S. Chakrabarti

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Analysis and prediction of functionally important sites in proteins

S. Chakrabarti, C. Lanczycki, 2007, Protein science : a publication of the Protein Society.

Identification of Important Effector Proteins in the FOXJ1 Transcriptional Network Associated With Ciliogenesis and Ciliary Function

S. Chakrabarti, Ishita Mukherjee, Sudipto Roy, 2019, Front. Genet..

Assessment of a Rigorous Transitive Profile Based Search Method to Detect Remotely Similar Proteins

N Srinivasan, K R Abhinandan, K. R. Abhinandan, 2005, Journal of biomolecular structure & dynamics.

Classification and prediction of protein–protein interaction interface using machine learning algorithm

S. Chakrabarti, Subhrangshu Das, 2021, Scientific Reports.

Functional specificity lies within the properties and evolutionary changes of amino acids.

Anna R Panchenko, Stephen H Bryant, Saikat Chakrabarti, 2007, Journal of molecular biology.

Co-evolutionary landscape at the interface and non-interface regions of protein-protein interaction complexes

S. Chakrabarti, Ishita Mukherjee, 2021, bioRxiv.

Origin and Evolution of DNA methyltransferases (DNMT) along the tree of life: A multi-genome survey

S. Chakrabarti, S. De, M. Bhattacharyya, 2020, bioRxiv.

Analysis of Pan-omics Data in Human Interactome Network (APODHIN)

S. Chakrabarti, Nupur Biswas, K. Kumar, 2020, Frontiers in Genetics.

PresRAT: a server for identification of bacterial small-RNA sequences and their targets with probable binding region

S. Chakrabarti, Abhijit Chakraborty, K. Kumar, 2020, RNA biology.

Regions of minimal structural variation among members of protein domain superfamilies: application to remote homology detection and modelling using distant relationships

Saikat Chakrabarti, R Sowdhamini, S. Chakrabarti, 2004, FEBS letters.

Identification and molecular characterization of an Alba-family protein from human malaria parasite Plasmodium falciparum

S. Chakrabarti, U. Bandyopadhyay, M. S. Iqbal, 2011, Nucleic acids research.

Identification of important interacting proteins (IIPs) in Plasmodium falciparum using large-scale interaction network analysis and in-silico knock-out studies

S. Chakrabarti, M. Bhattacharyya, 2015, Malaria Journal.

Coevolution in defining the functional specificity

Anna R Panchenko, Saikat Chakrabarti, A. Panchenko, 2009, Proteins.

Binding mode analysis of a major T3SS translocator protein PopB with its chaperone PcrH from Pseudomonas aeruginosa

S. Chakrabarti, Abhijit Chakraborty, S. Dey, 2014, Proteins.

Cholesterol lowering drug may influence cellular immune response by altering MHC II function[S]

S. Chakrabarti, Syamal Roy, M. Ghosh, 2013, Journal of Lipid Research.

Amino-alcohol Bio-conjugate of Naproxen Exhibits Anti-inflammatory Activity through NF-κB Signaling Pathway

S. Chakrabarti, S. Jana, S. Sarkar, 2020, bioRxiv.

Enhanced basepair dynamics pre-disposes protein-assisted flips of key bases in DNA strand separation during transcription initiation.

S. Chakrabarti, Siddhartha Roy, R. Ghosh, 2018, Physical chemistry chemical physics : PCCP.

RNA-Seq Revealed Expression of Many Novel Genes Associated With Leishmania donovani Persistence and Clearance in the Host Macrophage

S. Chakrabarti, A. Tripathi, M. Shadab, 2019, Front. Cell. Infect. Microbiol..

Identification of internalin-A-like virulent proteins in Leishmania donovani

S. Chakrabarti, Ishita Mukherjee, Abhijit Chakraborty, 2016, Parasites & Vectors.

Ubiquitin Ligase COP1 Controls Hepatic Fat Metabolism by Targeting ATGL for Degradation

S. Chakrabarti, P. Chakrabarti, M. Bhattacharyya, 2016, Diabetes.

A chemical inhibitor of heat shock protein 78 (HSP78) from Leishmania donovani represents a potential antileishmanial drug candidate

S. Chakrabarti, N. Ali, Sonali Das, 2020, The Journal of Biological Chemistry.

Ubiquitin-Like Protein from Human Placental Extract Exhibits Collagenase Activity

S. Chakrabarti, K. Sharma, D. Bhattacharyya, 2013, PloS one.

Consortia of bioactives in supercritical carbon dioxide extracts of mustard and small cardamom seeds lower serum cholesterol levels in rats: new leads for hypocholesterolaemic supplements from spices

S. Chakrabarti, P. Bhattacharjee, Shrabani Pradhan, 2019, Journal of Nutritional Science.

Cytosolic aggregates in presence of non‐translocated proteins perturb endoplasmic reticulum structure and dynamics

R. Sougrat, S. Chakrabarti, Subhrangshu Das, 2019, Traffic.

Hedgehog Antagonist Pyrimidine–Indole Hybrid Molecule Inhibits Ciliogenesis through Microtubule Destabilisation

S. Chakrabarti, Taniya Saha, Surajit Sinha, 2018, Chembiochem : a European journal of chemical biology.

Quinoline–Glycomimetic Conjugates Reducing Lipogenesis and Lipid Accumulation in Hepatocytes

S. Chakrabarti, S. Mukherjee, P. Chakrabarti, 2018, Chembiochem : a European journal of chemical biology.

A Novel Role for Protein Kinase Kin2 in Regulating HAC1 mRNA Translocation, Splicing, and Translation

S. Chakrabarti, Abhijit Chakraborty, Madhusudan Dey, 2014, Molecular and Cellular Biology.

PresRAT: A server for identification of bacterial small-RNA sequences and their targets with probable binding region

S. Chakrabarti, Abhijit Chakraborty, K. Kumar, 2020, bioRxiv.

Loss of tumor susceptibility gene 101 (TSG101) perturbs endoplasmic reticulum structure and function.

S. Chakrabarti, Subhrangshu Das, Debdatto Mookherjee, 2020, Biochimica et biophysica acta. Molecular cell research.

USP7 targets XIAP for cancer progression: Establishment of a p53-independent therapeutic avenue for glioma

S. Chakrabarti, M. Ghosh, K. Kumar, 2022, Oncogene.

Prediction of functionally important sites from protein sequences using sparse kernel least squares classifiers.

P. Suganthan, G. Pugalenthi, S. Chakrabarti, 2009, Biochemical and biophysical research communications.

Structural and functional characterization of the Vindoline biosynthesis pathway enzymes of Catharanthus roseus

S. Chakrabarti, Anindyajit Banerjee, Harshita Tiwari, 2018, Journal of Molecular Modeling.

CMT2A‐linked mitochondrial hyperfusion‐driving mutant MFN2 perturbs ER‐mitochondrial associations and Ca2+ homeostasis

S. Chakrabarti, Subhrangshu Das, O. Chakrabarti, 2022, Biology of the cell.

Genome characterization, phylogenomic assessment and spatio-temporal dynamics study of highly mutated BA variants from India

S. Chakrabarti, P. Chakrabarti, Poulomi Sarkar, 2022, Indian journal of medical microbiology.

Quinoxaline derivatives disrupt the base stacking of hepatitis C virus-internal ribosome entry site RNA: reduce translation and replication.

S. Chakrabarti, Saumitra Das, K. Kumar, 2019, Chemical communications.

Artificial Intelligence (AI)-Based Systems Biology Approaches in Multi-Omics Data Analysis of Cancer

Saikat Chakrabarti, Nupur Biswas, S. Chakrabarti, 2020, Frontiers in Oncology.

Discovery of novel pyrido-pyrrolidine hybrid compounds as alpha-glucosidase inhibitors and alternative agent for control of type 1 diabetes.

S. Chakrabarti, Venkanna Banothu, Tania Luthra, 2020, European journal of medicinal chemistry.

SCANMOT: searching for similar sequences using a simultaneous scan of multiple sequence motifs

Ramanathan Sowdhamini, Nitin Bhardwaj, Ganesan Pugalenthi, 2005, Nucleic Acids Res..

Bioisosteric modification of known fucosidase inhibitors to discover a novel inhibitor of α-L-fucosidase

S. Chakrabarti, S. Sen, Shailja Singh, 2017 .

Supercritical carbon dioxide extracts of small cardamom and yellow mustard seeds have fasting hypoglycaemic effects: diabetic rat, predictive iHOMA2 models and molecular docking study

S. Chakrabarti, T. Pal, P. Bhattacharjee, 2020, British Journal of Nutrition.

Ensemble approach to predict specificity determinants: benchmarking and validation

Anna R. Panchenko, Saikat Chakrabarti, A. Panchenko, 2009, BMC Bioinformatics.

There is a report that lowering of membrane cholesterol decreases expansion of the immune repertoire of CD4

S. Chakrabarti, Syamal Roy, M. Ghosh, 2013 .

Antiviral activity of baicalin against influenza virus H1N1-pdm09 is due to modulation of NS1-mediated cellular innate immune responses.

S. Chakrabarti, M. Chawla-Sarkar, A. Agrawal, 2014, The Journal of antimicrobial chemotherapy.

Transcriptome-wide identification and characterization of CAD isoforms specific for podophyllotoxin biosynthesis from Podophyllum hexandrum

S. Chakrabarti, Riddhi Datta, D. Bhattacharyya, 2016, Plant Molecular Biology.

Calmodulin regulates MGRN1‐GP78 interaction mediated ubiquitin proteasomal degradation system

S. Chakrabarti, Abhishek Sau, O. Chakrabarti, 2018, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

HBV quasispecies composition in Lamivudine-failed chronic hepatitis B patients and its influence on virological response to Tenofovir-based rescue therapy

S. Chakrabarti, Saurabh Ghosh, Abhijit Chakraborty, 2017, Scientific Reports.

Variability in the Responses of Hepatitis B Virus D-Subgenotypes to Antiviral Therapy: Designing Pan-D-Subgenotypic Reverse Transcriptase Inhibitors

S. Chakrabarti, R. K. Mondal, M. Khatun, 2021, Journal of virology.

Cordycepin an Adenosine Analogue Executes Anti Rotaviral Effect by Stimulating Induction of Type I Interferon

S. Chakrabarti, M. C. Sarkar, Anindyajit Banerjee, 2016 .

Whole‐exome analyses of congenital muscular dystrophy and congenital myopathy patients from India reveal a wide spectrum of known and novel mutations

S. Chakrabarti, Sudipto Roy, A. Nalini, 2020, European journal of neurology.

KLK5 induces shedding of DPP4 from circulatory Th17 cells in type 2 diabetes

S. Mukhopadhyay, S. Chakrabarti, Amit Sharma, 2017, Molecular metabolism.

Target-Dependent Coordinated Biogenesis of Secondary MicroRNAs by miR-146a Balances Macrophage Activation Processes

S. Bhattacharyya, S. Chakrabarti, Dr. Ishita Mukherjee, 2022, Molecular and cellular biology.

Target Dependent Coordinated Biogenesis Ensures Cascaded Expression of miRNAs in Activated Murine Macrophage

S. Bhattacharyya, S. Chakrabarti, Ishita Mukherjee, 2021, bioRxiv.

Identification of Cross-Pathway Connections via Protein-Protein Interactions Linked to Altered States of Metabolic Enzymes in Cervical Cancer

S. Chakrabarti, K. Kumar, Sarpita Bose, 2021, Frontiers in Medicine.

Identification of internalin-A-like virulent proteins in Leishmania donovani

S. Chakrabarti, Ishita Mukherjee, Abhijit Chakraborty, 2016, Parasites & Vectors.

A transient reversal of miRNA-mediated repression controls macrophage activation

S. Bhattacharyya, S. Chakrabarti, Abhijit Chakraborty, 2013, EMBO reports.

EFFICIENT AND SCALABLE NETWORK SECURITY PROTOCOLS BASED ON LFSR SEQUENCES

Saikat Chakrabarti, S. Chakrabarti, 2008 .

Sulfonoquinovosyl diacylglyceride selectively targets acute lymphoblastic leukemia cells and exerts potent anti-leukemic effects in vivo

S. Chakrabarti, S. Roychoudhury, M. Bhattacharyya, 2015, Scientific Reports.

PALM-IST: Pathway Assembly from Literature Mining - an Information Search Tool

Saikat Chakrabarti, Sapan Mandloi, S. Chakrabarti, 2015, Scientific Reports.

Genomic Surveillance and Phylodynamic Analyses Reveal the Emergence of Novel Mutations and Co-mutation Patterns Within SARS-CoV-2 Variants Prevalent in India

S. Chakrabarti, P. Chakrabarti, Nupur Biswas, 2021, Frontiers in Microbiology.

MicroRNA profiling of cisplatin-resistant oral squamous cell carcinoma cell lines enriched with cancer-stem-cell-like and epithelial-mesenchymal transition-type features

S. Chakrabarti, P. Das, S. Roychoudhury, 2016, Scientific Reports.

A survey on prediction of specificity-determining sites in proteins

Abhijit Chakraborty, Saikat Chakrabarti, S. Chakrabarti, 2015, Briefings Bioinform..

SPEER-SERVER: a web server for prediction of protein specificity determining sites

Anna R. Panchenko, Christopher J. Lanczycki, Abhijit Chakraborty, 2012, Nucleic Acids Res..

Functional and Structural Analyses of CYP1B1 Variants Linked to Congenital and Adult-Onset Glaucoma to Investigate the Molecular Basis of These Diseases

S. Chakrabarti, Abhijit Chakraborty, A. Banerjee, 2016, PloS one.

Connecting signaling and metabolic pathways in EGF receptor-mediated oncogenesis of glioblastoma

Saikat Chakrabarti, Krishna Kumar, Peter Walden, 2019, PLoS Comput. Biol..

DBETH: A Database of Bacterial Exotoxins for Human

Ujjwal Maulik, Abhijit Chakraborty, Saikat Chakrabarti, 2011, Nucleic Acids Res..

Leish-ExP: a database of exclusive proteins from Leishmania parasite

S. Chakrabarti, Nupur Biswas, Aneesha Das, 2020, bioRxiv.

Integrative Computational Approach Revealed Crucial Genes Associated With Different Stages of Diabetic Retinopathy

S. Chakrabarti, Nidhi Kumari, S. Ganesan, 2020, Frontiers in Genetics.

Role of systems biology and multi-omics analyses in delineating spatial interconnectivity and temporal dynamicity of ER stress mediated cellular responses.

S. Chakrabarti, O. Chakrabarti, P. Mallick, 2022, Biochimica et biophysica acta. Molecular cell research.

Indole based antimalarial compounds targeting the melatonin pathway: Their design, synthesis and biological evaluation.

S. Chakrabarti, Sarpita Bose, Tania Luthra, 2019, European journal of medicinal chemistry.

Rheb-mTOR activation rescues Aβ-induced cognitive impairment and memory function by restoring miR-146 activity in glial cells

S. Bhattacharyya, S. Chakrabarti, Ishita Mukherjee, 2021, Molecular therapy. Nucleic acids.

Rodent Model Preclinical Assessment of PEGylated Block Copolymer Targeting Cognition and Oxidative Stress Insults of Alzheimer’s Disease

S. Chakrabarti, J. Sil, K. Kumar, 2023, Molecular Neurobiology.

Structural and Drug Screening Analysis of the Non-structural Proteins of Severe Acute Respiratory Syndrome Coronavirus 2 Virus Extracted From Indian Coronavirus Disease 2019 Patients

S. Chakrabarti, Dr. Amarendranath Choudhury, Subhrangshu Das, 2021, Frontiers in Genetics.

Corpus Callosum Atrophy in Detection of Mild and Moderate Alzheimer’s Disease Using Brain Magnetic Resonance Image Processing and Machine Learning Techniques

S. Chakrabarti, Subhrangshu Das, P. Panigrahi, 2021, Journal of Alzheimer's disease reports.

Improvement of alignment accuracy utilizing sequentially conserved motifs

Ramanathan Sowdhamini, Nitin Bhardwaj, Saikat Chakrabarti, 2004, BMC Bioinformatics.

Oncogene‐mediated nuclear accumulation of lactate promotes epigenetic alterations to induce cancer cell proliferation

S. Chakrabarti, E. Padmanaban, S. Roy, 2023, Journal of cellular biochemistry.

Calcium dependent regulation of protein ubiquitination - Interplay between E3 ligases and calcium binding proteins.

S. Chakrabarti, O. Chakrabarti, Rukmini Mukherjee, 2017, Biochimica et biophysica acta. Molecular cell research.

Structural and Functional Roles of Coevolved Sites in Proteins

Anna R. Panchenko, Saikat Chakrabarti, A. Panchenko, 2010, PloS one.

RETREG1/FAM134B mediated autophagosomal degradation of AMFR/GP78 and OPA1 —a dual organellar turnover mechanism

S. Chakrabarti, Subhrangshu Das, Debdatto Mookherjee, 2020, Autophagy.

Lipid Droplets Promote Phase Separation of Ago2 to Accelerate Dicer1 Loss and Decelerate miRNA Activity in Lipid Exposed Hepatic Cells

S. Bhattacharyya, S. Chakrabarti, Ishita Mukherjee, 2020, bioRxiv.

Genomic surveillance and phylodynamic analyses reveal emergence of novel mutation and co-mutation patterns within SARS-CoV2 variants prevalent in India

S. Chakrabarti, Sandip Paul, S. Saha, 2021, bioRxiv.

Molecular association of glucose-6-phosphate isomerase and pyruvate kinase M2 with glyceraldehyde-3-phosphate dehydrogenase in cancer cells

S. Chakrabarti, S. Jana, S. Dey, 2016, BMC Cancer.

Cholesterol Corrects Altered Conformation of MHC-II Protein in Leishmania donovani Infected Macrophages: Implication in Therapy

S. Chakrabarti, Syamal Roy, Koushik Roy, 2016, PLoS neglected tropical diseases.

Inhibition of extracellular vesicle-associated MMP2 abrogates intercellular hepatic miR-122 transfer to liver macrophages and curtails inflammation

S. Bhattacharyya, S. Chakrabarti, P. Chakrabarti, 2021, iScience.

MicroRNA exporter HuR clears the internalized pathogens by promoting pro‐inflammatory response in infected macrophages

S. Bhattacharyya, S. Chakrabarti, S. Sundar, 2020, EMBO molecular medicine.

Integrative genomic and network analysis identified novel genes associated with the development of advanced cervical squamous cell carcinoma.

S. Chakrabarti, P. Das, S. Addya, 2017, Biochimica et biophysica acta. General subjects.

Analysis of Pan-omics Data in Human Interactome Network (APODHIN)

Saikat Chakrabarti, Nupur Biswas, Krishna Kumar, 2020, bioRxiv.

Gatekeeper tyrosine phosphorylation is autoinhibitory for Symbiosis Receptor Kinase

S. Chakrabarti, M. DasGupta, Anindyajit Banerjee, 2014, FEBS letters.

Gatekeeper tyrosine phosphorylation is autoinhibitory for Symbiosis

S. Chakrabarti, M. DasGupta, Anindyajit Banerjee, 2014 .

An Inducible and Secreted Eukaryote-Like Serine/Threonine Kinase of Salmonella enterica Serovar Typhi Promotes Intracellular Survival and Pathogenesis

S. Chakrabarti, R. Mandal, Santasabuj Das, 2014, Infection and Immunity.

Conformational adaptation in the E. coli sigma 32 protein in response to heat shock.

S. Chakrabarti, Siddhartha Roy, Abhijit Chakraborty, 2014, The journal of physical chemistry. B.

Design, synthesis and biological evaluation of a novel library of antimitotic C2‐aroyl/arylimino tryptamine derivatives that are also potent inhibitors of indoleamine‐2, 3‐dioxygenase (IDO)

S. Chakrabarti, Gopal Chakrabarti, J. Chauhan, 2018, European journal of pharmaceutical sciences : official journal of the European Federation for Pharmaceutical Sciences.

Refining multiple sequence alignments with conserved core regions

Anna R. Panchenko, Christopher J. Lanczycki, Stephen H. Bryant, 2006, Nucleic acids research.

A Novel spice-antioxidant-based nano-vehicle as a putative green alternative of synthetic AChE inhibitor drugs

S. Chakrabarti, Anamika Das, P. Bhattacharjee, 2023, Journal of Biomolecular Structure and Dynamics.

Transcriptome-wide identification and characterization of CAD isoforms specific for podophyllotoxin biosynthesis from Podophyllum hexandrum

S. Chakrabarti, Riddhi Datta, D. Bhattacharyya, 2016, Plant Molecular Biology.

MetaDOCK: A Combinatorial Molecular Docking Approach

S. Chakrabarti, I. M. Kamal, 2023, ACS omega.

Virtual screening of natural products inspired in-house library to discover potential lead molecules against the SARS-CoV-2 main protease

S. Chakrabarti, V. Ravichandiran, P. Jaisankar, 2022, Journal of biomolecular structure & dynamics.

Protein sites with more coevolutionary connections tend to evolve slower, while more variable protein families acquire higher coevolutionary connections

S. Chakrabarti, S. Mandloi, 2017, F1000Research.

Identification of structurally conserved residues of proteins in absence of structural homologs using neural network ensemble

Ponnuthurai N. Suganthan, Ganesan Pugalenthi, E. Ke Tang, 2008, Bioinform..

Accelerated export of Dicer1 from lipid-challenged hepatocytes buffers cellular miRNA-122 levels and prevents cell death

S. Bhattacharyya, S. Chakrabarti, Kamalika Mukherjee, 2023, The Journal of biological chemistry.

Rheb-mTOR Activation Rescues Amyloid Beta-Induced Cognitive Impairment and Memory Function by Restoring miR-146 Activity in Glial Cells

S. Bhattacharyya, S. Chakrabarti, Ishita Mukherjee, 2021, bioRxiv.

System Biology and Network Analysis Approaches on Oxidative Stress in Cancer

S. Chakrabarti, K. Kumar, Sarpita Bose, 2021, Handbook of Oxidative Stress in Cancer: Mechanistic Aspects.

Genome characterization, phylogenomic assessment and spatio-temporal dynamics study of highly mutated BA variants from India

S. Chakrabarti, P. Chakrabarti, Poulomi Sarkar, 2022, Indian journal of medical microbiology.

MITOL-mediated DRP1 ubiquitylation and degradation promotes mitochondrial hyperfusion in CMT2A-linked MFN2 mutant.

S. Chakrabarti, Subhrangshu Das, O. Chakrabarti, 2021, Journal of cell science.

A Novel Role for Protein Kinase Kin2 in Regulating HAC1 mRNA Translocation, Splicing, and Translation

S. Chakrabarti, Abhijit Chakraborty, Madhusudan Dey, 2014, Molecular and Cellular Biology.

Functional sites and evolutionary connections of acylhomoserine lactone synthases.

S. Chakrabarti, R. Sowdhamini, 2003, Protein engineering.

Coevolution in defining the functional specificity

A. Panchenko, S. Chakrabarti, 2009, Proteins.

SSToSS - Sequence-Structural Templates of Single-Member Superfamilies

Ramanathan Sowdhamini, Ganesan Pugalenthi, Saikat Chakrabarti, 2006, Silico Biol..