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ORCIDEdward M. Marcotte
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2020 – today
- 2023
[j29]Meghana V. Palukuri
, Ridhi S. Patil, Edward M. Marcotte:
Molecular complex detection in protein interaction networks through reinforcement learning. BMC Bioinform. 24(1): 306 (2023)- [j28]Matthew Beauregard Smith, Zack Booth Simpson, Edward M. Marcotte:
Amino acid sequence assignment from single molecule peptide sequencing data using a two-stage classifier. PLoS Comput. Biol. 19(5) (2023) - [i1]Clayton W. Kosonocky, Claus O. Wilke, Edward M. Marcotte, Andrew D. Ellington:
Mining Patents with Large Language Models Demonstrates Congruence of Functional Labels and Chemical Structures. CoRR abs/2309.08765 (2023) - 2022
- [j27]Chan Yeong Kim, Seungbyn Baek, Junha Cha, Sunmo Yang, Eiru Kim, Edward M. Marcotte, G. Traver Hart, Insuk Lee:
HumanNet v3: an improved database of human gene networks for disease research. Nucleic Acids Res. 50(D1): 632-639 (2022) - 2020
- [j26]Caitlyn L. McCafferty, Eric J. Verbeke, Edward M. Marcotte, David W. Taylor:
Structural Biology in the Multi-Omics Era. J. Chem. Inf. Model. 60(5): 2424-2429 (2020)
2010 – 2019
- 2019
- [j25]Sohyun Hwang, Chan Yeong Kim, Sunmo Yang, Eiru Kim, G. Traver Hart, Edward M. Marcotte, Insuk Lee:
HumanNet v2: human gene networks for disease research. Nucleic Acids Res. 47(Database-Issue): D573-D580 (2019) - [j24]Benjamin J. Liebeskind, Richard W. Aldrich, Edward M. Marcotte:
Ancestral reconstruction of protein interaction networks. PLoS Comput. Biol. 15(10) (2019) - 2017
- [j23]Jung Eun Shim, Changbae Bang, Sunmo Yang, Tak Lee, Sohyun Hwang, Chan Yeong Kim, Ulf Martin Singh-Blom, Edward M. Marcotte, Insuk Lee:
GWAB: a web server for the network-based boosting of human genome-wide association data. Nucleic Acids Res. 45(Webserver-Issue): W154-W161 (2017) - [j22]Kevin Drew, Christian L. Müller, Richard Bonneau, Edward M. Marcotte:
Identifying direct contacts between protein complex subunits from their conditional dependence in proteomics datasets. PLoS Comput. Biol. 13(10) (2017) - 2016
- [j21]Jonathan H. Young, Michael Peyton, Hyun Seok Kim, Elizabeth McMillan, John D. Minna, Michael A. White, Edward M. Marcotte:
Computational discovery of pathway-level genetic vulnerabilities in non-small-cell lung cancer. Bioinform. 32(9): 1373-1379 (2016) - [j20]Eiru Kim, Sohyun Hwang, Hyojin Kim, Hongseok Shim, Byunghee Kang, Sunmo Yang, Jae Ho Shim, Seung Yeon Shin, Edward M. Marcotte, Insuk Lee:
MouseNet v2: a database of gene networks for studying the laboratory mouse and eight other model vertebrates. Nucleic Acids Res. 44(Database-Issue): 848-854 (2016) - 2015
- [j19]Jagannath Swaminathan, Alexander A. Boulgakov, Edward M. Marcotte:
A Theoretical Justification for Single Molecule Peptide Sequencing. PLoS Comput. Biol. 11(2) (2015) - [j18]John R. Houser, Craig Barnhart, Daniel R. Boutz, Sean M. Carroll, Aurko Dasgupta, Joshua K. Michener, Brittany D. Needham, Ophelia Papoulas, Viswanadham Sridhara, Dariya K. Sydykova, Christopher J. Marx, M. Stephen Trent, Jeffrey E. Barrick, Edward M. Marcotte, Claus O. Wilke:
Controlled Measurement and Comparative Analysis of Cellular Components in E. coli Reveals Broad Regulatory Changes in Response to Glucose Starvation. PLoS Comput. Biol. 11(8) (2015) - 2014
- [j17]Sohyun Hwang, Eiru Kim, Sunmo Yang, Edward M. Marcotte, Insuk Lee:
MORPHIN: a web tool for human disease research by projecting model organism biology onto a human integrated gene network. Nucleic Acids Res. 42(Webserver-Issue): 147-153 (2014) - 2013
- [j16]John O. Woods, Ulf Martin Singh-Blom, Jon M. Laurent, Kriston L. McGary, Edward M. Marcotte:
Prediction of gene-phenotype associations in humans, mice, and plants using phenologs. BMC Bioinform. 14: 203 (2013) - 2012
- [p1]Christine Vogel, Edward M. Marcotte:
Label-Free Protein Quantitation Using Weighted Spectral Counting. Quantitative Methods in Proteomics 2012: 321-341 - 2011
- [j15]Yungki Park, Edward M. Marcotte:
Revisiting the negative example sampling problem for predicting protein-protein interactions. Bioinform. 27(21): 3024-3028 (2011)
2000 – 2009
- 2009
- [j14]Smriti R. Ramakrishnan, Christine Vogel, John T. Prince, Rong Wang, Zhihua Li, Luiz O. F. Penalva, Margaret Myers, Edward M. Marcotte, Daniel P. Miranker:
Integrating shotgun proteomics and mRNA expression data to improve protein identification. Bioinform. 25(11): 1397-1403 (2009) - [j13]Smriti R. Ramakrishnan, Christine Vogel, Taejoon Kwon, Luiz O. F. Penalva, Edward M. Marcotte, Daniel P. Miranker:
Mining gene functional networks to improve mass-spectrometry-based protein identification. Bioinform. 25(22): 2955-2961 (2009) - 2008
- [j12]John T. Prince, Edward M. Marcotte:
mspire: mass spectrometry proteomics in Ruby. Bioinform. 24(23): 2796-2797 (2008) - [j11]John C. Braisted, Srilatha Kuntumalla, Christine Vogel, Edward M. Marcotte, Alan R. Rodrigues, Rong Wang, Shih-Ting Huang, Erik S. Ferlanti, Alexander I. Saeed, Robert D. Fleischmann, Scott N. Peterson, Rembert Pieper:
The APEX Quantitative Proteomics Tool: Generating protein quantitation estimates from LC-MS/MS proteomics results. BMC Bioinform. 9 (2008) - [j10]Wan Kyu Kim, Edward M. Marcotte:
Age-Dependent Evolution of the Yeast Protein Interaction Network Suggests a Limited Role of Gene Duplication and Divergence. PLoS Comput. Biol. 4(11) (2008) - 2007
- [j9]G. Traver Hart, Insuk Lee, Edward M. Marcotte:
A high-accuracy consensus map of yeast protein complexes reveals modular nature of gene essentiality. BMC Bioinform. 8 (2007) - 2006
- [j8]Smriti R. Ramakrishnan, Rui Mao, Aleksey A. Nakorchevskiy, John T. Prince, Willard S. Willard, Weijia Xu, Edward M. Marcotte, Daniel P. Miranker:
A fast coarse filtering method for peptide identification by mass spectrometry. Bioinform. 22(12): 1524-1531 (2006) - [c3]Razvan C. Bunescu, Raymond J. Mooney, Arun K. Ramani, Edward M. Marcotte:
Integrating Co-occurrence Statistics with Information Extraction for Robust Retrieval of Protein Interactions from Medline. BioNLP@NAACL-HLT 2006: 49-56 - 2005
- [j7]Razvan C. Bunescu, Ruifang Ge, Rohit J. Kate, Edward M. Marcotte, Raymond J. Mooney, Arun K. Ramani, Yuk Wah Wong:
Comparative experiments on learning information extractors for proteins and their interactions. Artif. Intell. Medicine 33(2): 139-155 (2005) - [j6]Shailesh V. Date, Edward M. Marcotte:
Protein function prediction using the Protein Link EXplorer (PLEX). Bioinform. 21(10): 2558-2559 (2005) - [c2]Arun K. Ramani, Razvan C. Bunescu, Raymond J. Mooney, Edward M. Marcotte:
Using Biomedical Literature Mining to Consolidate the Set of Known Human Protein-Protein Interactions. LBLODMBS@IDMB 2005: 46-53 - 2003
- [j5]Inderjit S. Dhillon, Edward M. Marcotte, Usman Roshan:
Diametrical clustering for identifying anti-correlated gene clusters. Bioinform. 19(13): 1612-1619 (2003) - 2002
- [c1]Edward M. Marcotte:
Predicting Protein Function and Nworks on a Genomewide Scale. Gene Regulations and Metabolism 2002: 223-249 - 2001
- [j4]Edward M. Marcotte, Shailesh V. Date:
Exploiting Big Biology: Integrating Large-scale Biological Data for Function Inference. Briefings Bioinform. 2(4): 363-374 (2001) - [j3]Edward M. Marcotte, Ioannis Xenarios, David S. Eisenberg:
Mining literature for protein-protein interactions. Bioinform. 17(4): 359-363 (2001) - [j2]Ioannis Xenarios, Esteban Fernandez, Lukasz Salwínski, Xiaoqun Joyce Duan, Michael J. Thompson, Edward M. Marcotte, David S. Eisenberg:
DIP: The Database of Interacting Proteins: 2001 update. Nucleic Acids Res. 29(1): 239-241 (2001) - 2000
- [j1]Ioannis Xenarios, Danny W. Rice, Lukasz Salwínski, Marisa K. Baron, Edward M. Marcotte, David S. Eisenberg:
DIP: the Database of Interacting Proteins. Nucleic Acids Res. 28(1): 289-291 (2000)
Coauthor Index
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