoma stans is a plant traditionally used in Mexico for the control of diabetes. Amongst the alkaloids isolated from the plant harvested in Egypt, Tecomine was shown to be one of the compounds responsible for the hypoglycemic action. Given the interest in substances able to treat type II diabetes, we isolated the main alkaloids present in the plant growing in Egypt and Brazil and tested them in vivo on db/db mice. Contrary to previous literature reports on different animal models, Tecomine was unable to modify glycemia; the only effect seen being a decrease in plasma cholesterol levels. On the contrary, when tested in vitro on glucose uptake in white adipocytes, the compound showed a marked effect. The two other alkaloids isolated, namely 5beta-Hydroxyskitanthine, early called Base C, and Boschniakine were inactive both in vivo and in vitro assays.
- Published
- 2003
- Full Text
- View/download PDF
42. Characterization and pharmacological actions of tecostanine, an alkaloid of Tecoma stans.
- Author
-
Costantino L, Lins AP, Barlocco D, Celotti F, el-Abady SA, Brunetti T, Maggi R, and Antolini L
- Subjects
- Animals, Crystallography, X-Ray, Magnetic Resonance Spectroscopy, Male, Mexico, Models, Molecular, Molecular Conformation, Rats, Rats, Sprague-Dawley, Receptors, Nicotinic drug effects, Receptors, Opioid drug effects, Alkaloids chemistry, Alkaloids pharmacology, Bignoniaceae chemistry, Hypoglycemic Agents chemistry, Hypoglycemic Agents pharmacology, Plants, Medicinal chemistry, Terpenes chemistry, Terpenes pharmacology
- Abstract
Tecostanine (1) was isolated from Tecoma stans leaves. Its sterochemistry was elucidated as well as its antihyperglycemic activity and its affinity to opioid and nicotinic receptors. The oxalate salt of 1 did not significantly affect blood glucose levels in normoglycaemic and hyperglycaemic rats. It did not appear to interact with opioid receptors (mu type) and showed only moderate affinity to the nicotinic receptor.
- Published
- 2003
- Full Text
- View/download PDF
43. [Structure and organization of the contractile proteins at the level of the Z and M bands in the sartorius muscles of Rana esculenta treated with methylxanthine (MX)].
- Author
-
Dolcini C, Ciucci Dolcini BM, Fanò G, Menchetti O, Brunetti T, and Capolsini Secca T
- Subjects
- Animals, Caffeine pharmacology, Muscle Contraction drug effects, Rana esculenta, Theophylline pharmacology, Muscle Proteins, Muscles drug effects, Xanthines pharmacology
- Published
- 1976
Catalog
Discovery Service for Jio Institute Digital Library
For full access to our library's resources, please sign in.