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M. Kotlyar · SciRah

Researcher profile · Semantic Scholar

M. Kotlyar

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M. Kotlyar — researcher profile on SciRah

h-index: 28
Works: 87
Citations: 3,049

Most-cited papers

Fundamentals of protein interaction network mapping
J. Snider, M. Kotlyar, Punit Saraon, Zhong Yao +2 more
2015Molecular Systems Biology261 citations Open access
Semantic Scholar
Mechanical Stiffness Controls Dendritic Cell Metabolism and Function.
M. Chakraborty, K. Chu, A. Shrestha, Xavier S. Revelo +22 more
2021Cell Reports233 citations Open access
Semantic Scholar
Integrated interactions database: tissue-specific view of the human and model organism interactomes
M. Kotlyar, C. Pastrello, Nicholas Sheahan, I. Jurisica
2015Nucleic Acids Res.222 citations Open access
Semantic Scholar
Capturing variation impact on molecular interactions in the IMEx Consortium mutations data set
N. del-Toro, M. Duesbury, M. Koch, L. Perfetto +13 more
2019Nature Communications203 citations Open access
Semantic Scholar
IID 2018 update: context-specific physical protein–protein interactions in human, model organisms and domesticated species
M. Kotlyar, C. Pastrello, Z. Malik, I. Jurisica
2018Nucleic Acids Res.183 citations Open access
Semantic Scholar
Comparative systems biology of human and mouse as a tool to guide the modeling of human placental pathology
Brian Cox, M. Kotlyar, A. Evangelou, V. Ignatchenko +6 more
2009Molecular Systems Biology169 citations Open access
Semantic Scholar
The mammalian-membrane two-hybrid assay (MaMTH) for probing membrane-protein interactions in human cells
Julia Petschnigg, Bella Groisman, M. Kotlyar, Mikko Taipale +14 more
2014Nature Methods163 citations Open access
Semantic Scholar
In silico prediction of physical protein interactions and characterization of interactome orphans
M. Kotlyar, C. Pastrello, Flavia Pivetta, A. L. Sardo +13 more
2014Nature Methods145 citations
Semantic Scholar
A Global Analysis of The Receptor Tyrosine Kinase – Protein Phosphatase Interactome
Z. Yao, K. Darowski, N. St-Denis, Victoria Wong +15 more
2017Molecules and Cells119 citations Open access
Semantic Scholar
Network-based characterization of drug-regulated genes, drug targets, and toxicity.
M. Kotlyar, Kristen Fortney, I. Jurisica
2012Methods89 citations Open access
Semantic Scholar
Systematic protein–protein interaction mapping for clinically relevant human GPCRs
Kate Sokolina, S. Kittanakom, J. Snider, M. Kotlyar +24 more
2017Molecular Systems Biology70 citations Open access
Semantic Scholar
Towards a unified open access dataset of molecular interactions
P. Porras, E. Barrera, A. Bridge, N. del-Toro +23 more
2020Nature Communications68 citations Open access
Semantic Scholar
pathDIP 4: an extended pathway annotations and enrichment analysis resource for human, model organisms and domesticated species
Sara Rahmati, M. Abovsky, C. Pastrello, M. Kotlyar +5 more
2019Nucleic Acids Res.63 citations Open access
Semantic Scholar
Sex differences in kidney metabolism may reflect sex-dependent outcomes in human diabetic kidney disease
Sergi Clotet-Freixas, O. Zaslaver, M. Kotlyar, C. Pastrello +38 more
2024Science Translational Medicine58 citations
Semantic Scholar
MirDIP 5.2: tissue context annotation and novel microRNA curation
Anne-Christin Hauschild, C. Pastrello, Gitta Kirana Anindya Ekaputeri, D. Bethune-Waddell +5 more
2022Nucleic Acids Res.56 citations Open access
Semantic Scholar
Split Intein-Mediated Protein Ligation for detecting protein-protein interactions and their inhibition
Zhong Yao, F. Aboualizadeh, Jason R. Kroll, I. Akula +7 more
2020Nature Communications53 citations Open access
Semantic Scholar
Prioritizing Therapeutics for Lung Cancer: An Integrative Meta-analysis of Cancer Gene Signatures and Chemogenomic Data
Kristen Fortney, Josh Griesman, M. Kotlyar, C. Pastrello +3 more
2015PLoS Comput. Biol.48 citations Open access
Semantic Scholar
IID 2021: towards context-specific protein interaction analyses by increased coverage, enhanced annotation and enrichment analysis
M. Kotlyar, C. Pastrello, Zuhaib Ahmed, Justin Chee +2 more
2021Nucleic Acids Res.46 citations Open access
Semantic Scholar
MYC interaction with the tumor suppressive SWI/SNF complex member INI1 regulates transcription and cellular transformation
A. Stojanova, William B. Tu, R. Ponzielli, M. Kotlyar +6 more
2016Cell Cycle45 citations Open access
Semantic Scholar
The IMEx coronavirus interactome: an evolving map of Coronaviridae–host molecular interactions
L. Perfetto, C. Pastrello, N. del-Toro, M. Duesbury +16 more
2020bioRxiv38 citations Open access
Semantic Scholar
Extracellular Matrix Injury of Kidney Allografts in Antibody-Mediated Rejection: A Proteomics Study.
Sergi Clotet-Freixas, C. Mcevoy, Ihor Batruch, C. Pastrello +22 more
2020Journal of the American Society of Nephrology37 citations Open access
Semantic Scholar
Physiological tau interactome in brain and its link to tauopathies.
J. Šinský, P. Majerová, A. Kováč, M. Kotlyar +2 more
2020Journal of Proteome Research34 citations
Semantic Scholar
Spearman Correlation Identifies Statistically Significant Gene Expression Clusters in Spinal Cord Development and Injury
M. Kotlyar, S. Fuhrman, Alan Ableson, R. Somogyi
2002Neurochemical Research33 citations
Semantic Scholar
Drugst.One — a plug-and-play solution for online systems medicine and network-based drug repurposing
Andreas Maier, Michael Hartung, M. Abovsky, Klaudia Adamowicz +36 more
2024Nucleic Acids Research32 citations Open access
Semantic Scholar
Ubiquitin ligase RNF8 suppresses Notch signaling to regulate mammary development and tumorigenesis
Li Li, K. K. N. Guturi, Brandon Gautreau, Parasvi S. Patel +19 more
2018Journal of Clinical Investigation32 citations Open access
Semantic Scholar
Integration, visualization and analysis of human interactome.
C. Pastrello, E. Pasini, M. Kotlyar, D. Otasek +4 more
2014Biochemical and Biophysical Research Communications - BBRC32 citations
Semantic Scholar
Circulating plant miRNAs can regulate human gene expression in vitro
C. Pastrello, Mike J. Tsay, Rosanne McQuaid, M. Abovsky +10 more
2016Scientific Reports30 citations Open access
Semantic Scholar
Estrogen Receptor 1 Inhibition of Wnt/β-Catenin Signaling Contributes to Sex Differences in Hepatocarcinogenesis
M. Bhat, E. Pasini, C. Pastrello, M. Angeli +6 more
2021Frontiers in Oncology29 citations Open access
Semantic Scholar
PathDIP 5: improving coverage and making enrichment analysis more biologically meaningful
C. Pastrello, M. Kotlyar, M. Abovsky, Richard Lu +1 more
2023Nucleic Acids Research27 citations Open access
Semantic Scholar
CFTR interactome mapping using the mammalian membrane two‐hybrid high‐throughput screening system
S. Lim, J. Snider, L. Birimberg-Schwartz, W. Ip +25 more
2022Molecular Systems Biology26 citations Open access
Semantic Scholar
Prediction of Protein‐Protein Interactions
M. Kotlyar, Andrea E. M. Rossos, I. Jurisica
2017Current Protocols in Bioinformatics26 citations
Semantic Scholar
Systematic Identification of Oncogenic EGFR Interaction Partners
Julia Petschnigg, M. Kotlyar, L. Blair, I. Jurisica +2 more
2017Journal of Molecular Biology22 citations Open access
Semantic Scholar
Predicting Protein-Protein Interactions by Association Mining
M. Kotlyar, I. Jurisica
2006Inf. Syst. Frontiers22 citations
Semantic Scholar
CHIP-MYTH: a novel interactive proteomics method for the assessment of agonist-dependent interactions of the human β₂-adrenergic receptor.
S. Kittanakom, M. Barrios-Rodiles, Julia Petschnigg, A. Arnoldo +7 more
2014Biochemical and Biophysical Research Communications - BBRC20 citations Open access
Semantic Scholar
B cells drive CD4 T cell immunosenescence and age-associated health decline
Saad Khan, Mainak Chakraborty, Fei Wu, Nan Chen +15 more
2026Science immunology17 citations
Semantic Scholar
Informed Use of Protein-Protein Interaction Data: A Focus on the Integrated Interactions Database (IID)
C. Pastrello, M. Kotlyar, I. Jurisica
2020Protein-Protein Interaction Networks16 citations
Semantic Scholar
Machine Learning for In Silico Modeling of Tumor Growth
F. Jeanquartier, C. Jean-Quartier, M. Kotlyar, T. Tokár +3 more
2016Machine Learning for Health Informatics16 citations
Semantic Scholar
B Cells Promote T Cell Immunosenescence and Mammalian Aging Parameters
Saad Khan, Mainak Chakraborty, Fei Wu, Nan Chen +18 more
2023bioRxiv14 citations Open access
Semantic Scholar
Association between the renin–angiotensin system and chronic lung allograft dysfunction
G. Berra, S. Farkona, Z. Mohammed-Ali, M. Kotlyar +11 more
2021European Respiratory Journal14 citations Open access
Semantic Scholar
Uninterrupted Sedentary Behavior Downregulates BRCA1 Gene Expression
Rachael Pettapiece-Phillips, M. Kotlyar, Rania Chehade, L. Salmena +4 more
2015Cancer Prevention Research14 citations
Semantic Scholar
NetwoRx: connecting drugs to networks and phenotypes in Saccharomyces cerevisiae
Kristen Fortney, Wing Xie, M. Kotlyar, Josh Griesman +2 more
2012Nucleic Acids Res.14 citations Open access
Semantic Scholar
Classifying patients with psoriatic arthritis according to their disease activity status using serum metabolites and machine learning
John Koussiouris, Nikita Looby, M. Kotlyar, V. Kulasingam +2 more
2024Metabolomics13 citations Open access
Semantic Scholar
Identifying Serum Metabolomic Markers Associated with Skin Disease Activity in Patients with Psoriatic Arthritis
Hani Choksi, Sheng-Han Li, Nikita Looby, M. Kotlyar +3 more
2023International Journal of Molecular Sciences13 citations Open access
Semantic Scholar
Mapping the phospho-dependent ALK interactome to identify novel components in ALK signaling.
F. Aboualizadeh, Zhong Yao, J. Guan, Luka Drecun +7 more
2021Journal of Molecular Biology13 citations Open access
Semantic Scholar
Increased Autoantibodies Against Ro/SS-A, CENP-B, and La/SS-B in Patients With Kidney Allograft Antibody-mediated Rejection
Sergi Clotet-Freixas, M. Kotlyar, C. Mcevoy, C. Pastrello +14 more
2021Transplantation Direct13 citations Open access
Semantic Scholar
SDREGION: Fast Spotting of Changing Communities in Biological Networks
Serene W. H. Wong, C. Pastrello, M. Kotlyar, C. Faloutsos +1 more
2018Knowledge Discovery and Data Mining13 citations Open access
Semantic Scholar
In Silico Drug Screen in Mouse Liver Identifies Candidate Calorie Restriction Mimetics
Kristen Fortney, Eric K. Morgen, M. Kotlyar, I. Jurisica
2012Rejuvenation Research13 citations Open access
Semantic Scholar
Extensive rewiring of the EGFR network in colorectal cancer cells expressing transforming levels of KRASG13D
S. Kennedy, M. Jarboui, S. Srihari, Cinzia Raso +37 more
2020Nature Communications12 citations Open access
Semantic Scholar
Reduced BRCA1 transcript levels in freshly isolated blood leukocytes from BRCA1 mutation carriers is mutation specific
Rania Chehade, Rachael Pettapiece-Phillips, L. Salmena, M. Kotlyar +4 more
2016Breast Cancer Research12 citations Open access
Semantic Scholar
NAViGaTOR: Large Scalable and Interactive Navigation and Analysis of Large Graphs
A. Djebbari, Muhammad Ali, D. Otasek, M. Kotlyar +4 more
2011Internet Mathematics12 citations Open access
Semantic Scholar

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