Max Kotlyar, Ph.D. - Publications

Affiliations: 
2011 Medical Biophysics University of Toronto, Toronto, ON, Canada 
Area:
Bioinformatics Biology

35 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Yao Z, Aboualizadeh F, Kroll J, Akula I, Snider J, Lyakisheva A, Tang P, Kotlyar M, Jurisica I, Boxem M, Stagljar I. Split Intein-Mediated Protein Ligation for detecting protein-protein interactions and their inhibition. Nature Communications. 11: 2440. PMID 32415080 DOI: 10.1038/s41467-020-16299-1  0.96
2020 Sinsky J, Majerova P, Kovac A, Kotlyar M, Jurisica I, Hanes J. Physiological Tau Interactome in Brain and Its Link to Tauopathies. Journal of Proteome Research. 19: 2429-2442. PMID 32357304 DOI: 10.1021/acs.jproteome.0c00137  0.96
2020 Kennedy SA, Jarboui MA, Srihari S, Raso C, Bryan K, Dernayka L, Charitou T, Bernal-Llinares M, Herrera-Montavez C, Krstic A, Matallanas D, Kotlyar M, Jurisica I, Curak J, Wong V, et al. Extensive rewiring of the EGFR network in colorectal cancer cells expressing transforming levels of KRAS. Nature Communications. 11: 499. PMID 31980649 DOI: 10.1038/s41467-019-14224-9  0.96
2020 Pastrello C, Kotlyar M, Jurisica I. Informed Use of Protein-Protein Interaction Data: A Focus on the Integrated Interactions Database (IID). Methods in Molecular Biology (Clifton, N.J.). 2074: 125-134. PMID 31583635 DOI: 10.1007/978-1-4939-9873-9_10  0.96
2019 Rahmati S, Abovsky M, Pastrello C, Kotlyar M, Lu R, Cumbaa CA, Rahman P, Chandran V, Jurisica I. pathDIP 4: an extended pathway annotations and enrichment analysis resource for human, model organisms and domesticated species. Nucleic Acids Research. PMID 31733064 DOI: 10.1093/nar/gkz989  0.96
2019 Del-Toro N, Duesbury M, Koch M, Perfetto L, Shrivastava A, Ochoa D, Wagih O, Piñero J, Kotlyar M, Pastrello C, Beltrao P, Furlong LI, Jurisica I, Hermjakob H, et al. Publisher Correction: Capturing variation impact on molecular interactions in the IMEx Consortium mutations data set. Nature Communications. 10: 1098. PMID 30833551 DOI: 10.1038/s41467-019-08814-w  0.96
2019 Del-Toro N, Duesbury M, Koch M, Perfetto L, Shrivastava A, Ochoa D, Wagih O, Piñero J, Kotlyar M, Pastrello C, Beltrao P, Furlong LI, Jurisica I, Hermjakob H, Orchard S, et al. Capturing variation impact on molecular interactions in the IMEx Consortium mutations data set. Nature Communications. 10: 10. PMID 30602777 DOI: 10.1038/s41467-018-07709-6  0.96
2018 Kotlyar M, Pastrello C, Malik Z, Jurisica I. IID 2018 update: context-specific physical protein-protein interactions in human, model organisms and domesticated species. Nucleic Acids Research. PMID 30407591 DOI: 10.1093/nar/gky1037  0.96
2018 Li L, Guturi KKN, Gautreau B, Patel PS, Saad A, Morii M, Mateo F, Palomero L, Barbour H, Gomez A, Ng D, Kotlyar M, Pastrello C, Jackson HW, Khokha R, et al. Ubiquitin ligase RNF8 suppresses Notch signaling to regulate mammary development and tumorigenesis. The Journal of Clinical Investigation. PMID 30222135 DOI: 10.1172/JCI120401  0.96
2017 Kotlyar M, Rossos AEM, Jurisica I. Prediction of Protein-Protein Interactions. Current Protocols in Bioinformatics. 60: 8.2.1-8.2.14. PMID 29220074 DOI: 10.1002/cpbi.38  0.96
2017 Wong SWH, Pastrello C, Kotlyar M, Faloutsos C, Jurisica I. Modeling tumor progression via the comparison of stage-specific graphs. Methods (San Diego, Calif.). PMID 28684340 DOI: 10.1016/j.ymeth.2017.06.033  0.96
2017 Pastrello C, Tsay M, McQuaid R, Abovsky M, Pasini E, Shirdel E, Angeli M, Tokar T, Jamnik J, Kotlyar M, Jurisicova A, Kotsopoulos J, El-Sohemy A, Jurisica I. Retraction: Circulating plant miRNAs can regulate human gene expression in vitro. Scientific Reports. 7: 46826. PMID 28530244 DOI: 10.1038/srep46826  0.96
2017 Sokolina K, Kittanakom S, Snider J, Kotlyar M, Maurice P, Gandía J, Benleulmi-Chaachoua A, Tadagaki K, Oishi A, Wong V, Malty RH, Deineko V, Aoki H, Amin S, Yao Z, et al. Systematic protein-protein interaction mapping for clinically relevant human GPCRs. Molecular Systems Biology. 13: 918. PMID 28298427  0.96
2016 Yao Z, Darowski K, St-Denis N, Wong V, Offensperger F, Villedieu A, Amin S, Malty R, Aoki H, Guo H, Xu Y, Iorio C, Kotlyar M, Emili A, Jurisica I, et al. A Global Analysis of the Receptor Tyrosine Kinase-Protein Phosphatase Interactome. Molecular Cell. PMID 28065597 DOI: 10.1016/j.molcel.2016.12.004  0.96
2016 Petschnigg J, Kotlyar M, Blair L, Jurisica I, Stagljar I, Ketteler R. Systematic Identification of Oncogenic EGFR Interaction Partners. Journal of Molecular Biology. PMID 27956147 DOI: 10.1016/j.jmb.2016.12.006  0.96
2016 Pastrello C, Tsay M, McQuaid R, Abovsky M, Pasini E, Shirdel E, Angeli M, Tokar T, Jamnik J, Kotlyar M, Jurisicova A, Kotsopoulos J, El-Sohemy A, Jurisica I. Circulating plant miRNAs can regulate human gene expression in vitro. Scientific Reports. 6: 32773. PMID 27604570 DOI: 10.1038/srep32773  0.96
2016 Chehade R, Pettapiece-Phillips R, Salmena L, Kotlyar M, Jurisica I, Narod SA, Akbari MR, Kotsopoulos J. Reduced BRCA1 transcript levels in freshly isolated blood leukocytes from BRCA1 mutation carriers is mutation specific. Breast Cancer Research : Bcr. 18: 87. PMID 27534398 DOI: 10.1186/s13058-016-0739-8  0.96
2016 Stojanova A, Tu WB, Ponzielli R, Kotlyar M, Chan PK, Boutros PC, Khosravi F, Jurisica I, Raught B, Penn LZ. MYC interaction with the tumour suppressive SWI/SNF complex member INI1 regulates transcription and cellular transformation. Cell Cycle (Georgetown, Tex.). 0. PMID 27267444 DOI: 10.1080/15384101.2016.1146836  0.96
2016 Pettapiece-Phillips R, Kotlyar M, Chehade R, Salmena L, Narod SA, Akbari M, Jurisica I, Kotsopoulos J. Uninterrupted Sedentary Behavior Downregulates BRCA1 Gene Expression. Cancer Prevention Research (Philadelphia, Pa.). 9: 83-8. PMID 26526989 DOI: 10.1158/1940-6207.CAPR-15-0291  0.96
2016 Kotlyar M, Pastrello C, Sheahan N, Jurisica I. Integrated interactions database: tissue-specific view of the human and model organism interactomes. Nucleic Acids Research. 44: D536-41. PMID 26516188 DOI: 10.1093/nar/gkv1115  0.96
2015 Snider J, Kotlyar M, Saraon P, Yao Z, Jurisica I, Stagljar I. Fundamentals of protein interaction network mapping. Molecular Systems Biology. 11: 848. PMID 26681426  0.96
2015 Fortney K, Griesman J, Kotlyar M, Pastrello C, Angeli M, Sound-Tsao M, Jurisica I. Prioritizing therapeutics for lung cancer: an integrative meta-analysis of cancer gene signatures and chemogenomic data. Plos Computational Biology. 11: e1004068. PMID 25786242 DOI: 10.1371/journal.pcbi.1004068  0.96
2015 Kotlyar M, Pastrello C, Pivetta F, Lo Sardo A, Cumbaa C, Li H, Naranian T, Niu Y, Ding Z, Vafaee F, Broackes-Carter F, Petschnigg J, Mills GB, Jurisicova A, Stagljar I, et al. In silico prediction of physical protein interactions and characterization of interactome orphans. Nature Methods. 12: 79-84. PMID 25402006 DOI: 10.1038/nmeth.3178  0.96
2015 Snider J, Kotlyar M, Saraon P, Yao Z, Jurisica I, Stagljar I. Fundamentals of protein interaction network mapping Molecular Systems Biology. 11. DOI: 10.15252/msb.20156351  0.96
2014 Petschnigg J, Groisman B, Kotlyar M, Taipale M, Zheng Y, Kurat CF, Sayad A, Sierra JR, Mattiazzi Usaj M, Snider J, Nachman A, Krykbaeva I, Tsao MS, Moffat J, Pawson T, et al. The mammalian-membrane two-hybrid assay (MaMTH) for probing membrane-protein interactions in human cells. Nature Methods. 11: 585-92. PMID 24658140 DOI: 10.1038/nmeth.2895  0.96
2014 Kittanakom S, Barrios-Rodiles M, Petschnigg J, Arnoldo A, Wong V, Kotlyar M, Heisler LE, Jurisica I, Wrana JL, Nislow C, Stagljar I. CHIP-MYTH: a novel interactive proteomics method for the assessment of agonist-dependent interactions of the human β₂-adrenergic receptor. Biochemical and Biophysical Research Communications. 445: 746-56. PMID 24561123 DOI: 10.1016/j.bbrc.2014.02.033  0.96
2014 Pastrello C, Pasini E, Kotlyar M, Otasek D, Wong S, Sangrar W, Rahmati S, Jurisica I. Integration, visualization and analysis of human interactome. Biochemical and Biophysical Research Communications. 445: 757-73. PMID 24491561 DOI: 10.1016/j.bbrc.2014.01.151  0.96
2013 Fortney K, Xie W, Kotlyar M, Griesman J, Kotseruba Y, Jurisica I. NetwoRx: connecting drugs to networks and phenotypes in Saccharomyces cerevisiae. Nucleic Acids Research. 41: D720-7. PMID 23203867 DOI: 10.1093/nar/gks1106  0.96
2012 Kotlyar M, Fortney K, Jurisica I. Network-based characterization of drug-regulated genes, drug targets, and toxicity. Methods (San Diego, Calif.). 57: 499-507. PMID 22749929 DOI: 10.1016/j.ymeth.2012.06.003  0.96
2012 Fortney K, Morgen EK, Kotlyar M, Jurisica I. In silico drug screen in mouse liver identifies candidate calorie restriction mimetics. Rejuvenation Research. 15: 148-52. PMID 22533420 DOI: 10.1089/rej.2011.1263  0.96
2011 Djebbari A, Ali M, Otasek D, Kotlyar M, Fortney K, Wong S, Hrvojic A, Jurisica I. Navigator: Large scalable and interactive navigation and analysis of large graphs Internet Mathematics. 7: 314-347. DOI: 10.1080/15427951.2011.604289  0.96
2010 Fortney K, Kotlyar M, Jurisica I. Inferring the functions of longevity genes with modular subnetwork biomarkers of Caenorhabditis elegans aging. Genome Biology. 11: R13. PMID 20128910 DOI: 10.1186/gb-2010-11-2-r13  0.96
2009 Cox B, Kotlyar M, Evangelou AI, Ignatchenko V, Ignatchenko A, Whiteley K, Jurisica I, Adamson SL, Rossant J, Kislinger T. Comparative systems biology of human and mouse as a tool to guide the modeling of human placental pathology. Molecular Systems Biology. 5: 279. PMID 19536202 DOI: 10.1038/msb.2009.37  0.96
2006 Kotlyar M, Jurisica I. Predicting protein-protein interactions by association mining Information Systems Frontiers. 8: 37-47. DOI: 10.1007/s10796-005-6102-8  0.96
2002 Kotlyar M, Fuhrman S, Ableson A, Somogyi R. Spearman correlation identifies statistically significant gene expression clusters in spinal cord development and injury. Neurochemical Research. 27: 1133-40. PMID 12462411 DOI: 10.1023/A:1020969208033  0.96
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