125 results on '"Mohit Chawla"'
Search Results
2. Empyema necessitans
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Anu Menon, David Wisa, Chenyang Zhan, Mohit Chawla, and Or Kalchiem‐Dekel
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computed tomography ,empyema necessitans ,thoracic sonography ,Diseases of the respiratory system ,RC705-779 - Abstract
Key message Empyema necessitans should be suspected in any patient presenting with constitutional symptoms, pleural effusion, and a subcutaneous chest wall mass. Thoracic sonography is a readily available tool, which can expedite diagnosis and timely management.
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- 2024
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3. The incremental contribution of mobile cone-beam computed tomography to the tool–lesion relationship during shape-sensing robotic-assisted bronchoscopy
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Bryan C. Husta, Anu Menon, Reza Bergemann, I-Hsin Lin, Jaclyn Schmitz, Rastko Rakočević, Tejaswi R. Nadig, Prasad S. Adusumilli, Jason A. Beattie, Robert P. Lee, Bernard J. Park, Gaetano Rocco, Matthew J. Bott, Mohit Chawla, and Or Kalchiem-Dekel
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Medicine - Abstract
Introduction This study aims to answer the question of whether adding mobile cone-beam computed tomography (mCBCT) imaging to shape-sensing robotic-assisted bronchoscopy (ssRAB) translates into a quantifiable improvement in the tool–lesion relationship. Methods Data from 102 peripheral lung lesions with ≥2 sequential mCBCT orbital spins and from 436 lesions with 0–1 spins were prospectively captured and retrospectively analysed. The primary outcome was the tool–lesion relationship status across the first and the last mCBCT spins. Secondary outcomes included 1) the change in distance between the tip of the sampling tool and the centre of the lesion between the first and the last spins and 2) the per-lesion diagnostic yield. Results Compared to lesions requiring 0–1 spins, lesions requiring ≥2 spins were smaller and had unfavourable bronchus sign and intra-operative sonographic view. On the first spin, 54 lesions (53%) were designated as non-tool-in-lesion (non-TIL) while 48 lesions (47%) were designated as TIL. Of the 54 initially non-TIL cases, 49 (90%) were converted to TIL status by the last spin. Overall, on the last spin, 96 out of 102 lesions (94%) were defined as TIL and six out of 102 lesions (6%) were defined as non-TIL (p
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- 2024
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4. Amino acid ionic liquids as efficient catalysts for CO2 capture: A combined static and dynamic approach
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Abdul Rajjak Shaikh, Anna Vidal-López, Artur Brotons-Rufes, Jason J. Pajski, Sadain Zafar, Raisul Awal Mahmood, Muhammad Usman Khan, Albert Poater, Mohit Chawla, and Luigi Cavallo
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Ionic liquid ,CO2 ,Sustainable catalysis ,Molecular dynamics ,DFT calculations ,Industrial electrochemistry ,TP250-261 - Abstract
Amino acid ionic liquids (AAILs) have gained significant attention as green solvents that are biocompatible, biodegradable, and useful in various applications, including catalysts, absorbents, and solvents. This study investigates the detailed interactions of three amino acid anions (glycine [Gly]-, histidine [His]-, and arginine [Arg]-) with the cation 1-methoxylbutyl-3-methylimidazolium [MOBMIM]+ and their role in CO2 absorption using quantum mechanical calculations and molecular dynamics (MD) simulations. The Density Functional Theory (DFT) calculations elucidate the reaction mechanisms underlying CO2 absorption and cycloaddition, and facilitate a comparative analysis of the impact of different amino acids on these reactions, and the synergies between them. Notably, arginine displays superior CO2 absorption capacity in comparison to glycine and histidine. Additionally, the cycloaddition reaction with CO2 exhibits a lower energy barrier when arginine is involved. Insights from the MD simulations highlight the higher level of electrostatic interaction between [MOBMIM]+[Arg]- and CO2, relative to the other studied molecules. Moreover, the Lennard Jones interaction emerges as the dominant type of interaction in these systems. The diffusion coefficient for CO2 was highest when interacting with [MOBMIM]+[Gly]-, followed by [MOBMIM]+[Arg]-. Consequently, both MD and DFT investigations converge to suggest that [MOBMIM]+[Arg]- followed by [MOBMIM]+[Gly]- may serve as advantageous choices for CO2 fixation and cycloaddition. The findings from this study underscore the considerable potential of the investigated AAILs as materials conducive to CO2 capture and utilization, thus paving the way for the integration of CO2 capture into valuable chemical products.
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- 2024
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5. Immunoinformatics-aided rational design of a multi-epitope vaccine targeting feline infectious peritonitis virus
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Mohit Chawla, Andrés Felipe Cuspoca, Nahid Akthar, Jorge Samuel Leon Magdaleno, Siriluk Rattanabunyong, Chonticha Suwattanasophon, Nathjanan Jongkon, Kiattawee Choowongkomon, Abdul Rajjak Shaikh, Tabarak Malik, and Luigi Cavallo
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feline coronavirus ,feline infectious peritonitis ,vaccine ,immunoinformatics ,reverse vaccinology ,spike protein ,Veterinary medicine ,SF600-1100 - Abstract
Feline infectious peritonitis (FIP) is a grave and frequently lethal ailment instigated by feline coronavirus (FCoV) in wild and domestic feline species. The spike (S) protein of FCoV assumes a critical function in viral ingress and infection, thereby presenting a promising avenue for the development of a vaccine. In this investigation, an immunoinformatics approach was employed to ascertain immunogenic epitopes within the S-protein of FIP and formulate an innovative vaccine candidate. By subjecting the amino acid sequence of the FIP S-protein to computational scrutiny, MHC-I binding T-cell epitopes were predicted, which were subsequently evaluated for their antigenicity, toxicity, and allergenicity through in silico tools. Our analyses yielded the identification of 11 potential epitopes capable of provoking a robust immune response against FIPV. Additionally, molecular docking analysis demonstrated the ability of these epitopes to bind with feline MHC class I molecules. Through the utilization of suitable linkers, these epitopes, along with adjuvants, were integrated to design a multi-epitope vaccine candidate. Furthermore, the stability of the interaction between the vaccine candidate and feline Toll-like receptor 4 (TLR4) was established via molecular docking and molecular dynamics simulation analyses. This suggests good prospects for future experimental validation to ascertain the efficacy of our vaccine candidate in inducing a protective immune response against FIP.
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- 2023
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6. Immunoinformatics Aided Design and In-Vivo Validation of a Cross-Reactive Peptide Based Multi-Epitope Vaccine Targeting Multiple Serotypes of Dengue Virus
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Vikas Kaushik, Sunil Krishnan G, Lovi Raj Gupta, Utkarsh Kalra, Abdul Rajjak Shaikh, Luigi Cavallo, and Mohit Chawla
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immunoinformatic analysis ,dengue (DENV) ,molecular docking & molecular dynamics (MD) simulation ,vaccine design for emerging infections ,multi epitope peptide vaccine ,in vivo study ,Immunologic diseases. Allergy ,RC581-607 - Abstract
Dengue virus (DENV) is an arboviral disease affecting more than 400 million people annually. Only a single vaccine formulation is available commercially and many others are still under clinical trials. Despite all the efforts in vaccine designing, the improvement in vaccine formulation against DENV is very much needed. In this study, we used a roboust immunoinformatics approach, targeting all the four serotypes of DENV to design a multi-epitope vaccine. A total of 13501 MHC II binding CD4+ epitope peptides were predicted from polyprotein sequences of four dengue virus serotypes. Among them, ten conserved epitope peptides that were interferon-inducing were selected and found to be conserved among all the four dengue serotypes. The vaccine was formulated using antigenic, non-toxic and conserved multi epitopes discovered in the in-silico study. Further, the molecular docking and molecular dynamics predicted stable interactions between predicted vaccine and immune receptor, TLR-5. Finally, one of the mapped epitope peptides was synthesized for the validation of antigenicity and antibody production ability where the in-vivo tests on rabbit model was conducted. Our in-vivo analysis clearly indicate that the imunogen designed in this study could stimulate the production of antibodies which further suggest that the vaccine designed possesses good immunogenicity.
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- 2022
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7. Replacing thymine with a strongly pairing fifth Base: A combined quantum mechanics and molecular dynamics study
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Mohit Chawla, Suresh Gorle, Abdul Rajjak Shaikh, Romina Oliva, and Luigi Cavallo
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Nucleic acids ,Quantum chemical studies ,Molecular dynamic studies ,Non-natural base pairs ,Synthetic biology ,Modified bases ,Biotechnology ,TP248.13-248.65 - Abstract
The non-natural ethynylmethylpyridone C-nucleoside (W), a thymidine (T) analogue that can be incorporated in oligonucleotides by automated synthesis, has recently been reported to form a high fidelity base pair with adenosine (A) and to be well accommodated in B-DNA duplexes. The enhanced binding affinity for A of W, as compared to T, makes it an ideal modification for biotechnological applications, such as efficient probe hybridization for the parallel detection of multiple DNA strands. In order to complement the experimental study and rationalize the impact of the non-natural W nucleoside on the structure, stability and dynamics of DNA structures, we performed quantum mechanics (QM) calculations along with molecular dynamics (MD) simulations. Consistently with the experimental study, our QM calculations show that the A:W base pair has an increased stability as compared to the natural A:T pair, due to an additional CH-π interaction. Furthermore, we show that mispairing between W and guanine (G) causes a distortion in the planarity of the base pair, thus explaining the destabilization of DNA duplexes featuring a G:W pair. MD simulations show that incorporation of single or multiple consecutive A:W pairs in DNA duplexes causes minor changes to the intra- and inter-base geometrical parameters, while a moderate widening/shrinking of the major/minor groove of the duplexes is observed. QM calculations applied to selected stacks from the MD simulations also show an increased stacking energy for W, over T, with the neighboring bases.
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- 2021
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8. Four-Dimensional Computed Tomography-Based Correlation of Respiratory Motion of Lung Tumors With Implanted Fiducials and an External Surrogate
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Jonas Willmann, MD, Baho Sidiqi, MD, Chunyu Wang, MD, Christian Czmielewski, Henry J. Li, MD, Rosalind Dick-Godfrey, Mohit Chawla, MD, Robert P. Lee, MD, Emily Gelb, Abraham J. Wu, MD, Michael Lovelock, PhD, Zhigang Zhang, PhD, Ellen D. Yorke, PhD, and Andreas Rimner, MD
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Medical physics. Medical radiology. Nuclear medicine ,R895-920 ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
Purpose: Our purpose was to assess the suitability of airway-implanted internal fiducial markers and an external surrogate of respiratory motion for motion management during radiation therapy of lung tumors. Methods and Materials: We analyzed 4-dimensional computed tomography scans acquired during radiation therapy simulation for 28 patients with lung tumors who had anchored fiducial markers bronchoscopically implanted inside small airways in or near the tumor in a prospective trial. We used a linear mixed model to build population-based correlative models of tumor and surrogate motion. The first 24 of the 28 patients were used to build correlative models, and 4 of the 28 consecutive patients were excluded and used as an internal validation cohort. Of the 24 patients from the model building cohort, all were used for the models based on the internal fiducial. The external surrogate was completely visualized in 11 patients from the model building cohort, so only those were used for the models based on the external surrogate. Furthermore, we determined the predicted residual error sum of squares for our correlative models, which may serve as benchmarks for future research. Results: The motion of the internal fiducials was significantly associated with the tumor motion in the anterior-posterior (P < .0001) and superior-inferior (SI) directions (P < .0001). We also observed a strong correlation of the external surrogate anterior-posterior motion to the tumor dominant SI motion (P < .0001). In the validation cohort, the internal fiducial SI motion was the only reliable predictor of lung tumor motion. Conclusions: The internal fiducials appear to be more reliable predictors of lung tumor motion than the external surrogate. The suitability of such airway-implanted internal fiducial markers for advanced motion management techniques should be further investigated. Although the external surrogate seems to be less reliable, its wide availability and noninvasive application support its clinical utility, albeit the greater uncertainty will need to be compensated for.
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- 2022
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9. Secreted Aspartyl Proteinases Targeted Multi-Epitope Vaccine Design for Candida dubliniensis Using Immunoinformatics
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Nahid Akhtar, Jorge Samuel Leon Magdaleno, Suryakant Ranjan, Atif Khurshid Wani, Ravneet Kaur Grewal, Romina Oliva, Abdul Rajjak Shaikh, Luigi Cavallo, and Mohit Chawla
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Candida dubliniensis ,candidiasis ,immunoinformatics ,molecular docking ,molecular dynamic simulations ,multi-epitope vaccine ,Medicine - Abstract
Candida dubliniensis is an opportunistic pathogen associated with oral and invasive fungal infections in immune-compromised individuals. Furthermore, the emergence of C. dubliniensis antifungal drug resistance could exacerbate its treatment. Hence, in this study a multi-epitope vaccine candidate has been designed using an immunoinformatics approach by targeting C. dubliniensis secreted aspartyl proteinases (SAP) proteins. In silico tools have been utilized to predict epitopes and determine their allergic potential, antigenic potential, toxicity, and potential to elicit interleukin-2 (IL2), interleukin-4 (IL4), and IFN-γ. Using the computational tools, eight epitopes have been predicted that were then linked with adjuvants for final vaccine candidate development. Computational immune simulation has depicted that the immunogen designed emerges as a strong immunogenic candidate for a vaccine. Further, molecular docking and molecular dynamics simulation analyses revealed stable interactions between the vaccine candidate and the human toll-like receptor 5 (TLR5). Finally, immune simulations corroborated the promising candidature of the designed vaccine, thus calling for further in vivo investigation.
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- 2023
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10. Immunoinformatics-Aided Design of a Peptide Based Multiepitope Vaccine Targeting Glycoproteins and Membrane Proteins against Monkeypox Virus
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Nahid Akhtar, Vikas Kaushik, Ravneet Kaur Grewal, Atif Khurshid Wani, Chonticha Suwattanasophon, Kiattawee Choowongkomon, Romina Oliva, Abdul Rajjak Shaikh, Luigi Cavallo, and Mohit Chawla
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monkeypox ,monkeypox virus ,immunoinformatics ,epitope-based vaccine ,orthopoxvirus ,reverse vaccinology ,Microbiology ,QR1-502 - Abstract
Monkeypox is a self-limiting zoonotic viral disease and causes smallpox-like symptoms. The disease has a case fatality ratio of 3–6% and, recently, a multi-country outbreak of the disease has occurred. The currently available vaccines that have provided immunization against monkeypox are classified as live attenuated vaccinia virus-based vaccines, which pose challenges of safety and efficacy in chronic infections. In this study, we have used an immunoinformatics-aided design of a multi-epitope vaccine (MEV) candidate by targeting monkeypox virus (MPXV) glycoproteins and membrane proteins. From these proteins, seven epitopes (two T-helper cell epitopes, four T-cytotoxic cell epitopes and one linear B cell epitopes) were finally selected and predicted as antigenic, non-allergic, interferon-γ activating and non-toxic. These epitopes were linked to adjuvants to design a non-allergic and antigenic candidate MPXV-MEV. Further, molecular docking and molecular dynamics simulations predicted stable interactions between predicted MEV and human receptor TLR5. Finally, the immune-simulation analysis showed that the candidate MPXV-MEV could elicit a human immune response. The results obtained from these in silico experiments are promising but require further validation through additional in vivo experiments.
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- 2022
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11. Success and failure of additional immune modulators in steroid-refractory/resistant pneumonitis related to immune checkpoint blockade
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Jia Luo, Hira Rizvi, Margaret Callahan, Jason Beattie, Paige Fuentes, Adam Schoenfeld, I-Hsin Lin, Neil J Shah, and Mohit Chawla
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Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
Background Pneumonitis related to immune checkpoint blockade is uncommon but can be severe, fatal or chronic. Steroids are first-line treatment, however, some patients are refractory or become resistant to steroids. Like many immune-related adverse events, little is known regarding the outcomes and optimal management of patients in whom steroids are ineffective.Methods We performed a single-center retrospective cohort study at a high-volume tertiary cancer center to evaluate the clinical course, management strategies and outcomes of patients treated for immune checkpoint pneumonitis with immune modulatory medications in addition to systemic steroids. Pharmacy records were queried for patients treated with both immune checkpoint blockade and receipt of additional immune modulators. Records were then manually reviewed to identify patients who received the additional immune modulators for immune checkpoint pneumonitis.Results From 2013 to 2020, we identified 26 patients treated for immune checkpoint pneumonitis with additional immune modulators in addition to steroids. Twelve patients (46%) were steroid-refractory and 14 (54%) were steroid-resistant. Pneumonitis severity included grade 2 (42%) or grade 3–4 (58%). Additional immune modulation consisted of tumor necrosis factor-alpha inhibitor (77%) and/or mycophenolate (23%). Durable improvement in pneumonitis following initiation of additional immune modulators occurred in 10 patients (38%), including three patients (12%) in whom pneumonitis resolved and all immunosuppressants ceased. The rate of 90-day all-cause mortality/hospice referral was 50%. At last follow-up, mortality attributable to pneumonitis was 23%. In addition to mortality from pneumonitis and cancer, 3 patients (12%) died due to infections possibly associated with immunosuppression.Conclusions Steroid-refractory or -resistant immune checkpoint pneumonitis is uncommon but associated with significant morbidity and mortality. Additional immunomodulators can yield durable improvement, attained in over one third of patients. An improved understanding of the underlying biology of immune-related pneumonitis will be crucial to guide more precise and effective treatment strategies in the future.
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- 2021
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12. Collaborating with interventional pulmonology in managing a massive tracheoesophageal fistula that extends from cricoid to carina: a case report
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Luis E. Tollinche, Mohit Chawla, Eunice W. Lee, and A. Rolando Peralta
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Tracheoesophageal fistula ,Bronchoscopy ,Tracheal stent ,Esophageal stent ,Jet ventilation ,Anesthesiology ,RD78.3-87.3 ,Medical emergencies. Critical care. Intensive care. First aid ,RC86-88.9 - Abstract
Abstract Tracheoesophageal fistulas (TEF) present a perioperative management challenge. A 62 year-old man with esophageal carcinoma presented with a large tracheoesophageal fistula extending most of the trachea. Previously, the patient had two overlapping esophageal and one tracheal stent placed, but he developed progressive tracheal disruption due to esophageal stent perforation near the level of the cricoid. This case describes the anesthetic management of tracheal stent placement for an expanding TEF. Management included a spontaneous breathing inhalation induction followed by ventilation through a supraglottic device—laryngeal mask airway (LMA). Finally, during rigid bronchoscopy, a combination of bag ventilation and jet ventilation was utilized.
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- 2017
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13. Structural Insights in Mammalian Sialyltransferases and Fucosyltransferases: We Have Come a Long Way, but It Is Still a Long Way Down
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Ravneet Kaur Grewal, Abdul Rajjak Shaikh, Suresh Gorle, Manjeet Kaur, Paula Alexendra Videira, Luigi Cavallo, and Mohit Chawla
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sialyltransferase ,fucosyltransferase ,glyocosyltransferases in cancer ,drug design ,Organic chemistry ,QD241-441 - Abstract
Mammalian cell surfaces are modified with complex arrays of glycans that play major roles in health and disease. Abnormal glycosylation is a hallmark of cancer; terminal sialic acid and fucose in particular have high levels in tumor cells, with positive implications for malignancy. Increased sialylation and fucosylation are due to the upregulation of a set of sialyltransferases (STs) and fucosyltransferases (FUTs), which are potential drug targets in cancer. In the past, several advances in glycostructural biology have been made with the determination of crystal structures of several important STs and FUTs in mammals. Additionally, how the independent evolution of STs and FUTs occurred with a limited set of global folds and the diverse modular ability of catalytic domains toward substrates has been elucidated. This review highlights advances in the understanding of the structural architecture, substrate binding interactions, and catalysis of STs and FUTs in mammals. While this general understanding is emerging, use of this information to design inhibitors of STs and FUTs will be helpful in providing further insights into their role in the manifestation of cancer and developing targeted therapeutics in cancer.
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- 2021
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14. Pesticides Curbing Soil Fertility: Effect of Complexation of Free Metal Ions
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Sukhmanpreet Kaur, Vijay Kumar, Mohit Chawla, Luigi Cavallo, Albert Poater, and Niraj Upadhyay
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organophosphate ,carbamate ,pesticide ,complex ,soil ,complexation ,Chemistry ,QD1-999 - Abstract
Researchers have suggested that the reason behind infertility is pernicious effect of broad spectrum pesticides on non target, beneficial microorganism of soil. Here, studying the chelating effect of selective organophosphate and carbamate pesticides with essential metal ions, at all possible combinations of three different pH (4 ± 0.05, 7 ± 0.05 and 9 ± 0.05) and three different temperatures (15 ± 0.5°C, 30 ± 0.5°C and 45 ± 0.5°C), shows very fast rate of reaction which further increases with increase of pH and temperature. Carbonyl oxygen of carbamate and phosphate oxygen of organophosphate were found to be common ligating sites among all the complexes. Formed metal complexes were found to be highly stable and water insoluble on interaction with essential metal ions in solvent medium as well as over silica. Density functional theory (DFT) calculations not only reinforced the experimental observations, but, after a wide computational conformational analysis, unraveled the nature of the high stable undesired species that consist of pesticides complexed by metal ions from the soil. All in all, apart from the direct toxicity of pesticides, the indirect effect by means of complexation of free metal ions impoverishes the soil.
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- 2017
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15. Disguised Faces in the Wild 2019.
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Maneet Singh, Mohit Chawla, Richa Singh 0001, Mayank Vatsa, and Rama Chellappa
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- 2019
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16. RecBoard: A Web-based Platform for Recommendation System Research and Development.
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Mohit Chawla, Kriti Singh, Longqi Yang, and Deborah Estrin
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- 2019
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17. Attitudinal data based server job scheduling using genetic algorithms: Client-centric job scheduling for single threaded servers.
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Mohit Chawla, Kriti Singh, and Chiranjeev Kumar
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- 2016
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18. Occurrence and stability of anion–π interactions between phosphate and nucleobases in functional RNA molecules
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Mohit Chawla, Kanav Kalra, Zhen Cao, Luigi Cavallo, and Romina Oliva
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Anions ,Guanine ,RNA, Untranslated ,Genetics ,Thermodynamics ,RNA ,Uracil ,Phosphates - Abstract
We present a systematic structural and energetic characterization of phosphate(OP)–nucleobase anion…π stacking interactions in RNAs. We observed OP–nucleobase stacking contacts in a variety of structural motifs other than regular helices and spanning broadly diverse sequence distances. Apart from the stacking between a phosphate and a guanine or a uracil two-residue upstream in specific U-turns, such interactions in RNA have been scarcely characterized to date. Our QM calculations showed an energy minimum at a distance between the OP atom and the nucleobase plane centroid slightly below 3 Å for all the nucleobases. By sliding the OP atom over the nucleobase plane we localized the optimal mutual positioning of the stacked moieties, corresponding to an energy minimum below -6 kcal•mol−1, for all the nucleobases, consistently with the projections of the OP atoms over the different π-rings we observed in experimental occurrences. We also found that the strength of the interaction clearly correlates with its electrostatic component, pointing to it as the most relevant contribution. Finally, as OP–uracil and OP–guanine interactions represent together 86% of the instances we detected, we also proved their stability under dynamic conditions in model systems simulated by state-of-the art DFT-MD calculations.
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- 2022
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19. A Comparison of Data Exchange Mechanisms for Real-Time Communication.
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Mohit Chawla, Siba Mishra, Kriti Singh, and Chiranjeev Kumar
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- 2017
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20. Immunoinformatics-Aided Design and In Vivo Validation of a Peptide-Based Multiepitope Vaccine Targeting Canine Circovirus
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Vikas Kaushik, Pankaj Jain, Nahid Akhtar, Amit Joshi, Lovi Raj Gupta, Ravneet Kaur Grewal, Romina Oliva, Abdul Rajjak Shaikh, Luigi Cavallo, and Mohit Chawla
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immunoinformatics ,canine circovirus ,MD simulations ,multiepitope vaccine ,molecular docking ,Pharmacology ,Pharmacology (medical) - Published
- 2022
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21. ML4Cure: Machine Learning for Healthcare
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Milind Rane, Mohit Chawla, Aniket. P. More, Mokshit Oswal, Mohit Burchunde, and Aniket. A. More
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- 2023
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22. Polyfund: Polygon - Based Crowdfunding Dapp
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Milind Rane, Smita Mande, Mustansir Bohari, Asif Mursal, Vinit Mundhada, Omkar Mundlik, Mohit Chawla, and Jayesh Mundphane
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- 2023
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23. Randomized Phase 2 Placebo-Controlled Trial of Nintedanib for the Treatment of Radiation Pneumonitis
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Andreas Rimner, Zachary R. Moore, Stephanie Lobaugh, Alexander Geyer, Daphna Y. Gelblum, Raja-Elie E. Abdulnour, Annemarie F. Shepherd, Narek Shaverdian, Abraham J. Wu, John Cuaron, Jamie E. Chaft, Marjorie G. Zauderer, Juliana Eng, Gregory J. Riely, Charles M. Rudin, Nicholas Vander Els, Mohit Chawla, Megan McCune, Henry Li, David R. Jones, Dennis M. Sopka, Charles B. Simone, Raymond Mak, Gerald L. Weinhouse, Zhongxing Liao, Daniel R. Gomez, Zhigang Zhang, and Paul K. Paik
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Cancer Research ,Radiation ,Oncology ,Radiology, Nuclear Medicine and imaging - Published
- 2023
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24. Linux-Tomcat Application Performance on Amazon AWS.
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Neil J. Gunther and Mohit Chawla
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- 2018
25. Solitary Lung Nodule: Ct Guided Transthoracic Biopsy Vs Transbronchial Biopsy With Endobronchial Ultrasound and Flexible Bronchoscope, a Meta-analysis of Randomized Controlled Trials
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An Thi Nhat Ho, Ramya Gorthi, Robert Lee, Mohit Chawla, and Setu Patolia
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Pulmonary and Respiratory Medicine - Abstract
Background Transbronchial lung biopsy with radial endobronchial ultrasound (rEBUS-TBB) and Computed tomography (CT) scan guided transthoracic biopsy (CT-TTB) are commonly used to investigate peripheral lung nodules but high quality data is still not clear about the diagnostic and safety profile comparison of these two modalities. Method We included all randomized controlled trials (RCT) comparing rEBUS-TBB with a flexible bronchoscope and CT-TTB for solitary lung nodules. Two reviewers extracted data independently on diagnostic performance and complication rates. Results 170 studies were screened, 4 RCT with total of 325 patients were included. CT-TTB had a higher diagnostic yield than rEBUS-TBB (83.45% vs 68.82%, risk difference − 0.15, 95% CI, [-0.24,-0.05]), especially for lesion size 1–2 cm (83% vs 50%, risk difference − 0.33, 95% CI, [-0.51,-0.14]). For malignant diseases, rEBUS-TBB had a combined diagnostic yield of 75.75% vs 87.7% of CT-TTB. rEBUS-TBB had a significant better safety profile with lower risk of pneumothorax (2.87% vs 21.43%, OR = 0.12, 95% CI [0.05–0.32]) and combined outcomes of hospital admission, hemorrhage and pneumothorax (8.62% vs 31.81%, OR 0.21, 95% CI, [0.11–0.40]). Factors increasing diagnostic yield of rEBUS were lesion size and localization of the probe but not the distance to the chest wall, hilum nor probe localizing adjacent to the lesion. Conclusion CT-TTB has a higher diagnostic yield than rEBUS-TBB in diagnosing peripheral lung nodules, particularly for lesions from 1 cm to 2 cm. However, rEBUS-TBB is significantly safer with five to eight times less risk of pneumothorax and composite complications of hospital admission, hemorrhage and pneumothorax.
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- 2022
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26. Hemoptysis Associated With Percutaneous Transthoracic Needle Biopsy: Development of Critical Events Checklist and Procedure Outcomes
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Mary S. Dietrich, Matthew Kennedy, Alexandra Solomon, Perri Pardini, Stephen B. Solomon, Piera C. Robson, Alan Kotin, Mohit Chawla, Terrah Foster Akard, and David O'Connor
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Advanced and Specialized Nursing ,medicine.medical_specialty ,Percutaneous ,Radiological and Ultrasound Technology ,medicine.diagnostic_test ,business.industry ,Critical event ,General surgery ,Incidence (epidemiology) ,LATERAL DECUBITUS ,Interventional radiology ,030204 cardiovascular system & hematology ,Article ,Checklist ,030218 nuclear medicine & medical imaging ,03 medical and health sciences ,0302 clinical medicine ,Chart review ,medicine ,business ,Transthoracic needle biopsy - Abstract
BACKGROUND: A percutaneous transthoracic needle biopsy (PTNB) is performed to obtain tissue for a pathologic diagnosis. A PTNB is necessary prior to the initiation of many cancer treatments. There is a risk of hemoptysis, the expectoration of blood, with the possibility for adverse, life-threatening outcomes. A critical event checklist is a cognitive aid used in an emergency to ensure critical steps are followed. To date, there are no known checklists published for management of PTNB-related, life-threatening hemoptysis. The purpose of this report is to describe the development and implementation of a critical event checklist and the adoption of the checklist into hemoptysis management. METHODS: In March 2017, a process improvement team convened to evaluate the hemoptysis response using the Plan-Do-Study-Act (PDSA) methodology. The checklist was evaluated and updated through September 2019. The team educated Interventional Radiology (IR) clinicians on the new checklist and conducted simulations on its use. A retrospective chart review was performed on hemoptysis events between the ten-year period of October 1, 2008 and September 30, 2018 to evaluate the adoption of the checklist into practice. RESULTS: There were 231 hemoptysis events occurring in 229 patients (2 with repeat biopsies). Prior to implementing the protocol and checklist, there were 166 (71.9%) hemoptysis events. After implementation there were 65 (28.1%) events. The median amount of documented blood expectorated with hemoptysis was 100 mL (IQR 20.0–300.0). Twenty-six patients were admitted after PTNB for reasons related to the hemoptysis event (11.3%). During the procedure, four (1.7%) patients with hemoptysis suffered a cardiac arrest. Prior to implementation of the protocol and critical events checklist, nurses positioned patients in the lateral decubitus (LD) position in 40 out of 162 (24.7%) cases. After implementation of the critical events checklist, nurses positioned patients in the LD position 42 out of 65 cases (64.6%) (OR=5.57(95% CI 2.99–10.367), p
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- 2021
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27. A data-oriented (and beyond) network architecture.
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Teemu Koponen, Mohit Chawla, Byung-Gon Chun, Andrey Ermolinskiy, Kye Hyun Kim, Scott Shenker, and Ion Stoica
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- 2007
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28. Feasibility of shape-sensing robotic-assisted bronchoscopy for biomarker identification in patients with thoracic malignancies
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James G, Connolly, Or, Kalchiem-Dekel, Kay See, Tan, Joe, Dycoco, Mohit, Chawla, Gaetano, Rocco, Bernard J, Park, Robert P, Lee, Jason A, Beattie, Stephen B, Solomon, Etay, Ziv, Prasad S, Adusumilli, Darren J, Buonocore, Bryan C, Husta, David R, Jones, Marina K, Baine, and Matthew J, Bott
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Pulmonary and Respiratory Medicine ,Surgery ,Cardiology and Cardiovascular Medicine - Abstract
Molecular diagnostic assays require samples with high nucleic acid content to generate reliable data. Similarly, programmed death-ligand 1 (PD-L1) immunohistochemistry (IHC) requires samples with adequate tumor content. We investigated whether shape-sensing robotic-assisted bronchoscopy (ssRAB) provides adequate samples for molecular and predictive testing.We retrospectively identified diagnostic samples from a prospectively collected database. Pathologic reports were reviewed to assess adequacy of samples for molecular testing and feasibility of PD-L1 IHC. Tumor cellularity was quantified by an independent pathologist using paraffin-embedded sections. Univariable and multivariable linear regression models were constructed to assess associations between lesion- and procedure-related variables and tumor cellularity.In total, 128 samples were analyzed: 104 primary lung cancers and 24 metastatic lesions. On initial pathologic assessment, ssRAB samples were deemed to be adequate for molecular testing in 84% of cases; on independent review of cellular blocks, median tumor cellularity was 60% (interquartile range, 25%-80%). Hybrid capture-based next-generation sequencing was successful for 25 of 26 samples (96%), polymerase chain reaction-based molecular testing (Idylla; Biocartis) was successful for 49 of 52 samples (94%), and PD-L1 IHC was successful for 61 of 67 samples (91%). Carcinoid and small cell carcinoma histologic subtype and adequacy on rapid on-site evaluation were associated with higher tumor cellularity.The ssRAB platform provided adequate tissue for next-generation sequencing, polymerase chain reaction-based molecular testing, and PD-L1 IHC in80% of cases. Tumor histology and adequacy on intraoperative cytologic assessment might be associated with sample quality and suitability for downstream assays.
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- 2022
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29. COVID-19 Impact on Interventional Pulmonology Training
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A. Christine Argento, Audra J. Schwalk, Niral M Patel, Ashutosh Sachdeva, Or Kalchiem-Dekel, I-Hsin Lin, Neeraj R. Desai, Robert Lee, David W. Hsia, Bryan Husta, Jason Akulian, Jason Beattie, Hans J. Lee, Mohit Chawla, John J. Mullon, and Ali I. Musani
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training ,Coronavirus disease 2019 (COVID-19) ,genetic structures ,business.industry ,COVID-19 ,General Medicine ,Disease ,medicine.disease_cause ,medicine.disease ,Patient care ,Interventional pulmonology ,Pandemic ,Health care ,medicine ,Resource use ,interventional pulmonology ,survey ,Medical emergency ,business ,Coronavirus ,Original Research - Abstract
Background: The impact of the coronavirus disease (COVID-19) pandemic extends beyond the realms of patient care and healthcare resource use to include medical education; however, the repercussions of COVID-19 on the quality of training and trainee perceptions have yet to be explored. Objective: The purpose of this study was to determine the degree of interventional pulmonology (IP) fellows’ involvement in the care of COVID-19 and its impact on fellows’ clinical education, procedure skills, and postgraduation employment search. Methods: An internet-based survey was validated and distributed among IP fellows in North American fellowship training programs. Results: Of 40 eligible fellows, 38 (95%) completed the survey. A majority of fellows (76%) reported involvement in the care of patients with COVID-19. Fellows training in the Northeast United States reported involvement in the care of a higher number of patients with COVID-19 than in other regions (median, 30 [interquartile range, 20–50] vs. 10 [5–13], respectively; P
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- 2021
30. Multiplanar <scp>3D</scp> fluoroscopy redefines tool–lesion relationship during robotic‐assisted bronchoscopy
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Or Kalchiem-Dekel, Jason Beattie, Mohit Chawla, Robert Lee, Bryan Husta, Matthew J. Bott, and Paige Fuentes
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Pulmonary and Respiratory Medicine ,Lesion ,medicine.medical_specialty ,Bronchoscopy ,medicine.diagnostic_test ,Robotic assisted ,business.industry ,medicine ,Radiology ,3d fluoroscopy ,medicine.symptom ,business ,Intraoperative imaging - Published
- 2020
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31. Can bronchoscopically implanted anchored electromagnetic transponders be used to monitor tumor position and lung inflation during deep inspiration breath-hold lung radiotherapy?
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Wendy Harris, Ellen Yorke, Henry Li, Christian Czmielewski, Mohit Chawla, Robert P. Lee, Alexandra Hotca‐Cho, Dominique McKnight, Andreas Rimner, and D. Michael Lovelock
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Breath Holding ,Lung Neoplasms ,Radiotherapy Planning, Computer-Assisted ,Humans ,General Medicine ,Prospective Studies ,Lung ,Article ,Retrospective Studies - Abstract
To evaluate the efficacy of using bronchoscopically implanted anchored electromagnetic transponders (EMTs) as surrogates for 1) tumor position and 2) repeatability of lung inflation during deep-inspiration breath-hold (DIBH) lung radiotherapy.Forty-one patients treated with either hypofractionated (HF) or conventional (CF) lung radiotherapy on an IRB-approved prospective protocol using coached DIBH were evaluated for this study. Three anchored EMTs were bronchoscopically implanted into small airways near or within the tumor. DIBH treatment was gated by tracking the EMT positions. Breath-hold cone-beam-CTs (CBCTs) were acquired prior to every HF treatment or weekly for CF patients. Retrospectively, rigid registrations between each CBCT and the breath-hold planning CT were performed to match to 1) spine, 2) EMTs and 3) tumor. Absolute differences in registration between EMTs and spine were analyzed to determine surrogacy of EMTs for lung inflation. Differences in registration between EMTs and the tumor were analyzed to determine surrogacy of EMTs for tumor position. The stability of the EMTs was evaluated by analyzing the difference between inter-EMT displacements recorded at treatment from that of the plan for the CF patients, as well as the geometric residual (GR) recorded at the time of treatment.A total of 219 CBCTs were analyzed. The average differences between EMT centroid and spine registration among all CBCTs were 0.45±0.42 cm, 0.29±0.28 cm, and 0.18±0.15 cm in superior-inferior (SI), anterior-posterior (AP) and lateral directions, respectively. Only 59% of CBCTs had differences in registration 0.5 cm for EMT centroid compared to spine, indicating that lung inflation is not reproducible from simulation to treatment. The average differences between EMT centroid and tumor registration among all CBCTs were 0.13±0.13 cm, 0.14±0.13 cm and 0.12±0.12 cm in SI, AP and lateral directions, respectively. Ninety-five percent of CBCTs resulted in a 0.5 cm change between EMT centroid and tumor registration, indicating that EMT positions correspond well with tumor position during treatments. Six out of the seven recorded CF patients had average differences in inter-EMT displacements ≤0.26 cm and average GR ≤0.22 cm, indicating that the EMTs are stable throughout treatment.Bronchoscopically implanted anchored EMTs are good surrogates for tumor position and are reliable for maintaining tumor position when tracked during DIBH treatment, as long as the tumor size and shape are stable. Large differences in registration between EMTs and spine for many treatments suggest that lung inflation achieved at simulation is often not reproduced.
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- 2022
32. Photocatalytic degradation of aromatic pollutants using plasmonic Cu–Ag nanocomposites
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Bulti Pramanick, Mohit Chawla, and Prem Felix Siril
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Inorganic Chemistry ,Organic Chemistry ,Electrical and Electronic Engineering ,Physical and Theoretical Chemistry ,Atomic and Molecular Physics, and Optics ,Spectroscopy ,Electronic, Optical and Magnetic Materials - Published
- 2023
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33. List of contributors
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Keshaw Ram Aadil, Md. Azahar Ali, Bhuvaneshwari Balasubramaniam, Tandrima Banerjee, Souravi Bardhan, Jayesh Bellare, Snehasis Biswas, Naveen Bunekar, Richa Chaturvedi, Abhishek Chaudhary, Gaurav Chauhan, Mohit Chawla, Antonella V. Dan Córdoba, Sukhen Das, Alokmay Datta, Anca Dinischiotu, Sunil Dutt, Suparna Dutta-Sinha, Nirmal G. R., Mónica C. García, Bidipta Ghosh, Agnivo Gosai, Kishan Gugulothu, Abhishek Gupta, Abhishek Kumar Gupta, Ankur Gupta, Raju Kumar Gupta, Uttam Gupta, James Hartmann, Monsur Islam, Vinay Kishnani, Jan G. Korvink, Ashwani Kumar, Raj Kumar, Rudra Kumar, Yogeenth Kumaresan, Lingeshwar Reddy Kumbam, Genevieve M. Liddle, Marcela Longhi, Dario Mager, Shweta J. Malode, Venkateswarulu Mangili, Miguel Manso Silvan, Sergio O. Martinez-Chapa, Vivek K. Mishra, Jaba Mitra, Joyee Mitra, Mousumi Mitra, Kunal Mondal, Nagaraju Nakka, Ionela Cristina Nica, Yegor Piskarev, Praveen Kumar Poola, Guruprasad Reddy Pulikanti, Nitin Puri, Yuhao Qiang, Darsi Rambabu, Shubham Roy, Ahsana Sadaf, Prateep Singh Sagara, Abhijit Samanta, Deepika Sandil, Konathala Ravi Shankar, Nagaraj P. Shetti, Jun Shintake, Miruna Silvia Stan, null Suchitra, Jazmín Torres, Paula M. Uberman, Jianning Wei, Anshul Yadav, and Midathala Yogesh
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- 2022
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34. Nanomaterials of metal and metal oxides for optical biosensing application
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Sunil Dutt, Abhishek Kumar Gupta, Keshaw Ram Aadil, Naveen Bunekar, Vivek K. Mishra, Raj Kumar, Abhishek Gupta, Abhishek Chaudhary, Ashwani Kumar, Mohit Chawla, and Kishan Gugulothu
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- 2022
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35. Selective absorption of H2S and CO2 by azole based protic ionic liquids: A combined density functional theory and molecular dynamics study
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Abdul Rajjak Shaikh, Sergio Posada-Pérez, Artur Brotons-Rufes, Jason J. Pajski, null Vajiha, Gulshan Kumar, Ayesha Mateen, Albert Poater, Miquel Solà, Mohit Chawla, and Luigi Cavallo
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Materials Chemistry ,Physical and Theoretical Chemistry ,Condensed Matter Physics ,Spectroscopy ,Atomic and Molecular Physics, and Optics ,Electronic, Optical and Magnetic Materials - Published
- 2022
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36. Long-Term Pulmonary Outcomes of a Feasibility Study of Inverse-Planned, Multibeam Intensity Modulated Radiation Therapy in Node-Positive Breast Cancer Patients Receiving Regional Nodal Irradiation
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Preeti Parhar, M. Zinovoy, Åse Ballangrud, Daphna Y. Gelblum, Karen Borofsky, Kate Krause, Beryl McCormick, P.R. Dutta, Simon N. Powell, Boris Mueller, Guang Li, Borys Mychalczak, Natasha Freeman, Brittany Arnold, C.T. Siu, Mohit Chawla, Lior Z. Braunstein, Marsha Reyngold, Gaorav P. Gupta, Zachary Cost, Alice Y. Ho, R.M. Gewanter, and Zhigang Zhang
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Organs at Risk ,Cancer Research ,Time Factors ,medicine.medical_treatment ,Pilot Projects ,Mastectomy, Segmental ,030218 nuclear medicine & medical imaging ,Pulmonary function testing ,0302 clinical medicine ,Clinical endpoint ,Radiation treatment planning ,Lung ,Radiation ,Incidence ,Heart ,Radiotherapy Dosage ,Common Terminology Criteria for Adverse Events ,Middle Aged ,Respiratory Function Tests ,medicine.anatomical_structure ,Oncology ,030220 oncology & carcinogenesis ,Female ,Radiology ,Mastectomy ,Adult ,medicine.medical_specialty ,Breast Neoplasms ,Article ,03 medical and health sciences ,Breast cancer ,medicine ,Humans ,Radiology, Nuclear Medicine and imaging ,Thoracic Wall ,Aged ,Probability ,Lymphatic Irradiation ,business.industry ,Radiotherapy Planning, Computer-Assisted ,medicine.disease ,Radiation Pneumonitis ,Radiation therapy ,Feasibility Studies ,Lymph Nodes ,Radiotherapy, Intensity-Modulated ,Neoplasm Recurrence, Local ,business ,Follow-Up Studies - Abstract
Purpose Multibeam intensity modulated radiation therapy (IMRT) enhances the therapeutic index by increasing the dosimetric coverage of the targeted tumor tissues while minimizing volumes of adjacent organs receiving high doses of RT. The tradeoff is that a greater volume of lung is exposed to low doses of RT, raising concern about the risk of radiation pneumonitis (RP). Methods and Materials Between July 2010 and January 2013, patients with node-positive breast cancer received inverse-planned, multibeam IMRT to the breast or chest wall and regional nodes, including the internal mammary nodes (IMNs). The primary endpoint was feasibility, predefined by dosimetric treatment planning criteria. Secondary endpoints included the incidence of RP grade 3 or greater and changes in pulmonary function measured with the Common Terminology Criteria for Adverse Events version 3.0 scales, pulmonary function tests and community-acquired pneumonia questionnaires, obtained at baseline and 6 months after IMRT. Clinical follow-up was every 6 months for up to 5 years. Results Median follow-up was 53.4 months (range, 0-82 months). Of 113 patients enrolled, 104 completed follow-up procedures. Coverage of the breast or chest wall and IMN was comprehensive (median 48.1 Gy and 48.9 Gy, respectively). The median volume of lung receiving a high dose (V20Gy) and a low dose (V5) was 29% and 100%, respectively. The overall rate of respiratory toxicities was 10.6% (11/104), including 1 grade 3 RP event (0.96%). No differences were found in pulmonary function test or community-acquired pneumonia scores after IMRT. The 5-year rates of locoregional recurrence-free, disease-free, and overall survival were 93.2%, 63.6%, and 80.3%, respectively. Conclusions Multibeam IMRT in patients with breast cancer receiving regional nodal irradiation was dosimetrically feasible, based on early treatment planning criteria. Despite the large volume of lung receiving low-dose RT, the incidence of grade 3 RP was remarkably low, justifying inverse-planned IMRT as a treatment modality for patients with high-risk breast cancer in whom conventional RT techniques prove inadequate.
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- 2019
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37. An evolving role for endobronchial ultrasonography in the intensive care unit
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Or Kalchiem-Dekel, Cosmin Gauran, Robert Lee, Mohit Chawla, Jason Beattie, Bryan Husta, and Saamia Hossain
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Pulmonary and Respiratory Medicine ,Endobronchial ultrasonography ,medicine.medical_specialty ,Mediastinal lymphadenopathy ,medicine.diagnostic_test ,business.industry ,Critically ill ,medicine.disease ,Intensive care unit ,Review Article on Interventional Pulmonology in the Intensive Care Unit ,law.invention ,Pulmonary embolism ,Bronchoscopy ,law ,Medicine ,Sampling (medicine) ,business ,Intensive care medicine ,Airway - Abstract
Endobronchial ultrasound (EBUS) bronchoscopy is an established minimally-invasive modality for visualization, characterization, and guidance of sampling of paratracheal and parabronchial structures and tissues. In the intensive care unit (ICU), rapidly obtaining an accurate diagnosis is paramount to the management of critically ill patients. In some instances, diagnosing and confirming terminal illness in a critically ill patient provides needed closure for patients and their loved ones. Currently available data on feasibility, safety, and yield of EBUS bronchoscopy in critically ill patients is based on single center experiences. These data suggest that in select ICU patients convex and radial probe-EBUS bronchoscopy can serve as useful tools in the evaluation of mediastinal lymphadenopathy, central airway obstruction, pulmonary embolism, and peripheral lung lesions. Barriers to the use of EBUS bronchoscopy in the ICU include: (I) requirement for dedicated equipment, prolonged procedure time, and bronchoscopy team expertise that may not be available; (II) applicability to a limited number of patients and conditions in the ICU; and (III) technical difficulty related to the relatively large outer diameter of the convex probe-EBUS bronchoscope and an increased risk for adverse cardiopulmonary consequences due to intermittent obstruction of the artificial airway. While the prospects for EBUS bronchoscopy in critically ill patients appear promising, judicious patient selection in combination with bronchoscopy team expertise are of utmost importance when considering performance of EBUS bronchoscopy in the ICU setting.
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- 2021
38. Structural Insights in Mammalian Sialyltransferases and Fucosyltransferases: We Have Come a Long Way, but It Is Still a Long Way Down
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Abdul Rajjak Shaikh, Suresh Gorle, Mohit Chawla, Ravneet K Grewal, Luigi Cavallo, Paula Alexendra Videira, and Manjeet Kaur
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Glycan ,sialyltransferase ,Fucosyltransferase ,Glycosylation ,Sialyltransferase ,drug design ,Pharmaceutical Science ,Organic chemistry ,Computational biology ,Review ,Fucose ,Catalysis ,Analytical Chemistry ,Abnormal glycosylation ,Fucosyltransferases ,chemistry.chemical_compound ,QD241-441 ,Catalytic Domain ,Drug Discovery ,Animals ,Humans ,Physical and Theoretical Chemistry ,Fucosylation ,Mammals ,biology ,Drug discovery ,glyocosyltransferases in cancer ,fucosyltransferase ,Sialyltransferases ,chemistry ,Chemistry (miscellaneous) ,biology.protein ,Molecular Medicine - Abstract
Mammalian cell surfaces are modified with complex arrays of glycans that play major roles in health and disease. Abnormal glycosylation is a hallmark of cancer; terminal sialic acid and fucose in particular have high levels in tumor cells, with positive implications for malignancy. Increased sialylation and fucosylation are due to the upregulation of a set of sialyltransferases (STs) and fucosyltransferases (FUTs), which are potential drug targets in cancer. In the past, several advances in glycostructural biology have been made with the determination of crystal structures of several important STs and FUTs in mammals. Additionally, how the independent evolution of STs and FUTs occurred with a limited set of global folds and the diverse modular ability of catalytic domains toward substrates has been elucidated. This review highlights advances in the understanding of the structural architecture, substrate binding interactions, and catalysis of STs and FUTs in mammals. While this general understanding is emerging, use of this information to design inhibitors of STs and FUTs will be helpful in providing further insights into their role in the manifestation of cancer and developing targeted therapeutics in cancer.
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- 2021
39. Shape-Sensing Robotic-Assisted Bronchoscopy in the Diagnosis of Pulmonary Parenchymal Lesions
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Mohit Chawla, Bernard J. Park, Joseph Dycoco, Paige Fuentes, Gaetano Rocco, Jason Beattie, Matthew J. Bott, Robert Lee, Or Kalchiem-Dekel, Darren J. Buonocore, David R. Jones, James G. Connolly, I.-Hsin Lin, Bryan Husta, and Prasad S. Adusumilli
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Pulmonary and Respiratory Medicine ,Male ,medicine.medical_specialty ,Lung Neoplasms ,Robotic assisted ,Critical Care and Intensive Care Medicine ,Thoracic Oncology: Original Research ,Sensitivity and Specificity ,Lesion ,Bronchoscopy ,Interquartile range ,medicine ,Humans ,In patient ,Sampling (medicine) ,Aged ,Retrospective Studies ,Univariate analysis ,medicine.diagnostic_test ,business.industry ,Robotics ,Middle Aged ,Feasibility Studies ,Female ,Radiology ,medicine.symptom ,Cardiology and Cardiovascular Medicine ,Airway ,business - Abstract
BACKGROUND: The landscape of guided bronchoscopy for the sampling of pulmonary parenchymal lesions is evolving rapidly. Shape-sensing robotic-assisted bronchoscopy (ssRAB) recently was introduced as means to allow successful sampling of traditionally challenging lesions. RESEARCH QUESTION: What are the feasibility, diagnostic yield, determinants of diagnostic sampling, and safety of ssRAB in patients with pulmonary lesions? STUDY DESIGN AND METHODS: Data from 131 consecutive ssRAB procedures performed at a US-based cancer center between October 2019 and July 2020 were captured prospectively and analyzed retrospectively. Definitions of diagnostic procedures were based on prior standards. Associations of procedure- and lesion-related factors with diagnostic yield were examined by univariate and multivariate generalized linear mixed models. RESULTS: A total of 159 pulmonary lesions were targeted during 131 ssRAB procedures. The median lesion size was 1.8 cm, 59.1% of lesions were in the upper lobe, and 66.7% of lesions were beyond a sixth-generation airway. The navigational success rate was 98.7%. The overall diagnostic yield was 81.7%. Lesion size of ≥ 1.8 cm and central location were associated significantly with a diagnostic procedure in the univariate analysis. In the multivariate model, lesions of ≥ 1.8 cm were more likely to be diagnostic compared with lesions < 1.8 cm, after adjusting for lung centrality (OR, 12.22; 95% CI, 1.66-90.10). The sensitivity and negative predictive value of ssRAB for primary thoracic malignancies were 79.8% and 72.4%, respectively. The overall complication rate was 3.0%, and the pneumothorax rate was 1.5%. INTERPRETATION: This study was the first to provide comprehensive evidence regarding the usefulness and diagnostic yield of ssRAB in the sampling of pulmonary parenchymal lesions. ssRAB may represent a significant advancement in the ability to access and sample successfully traditionally challenging pulmonary lesions via the bronchoscopic approach, while maintaining a superb safety profile. Lesion size seems to remain the major predictor of a diagnostic procedure.
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- 2021
40. EARLIER RADIOGRAPHIC DETECTION OF MALIGNANT AIRWAY OBSTRUCTION BY INTERVENTIONAL PULMONOLOGISTS HIGHLIGHTS IMPORTANCE OF DEDICATED RADIOGRAPHIC REVIEW OF THE AIRWAYS
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Saamia Hossain, Robert M.K.W. Lee, Mohit Chawla, Svetlana Visotski, I-Hsin Lin, Paige Fuentes, Jason Beattie, Or Kalchiem-Dekel, and Bryan Husta
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Pulmonary and Respiratory Medicine ,medicine.medical_specialty ,business.industry ,Radiography ,Medicine ,Radiology ,Airway obstruction ,Cardiology and Cardiovascular Medicine ,Critical Care and Intensive Care Medicine ,business ,medicine.disease ,Pulmonologists - Published
- 2021
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41. Success and failure of additional immune modulators in steroid-refractory/resistant pneumonitis related to immune checkpoint blockade
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Michael A. Postow, Matthew D. Hellmann, Hira Rizvi, Jason Beattie, Mohit Chawla, Allison Betof Warner, Adam J. Schoenfeld, Martin H. Voss, Margaret K. Callahan, Jia Luo, I-Hsin Lin, Paige Fuentes, and Neil J. Shah
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Oncology ,Male ,Cancer Research ,medicine.medical_specialty ,Time Factors ,medicine.medical_treatment ,Immunology ,Drug Resistance ,03 medical and health sciences ,Immunomodulating Agents ,0302 clinical medicine ,Immune system ,Internal medicine ,medicine ,Immunology and Allergy ,Humans ,030212 general & internal medicine ,Adverse effect ,Immune Checkpoint Inhibitors ,RC254-282 ,Pneumonitis ,Aged ,Retrospective Studies ,Pharmacology ,Clinical/Translational Cancer Immunotherapy ,business.industry ,Cancer ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,Immunosuppression ,Retrospective cohort study ,Immunotherapy ,Pneumonia ,Middle Aged ,medicine.disease ,Immune checkpoint ,Treatment Outcome ,inflammation ,030220 oncology & carcinogenesis ,Molecular Medicine ,Female ,New York City ,Steroids ,immunotherapy ,business - Abstract
BackgroundPneumonitis related to immune checkpoint blockade is uncommon but can be severe, fatal or chronic. Steroids are first-line treatment, however, some patients are refractory or become resistant to steroids. Like many immune-related adverse events, little is known regarding the outcomes and optimal management of patients in whom steroids are ineffective.MethodsWe performed a single-center retrospective cohort study at a high-volume tertiary cancer center to evaluate the clinical course, management strategies and outcomes of patients treated for immune checkpoint pneumonitis with immune modulatory medications in addition to systemic steroids. Pharmacy records were queried for patients treated with both immune checkpoint blockade and receipt of additional immune modulators. Records were then manually reviewed to identify patients who received the additional immune modulators for immune checkpoint pneumonitis.ResultsFrom 2013 to 2020, we identified 26 patients treated for immune checkpoint pneumonitis with additional immune modulators in addition to steroids. Twelve patients (46%) were steroid-refractory and 14 (54%) were steroid-resistant. Pneumonitis severity included grade 2 (42%) or grade 3–4 (58%). Additional immune modulation consisted of tumor necrosis factor-alpha inhibitor (77%) and/or mycophenolate (23%). Durable improvement in pneumonitis following initiation of additional immune modulators occurred in 10 patients (38%), including three patients (12%) in whom pneumonitis resolved and all immunosuppressants ceased. The rate of 90-day all-cause mortality/hospice referral was 50%. At last follow-up, mortality attributable to pneumonitis was 23%. In addition to mortality from pneumonitis and cancer, 3 patients (12%) died due to infections possibly associated with immunosuppression.ConclusionsSteroid-refractory or -resistant immune checkpoint pneumonitis is uncommon but associated with significant morbidity and mortality. Additional immunomodulators can yield durable improvement, attained in over one third of patients. An improved understanding of the underlying biology of immune-related pneumonitis will be crucial to guide more precise and effective treatment strategies in the future.
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- 2021
42. Enzymatic Formation of an Artificial Base Pair Using a Modified Purine Nucleoside Triphosphate
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Piet Herdewijn, Philippe Marliere, Gilles Gasser, Pascal Röthlisberger, Marcel Hollenstein, Luigi Cavallo, Fabienne Levi-Acobas, Mohit Chawla, Marie Flamme, Romina Oliva, Chimie bioorganique des acides nucléiques - Bioorganic chemistry of nucleic acids, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), King Abdullah University of Science and Technology (KAUST), Universita degli studi di Napoli 'Parthenope' [Napoli], Institute of Chemistry for Life and Health Sciences (iCLeHS), Ecole Nationale Supérieure de Chimie de Paris - Chimie ParisTech-PSL (ENSCP), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Génopole [Evry], Université d'Évry-Val-d'Essonne (UEVE), Institut de biologie systémique et synthétique (ISSB), Université d'Évry-Val-d'Essonne (UEVE)-Centre National de la Recherche Scientifique (CNRS), Rega Institute for Medical Research [Leuven, België], Catholic University of Leuven - Katholieke Universiteit Leuven (KU Leuven), The authors gratefully acknowledge financial support from Institut Pasteur. We thank Mr. Germain Niogret for his help for the preparation of the cover picture featuring this article. The start-up company DNA Script is acknowledged for help in the UPLC-MS analysis of the oligonucleotides. L.C. and M.C. acknowledge King Abdullah University of Science and Technology (KAUST) for support and the KAUST Supercomputing Laboratory for providing computational resources of the supercomputer Shaheen II. R.O. thanks MIUR-FFABR (Fondo per il Finanziamento Attività Base di Ricerca) for funding. This work was financially supported by an ERC Consolidator Grant PhotoMedMet to G.G. (GA 681679) and has received support under the program 'Investissements d’ Avenir' launched by the French Government and implemented by the ANR with the reference ANR-10-IDEX-0001-02 PSL (G.G.)., ANR-10-IDEX-0001,PSL,Paris Sciences et Lettres(2010), European Project: 681679, H2020-EU.1.1. - EXCELLENT SCIENCE - European Research Council (ERC),681679,PhotoMedMet(2017), Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS), and Università degli Studi di Napoli 'Parthenope' = University of Naples (PARTHENOPE)
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0301 basic medicine ,Models, Molecular ,Silver ,Base pair ,[CHIM.THER]Chemical Sciences/Medicinal Chemistry ,01 natural sciences ,Biochemistry ,03 medical and health sciences ,Synthetic biology ,chemistry.chemical_compound ,Polyphosphates ,Nucleotide ,Base Pairing ,Density Functional Theory ,chemistry.chemical_classification ,DNA synthesis ,010405 organic chemistry ,General Medicine ,DNA ,Purine Nucleosides ,Genetic code ,Combinatorial chemistry ,0104 chemical sciences ,030104 developmental biology ,chemistry ,Biocatalysis ,Genetic Code ,Nucleoside triphosphate ,Nucleic acid ,Molecular Medicine - Abstract
International audience; The expansion of the genetic alphabet with additional, unnatural base pairs (UBPs) is an important and long-standing goal in synthetic biology. Nucleotides acting as ligands for the coordination of metal cations have advanced as promising candidates for such an expansion of the genetic alphabet. However, the inclusion of artificial metal base pairs in nucleic acids mainly relies on solid-phase synthesis approaches, and very little is known about polymerase-mediated synthesis. Herein, we report the selective and high yielding enzymatic construction of a silver-mediated base pair (dImC–AgI–dPurP) as well as a two-step protocol for the synthesis of DNA duplexes containing such an artificial metal base pair. Guided by DFT calculations, we also shed light into the mechanism of formation of this artificial base pair as well as into the structural and energetic preferences. The enzymatic synthesis of the dImC–AgI–dPurP artificial metal base pair provides valuable insights for the design of future, more potent systems aiming at expanding the genetic alphabet.
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- 2020
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43. An Alignment of Sorts: Tracheo-Vertebral Body Fistula
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Mohit Chawla, J.M. See, Or Kalchiem-Dekel, and Saamia Hossain
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Vertebral body ,business.industry ,Fistula ,medicine ,Anatomy ,medicine.disease ,business - Published
- 2020
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44. Exceptional Catalytic Activities and Sensing Performance of Palladium Decorated Anisotropic Gold Nanoparticles
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Mohit Chawla, Anu Kumari, and Prem Felix Siril
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Materials science ,chemistry.chemical_element ,02 engineering and technology ,General Chemistry ,010402 general chemistry ,021001 nanoscience & nanotechnology ,01 natural sciences ,0104 chemical sciences ,Catalysis ,symbols.namesake ,chemistry ,Chemical engineering ,Colloidal gold ,symbols ,0210 nano-technology ,Anisotropy ,Raman spectroscopy ,Palladium - Published
- 2018
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45. Theoretical characterization of sulfur-to-selenium substitution in an emissive RNA alphabet: impact on H-bonding potential and photophysical properties
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Pau Besalú-Sala, Romina Oliva, Luigi Cavallo, Mohit Chawla, Kanav Kalra, and Albert Poater
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Models, Molecular ,0301 basic medicine ,Pyrimidine ,Base pair ,General Physics and Astronomy ,010402 general chemistry ,01 natural sciences ,Nucleobase ,Selenium ,03 medical and health sciences ,chemistry.chemical_compound ,Bathochromic shift ,Physical and Theoretical Chemistry ,Base Pairing ,HOMO/LUMO ,Hydrogen bond ,Hydrogen Bonding ,Time-dependent density functional theory ,0104 chemical sciences ,Crystallography ,Pyrimidines ,030104 developmental biology ,chemistry ,Purines ,Nucleic Acid Conformation ,RNA ,Thermodynamics ,Density functional theory ,Sulfur - Abstract
We employ density functional theory (DFT) and time-dependent DFT (TDDFT) calculations to investigate the structural, energetic and optical properties of a new computationally designed RNA alphabet, where the nucleobases, tsA, tsG, tsC, and tsU (ts-bases), have been derived by replacing sulfur with selenium in the previously reported tz-bases, based on the isothiazolo[4,3-d]pyrimidine heterocycle core. We find out that the modeled non-natural bases have minimal impact on the geometry and energetics of the classical Watson-Crick base pairs, thus potentially mimicking the natural bases in a RNA duplex in terms of H-bonding. In contrast, our calculations indicate that H-bonded base pairs involving the Hoogsteen edge of purines are destabilized as compared to their natural counterparts. We also focus on the photophysical properties of the non-natural bases and correlate their absorption/emission peaks to the strong impact of the modification on the energy of the lowest unoccupied molecular orbital. It is indeed stabilized by roughly 1.1-1.6 eV as compared to the natural analogues, resulting in a reduction of the gap between the highest occupied and the lowest unoccupied molecular orbital from 5.3-5.5 eV in the natural bases to 3.9-4.2 eV in the modified ones, with a consequent bathochromic shift in the absorption and emission spectra. Overall, our analysis clearly indicates that the newly modelled ts-bases are expected to exhibit better fluorescent properties as compared to the previously reported tz-bases, while retaining similar H-bonding properties. In addition, we show that a new RNA alphabet based on size-extended benzo-homologated ts-bases can also form stable Watson-Crick base pairs with the natural complementary nucleobases.
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- 2018
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46. Complexation of trichlorosalicylic acid with alkaline and first row transition metals as a switch for their antibacterial activity
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Hemlata Chadar, Niraj Upadhyay, Vijay Kumar, Luigi Cavallo, Abdul Basit Wani, Mohit Chawla, Anu Manhas, Albert Poater, and Sukhmanpreet Kaur
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010405 organic chemistry ,Chemistry ,Ligand ,Inorganic chemistry ,010402 general chemistry ,01 natural sciences ,Binding constant ,0104 chemical sciences ,Inorganic Chemistry ,Metal ,Octahedron ,Transition metal ,visual_art ,Materials Chemistry ,visual_art.visual_art_medium ,Chelation ,Physical and Theoretical Chemistry ,Selectivity ,Antibacterial activity ,Nuclear chemistry - Abstract
Although, 3,5,6-Trichlorosalicylic acid (TCSA) does not show good antibacterial activity, but its metal complexes have shown better activity for the selected bacterial strains with good degree of selectivity. Amongst the eight synthesized essential metal complexes of TCSA, Mn(II)-TCSA and Ni(II)-TCSA have been found to be more effective with MIC range of 20–50 µg/L as compared to control (chloramphenicol). The activity of an individual complex against different microbes was not identical, indicating the usage of an individual metal chelate against a targeted bacterial strain. Besides, the protein (BSA) binding constant of TCSA and its metal complexes were determined and ordered as Ca(II)-TCSA > Cu(II)-TCSA > Mg(II)-TCSA ≫ Mn(II)-TCSA ≫ Zn(II)-TCSA >>> Ni(II)-TCSA >>> Co(II)-TCSA > Fe(II)-TCSA > TCSA. The present study has confirmed enhanced antibacterial activity and binding constants for the metal chelates of TCSA in comparison to free TCSA, which seems directly related with the antioxidant activity of these complexes. Further, bearing the ambiguity related to the structural characterization of the metal complexed with TCSA ligand, DFT calculations have been employed as the tool to unravel the right environment around the metals, studying basically the relative stability of square planar and octahedral metal complexes of TCSA.
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- 2018
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47. Adsorption of industrial dyes on functionalized and nonfunctionalized asphaltene: A combined molecular dynamics and quantum mechanics study
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Shamsh Pervez, Ismail Abdulazeez, Abdul Rajjak Shaikh, Omobayo Adio Salawu, Mohammad Nahid Siddiqui, Luigi Cavallo, Mohit Chawla, and Ahmed Abdi Hassan
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chemistry.chemical_classification ,Bromophenol blue ,02 engineering and technology ,010402 general chemistry ,021001 nanoscience & nanotechnology ,Condensed Matter Physics ,01 natural sciences ,Atomic and Molecular Physics, and Optics ,0104 chemical sciences ,Electronic, Optical and Magnetic Materials ,chemistry.chemical_compound ,Molecular dynamics ,Adsorption ,chemistry ,Chemical engineering ,Materials Chemistry ,Methyl orange ,Non-covalent interactions ,Molecular orbital ,Density functional theory ,Physical and Theoretical Chemistry ,0210 nano-technology ,Spectroscopy ,Asphaltene - Abstract
Dyes are major water pollutants due to their large-scale industrial applications. Dyes adversely impact both aquatic and human health. Thus, they require efficient removal from water bodies. Adsorption is an effective method for removing dyes from polluted water. In this study, we simulated the adsorption of bromophenol blue, methylene blue, and methyl orange by asphaltene and its functionalized version. Adsorption was simulated using molecular dynamics (MD) and density functional theory (DFT) calculations. Our results indicated that functionalized and nonfunctionalized dyes have varying interaction energies depending on the nature of the dye. MD simulations indicated that methylene blue tends to have a stronger interaction with asphaltene than the other dyes. Methyl orange bound more strongly with the functionalized asphaltene (FASP) than with the other dyes. Bromophenol blue dye demonstrated weak interaction with both types of asphaltene. DFT calculations were conducted to understand the nature and strength of the interactions between the dyes and asphaltene. In this study, we also analyzed binding energy, electrostatic potential, frontier molecular orbitals, and noncovalent interactions. The DFT and MD analyses supported the experimental finding that FASP is a better adsorbent of dyes than nonfunctionalized asphaltene.
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- 2021
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48. Tumor Xenografts of Human Clear Cell Renal Cell Carcinoma But Not Corresponding Cell Lines Recapitulate Clinical Response to Sunitinib: Feasibility of Using Biopsy Samples
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Song Han, Nicole Benfante, Martin H. Voss, Chung-Han Lee, Jeremy C. Durack, Maria F. Becerra, Maria E. Arcila, John H. Healey, James J. Hsieh, Mohit Chawla, Brandon J. Manley, Nicola Fabbri, Yiyu Dong, A. Ari Hakimi, Omer Aras, Robert J. Motzer, Patrick J. Boland, Almedina Redzematovic, Jozefina Casuscelli, Jonathan A. Coleman, Ying-Bei Chen, Ed Reznik, Daniel M. Tennenbaum, Emily H. Cheng, Darren R. Feldman, and Paul Russo
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Male ,0301 basic medicine ,medicine.medical_specialty ,Pathology ,Urology ,medicine.medical_treatment ,Transplantation, Heterologous ,Antineoplastic Agents ,Mice, SCID ,Kidney ,Article ,Targeted therapy ,Random Allocation ,03 medical and health sciences ,0302 clinical medicine ,Mice, Inbred NOD ,Renal cell carcinoma ,Cell Line, Tumor ,Biopsy ,Sunitinib ,medicine ,Animals ,Humans ,Carcinoma, Renal Cell ,Aged ,medicine.diagnostic_test ,business.industry ,Biopsy, Needle ,Histology ,Middle Aged ,medicine.disease ,Xenograft Model Antitumor Assays ,Kidney Neoplasms ,Clear cell renal cell carcinoma ,Treatment Outcome ,030104 developmental biology ,030220 oncology & carcinogenesis ,Cancer research ,Feasibility Studies ,Heterografts ,Female ,Histopathology ,business ,Clear cell ,medicine.drug - Abstract
Background Parallel development of preclinical models that recapitulate treatment response observed in patients is central to the advancement of personalized medicine. Objective To evaluate the use of biopsy specimens to develop patient-derived xenografts and the use of corresponding cell lines from renal cell carcinoma (RCC) tumors for the assessment of histopathology, genomics, and treatment response. Design, setting, and participants A total of 74 tumor specimens from 66 patients with RCC were implanted into immunocompromised NOD- SCID IL2Rg −/− mice. Four cell lines generated from patients' specimens with clear cell pathology were used for comparative studies. Outcome measurements and statistical analysis Preclinical models were established and assessed. Engraftment rates were analyzed using chi-square testing. Analysis of variance (two-way analysis of variance) was conducted to assess tumor growth. Results and limitations Overall, 33 RCC mouse xenograft models were generated with an overall engraftment rate of 45% (33 of 74). Tumor biopsies engrafted comparably with surgically resected tumors (58% vs 41%; p =0.3). Xenograft tumors and their original tumors showed high fidelity in regard to histology, mutation status, copy number change, and targeted therapy response. Engraftment rates from metastatic tumors were higher but not more significant than primary tumors (54% vs 34%; p =0.091). Our engraftment rate using metastases or biopsies was comparable with recent reports using resected primary tumors. In stark contrast to corresponding cell lines, all tested xenografts recapitulated patients' clinical response to sunitinib. Conclusions Patient-derived xenograft models can be effectively established from tumor biopsies. Preclinical xenograft models but not matched cell lines reflected clinical responses to sunitinib. Patient summary Matched patient-derived clear cell renal cell carcinoma xenografts and cell lines from responsive and refractory patients treated with sunitinib were established and evaluated for pharmacologic response to anti–vascular endothelial growth factor treatment. Both models accurately reflected the genetic characteristics of original tumors, but only xenografts recapitulated drug responses observed in patients. These models could serve as a powerful platform for precision medicine.
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- 2017
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49. A Comparison of Data Exchange Mechanisms for Real-Time Communication
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Siba Mishra, Chiranjeev Kumar, Mohit Chawla, and Kriti Singh
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Data exchange ,Real-time communication ,Computer science ,Real-time computing - Abstract
While web applications continue to employ traditional client-server model, most of the current applications demand real time bi-directional communication. In such setups, data exchanges between both the parties (client and server) are very frequent. Thus, performance of the network is subject to various factors decided by the choice of data exchange mechanism. This shows that the choice of data exchange mechanism is vital to performance of a web-application employing it. This paper compares various data exchange mechanisms with respect to factors affecting real time web applications. While the absolute values of benchmarking may vary with the systems, the relative difference between them can be used as a reference for selecting a mechanism for an application. Hence, this paper can be used as a reference to choose appropriate data exchange mechanism for the concerned application.
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- 2017
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50. Controlling the morphology of layered double hydroxides of Mn and Co and their exceptional catalytic activities
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Soumitra K. Sengupta, Prem Felix Siril, Reena Dubey, Mohit Chawla, and Gurdip Singh
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Thermogravimetric analysis ,Materials science ,Inorganic chemistry ,Thermal decomposition ,Layered double hydroxides ,02 engineering and technology ,engineering.material ,010402 general chemistry ,021001 nanoscience & nanotechnology ,Condensed Matter Physics ,Ammonium perchlorate ,01 natural sciences ,0104 chemical sciences ,Crystallinity ,chemistry.chemical_compound ,Differential scanning calorimetry ,chemistry ,X-ray photoelectron spectroscopy ,Transmission electron microscopy ,engineering ,Physical and Theoretical Chemistry ,0210 nano-technology ,Instrumentation - Abstract
Layered double hydroxides (LDHs) of Mn with Co were successfully synthesized via polyol reduction method. Morphology and particle size of the LDHs were thoroughly characterized using advanced techniques such as transmission electron microscopy, field emission scanning electron microscopy and atomic force microscopy. The elemental composition of the composites was studied with energy dispersive X-ray analysis and X-ray photoelectron spectroscopy. Morphology of the LDHs varied from small irregular particles to larger aggregates with increasing the reaction temperatures viz. 50, 70, 110, 150 and 200 °C. The meso-ordering, crystallinity and chemical composition also varied with change in reaction temperature. The LDHs enhanced the burning rates of composite solid propellants to many folds. Simultaneous thermo gravimetric analysis – differential scanning calorimetry revealed that the burning rate enhancement by the LDHs was due to their exceptional catalytic activity in the thermal decomposition of ammonium perchlorate. The LDH that was synthesized at 110 °C was found to be the best catalyst among all.
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- 2017
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