| Year |
Citation |
Score |
| 2023 |
Kosonocky CW, Wilke CO, Marcotte EM, Ellington AD. Mining Patents with Large Language Models Elucidates the Chemical Function Landscape. Arxiv. PMID 38196747 |
0.396 |
|
| 2023 |
Garge RK, Geck RC, Armstrong JO, Dunn B, Boutz DR, Battenhouse A, Leutert M, Dang V, Jiang P, Kwiatkowski D, Peiser T, McElroy H, Marcotte EM, Dunham MJ. Systematic Profiling of Ale Yeast Protein Dynamics across Fermentation and Repitching. G3 (Bethesda, Md.). PMID 38135291 DOI: 10.1093/g3journal/jkad293 |
0.792 |
|
| 2023 |
Goike J, Hsieh CL, Horton AP, Gardner EC, Zhou L, Bartzoka F, Wang N, Javanmardi K, Herbert A, Abbassi S, Xie X, Xia H, Shi PY, Renberg R, Segall-Shapiro TH, ... ... Marcotte EM, et al. SARS-COV-2 Omicron variants conformationally escape a rare quaternary antibody binding mode. Communications Biology. 6: 1250. PMID 38082099 DOI: 10.1038/s42003-023-05649-6 |
0.777 |
|
| 2023 |
Garge RK, Geck RC, Armstrong JO, Dunn B, Boutz DR, Battenhouse A, Leutert M, Dang V, Jiang P, Kwiatkowski D, Peiser T, McElroy H, Marcotte EM, Dunham MJ. Systematic Profiling of Ale Yeast Protein Dynamics across Fermentation and Repitching. Biorxiv : the Preprint Server For Biology. PMID 37790497 DOI: 10.1101/2023.09.21.558736 |
0.791 |
|
| 2023 |
June V, Xu D, Papoulas O, Boutz D, Marcotte EM, Chen ZJ. Protein nonadditive expression and solubility contribute to heterosis in hybrids and allotetraploids. Frontiers in Plant Science. 14: 1252564. PMID 37780492 DOI: 10.3389/fpls.2023.1252564 |
0.803 |
|
| 2023 |
Mapes JH, Stover J, Stout HD, Folsom TM, Babcock E, Loudwig S, Martin C, Austin MJ, Tu F, Howdieshell CJ, Simpson ZB, Blom T, Weaver D, Winkler D, Velden KV, ... ... Marcotte EM, et al. Robust and scalable single-molecule protein sequencing with fluorosequencing. Biorxiv : the Preprint Server For Biology. PMID 37745461 DOI: 10.1101/2023.09.15.558007 |
0.779 |
|
| 2023 |
Smith MB, VanderVelden K, Blom T, Stout HD, Mapes JH, Folsom TM, Martin C, Bardo AM, Marcotte EM. Estimating error rates for single molecule protein sequencing experiments. Biorxiv : the Preprint Server For Biology. PMID 37502879 DOI: 10.1101/2023.07.18.549591 |
0.768 |
|
| 2023 |
Abdullah M, Greco BM, Laurent JM, Garge RK, Boutz DR, Vandeloo M, Marcotte EM, Kachroo AH. Rapid, scalable, combinatorial genome engineering by marker-less enrichment and recombination of genetically engineered loci in yeast. Cell Reports Methods. 3: 100464. PMID 37323580 DOI: 10.1016/j.crmeth.2023.100464 |
0.778 |
|
| 2022 |
Bachman JL, Wight CD, Bardo AM, Johnson AM, Pavlich CI, Boley AJ, Wagner HR, Swaminathan J, Iverson BL, Marcotte EM, Anslyn EV. Evaluating the Effect of Dye-Dye Interactions of Xanthene-Based Fluorophores in the Fluorosequencing of Peptides. Bioconjugate Chemistry. PMID 35622964 DOI: 10.1021/acs.bioconjchem.2c00103 |
0.769 |
|
| 2022 |
Bean BDM, Mulvihill CJ, Garge RK, Boutz DR, Rousseau O, Floyd BM, Cheney W, Gardner EC, Ellington AD, Marcotte EM, Gollihar JD, Whiteway M, Martin VJJ. Functional expression of opioid receptors and other human GPCRs in yeast engineered to produce human sterols. Nature Communications. 13: 2882. PMID 35610225 DOI: 10.1038/s41467-022-30570-7 |
0.755 |
|
| 2021 |
Hinson CM, Bardo AM, Shannon CE, Rivera S, Swaminathan J, Marcotte EM, Anslyn EV. Studies of Surface Preparation for the Fluorosequencing of Peptides. Langmuir : the Acs Journal of Surfaces and Colloids. PMID 34904833 DOI: 10.1021/acs.langmuir.1c02644 |
0.77 |
|
| 2021 |
Garge RK, Cha HJ, Lee C, Gollihar JD, Kachroo AH, Wallingford JB, Marcotte EM. Discovery of new vascular disrupting agents based on evolutionarily conserved drug action, pesticide resistance mutations, and humanized yeast. Genetics. 219. PMID 34849907 DOI: 10.1093/genetics/iyab101 |
0.77 |
|
| 2021 |
Roberson EC, Battenhouse AM, Garge RK, Tran NK, Marcotte EM, Wallingford JB. Spatiotemporal transcriptional dynamics of the cycling mouse oviduct. Developmental Biology. 476: 240-248. PMID 33864778 DOI: 10.1016/j.ydbio.2021.03.018 |
0.787 |
|
| 2021 |
Goike J, Hsieh CL, Horton A, Gardner EC, Bartzoka F, Wang N, Javanmardi K, Herbert A, Abbassi S, Renberg R, Johanson MJ, Cardona JA, Segall-Shapiro T, Zhou L, Nissly RH, ... ... Marcotte EM, et al. Synthetic repertoires derived from convalescent COVID-19 patients enable discovery of SARS-CoV-2 neutralizing antibodies and a novel quaternary binding modality. Biorxiv : the Preprint Server For Biology. PMID 33851158 DOI: 10.1101/2021.04.07.438849 |
0.78 |
|
| 2020 |
Akhmetov A, Laurent JM, Gollihar J, Gardner EC, Garge RK, Ellington AD, Kachroo AH, Marcotte EM. Erratum: Correction Notice: Single-step Precision Genome Editing in Yeast Using CRISPR-Cas9. Bio-Protocol. 10. PMID 38161732 DOI: 10.21769/BioProtoc.3610 |
0.771 |
|
| 2020 |
Drew K, Lee C, Cox RM, Dang V, Devitt CC, McWhite CD, Papoulas O, Huizar RL, Marcotte EM, Wallingford JB. A systematic, label-free method for identifying RNA-associated proteins in vivo provides insights into vertebrate ciliary beating machinery. Developmental Biology. PMID 32898505 DOI: 10.1016/J.Ydbio.2020.08.008 |
0.324 |
|
| 2020 |
Boulgakov AA, Ellington AD, Marcotte EM. Bringing Microscopy-By-Sequencing into View: (Trends in Biotechnology 38, 154-162, 2020). Trends in Biotechnology. 38: 935. PMID 32673590 DOI: 10.1016/J.Tibtech.2020.01.007 |
0.436 |
|
| 2020 |
Garge RK, Laurent JM, Kachroo AH, Marcotte EM. Systematic Humanization of the Yeast Cytoskeleton Discerns Functionally Replaceable from Divergent Human Genes. Genetics. PMID 32522745 DOI: 10.1534/Genetics.120.303378 |
0.789 |
|
| 2020 |
Laurent JM, Garge RK, Teufel AI, Wilke CO, Kachroo AH, Marcotte EM. Humanization of yeast genes with multiple human orthologs reveals functional divergence between paralogs. Plos Biology. 18: e3000627. PMID 32421706 DOI: 10.1371/Journal.Pbio.3000627 |
0.796 |
|
| 2020 |
Howard CJ, Floyd BM, Bardo AM, Swaminathan J, Marcotte EM, Anslyn EV. Solid-Phase Peptide Capture and Release for Bulk and Single-Molecule Proteomics. Acs Chemical Biology. PMID 32363853 DOI: 10.1021/Acschembio.0C00040 |
0.781 |
|
| 2020 |
McWhite CD, Papoulas O, Drew K, Cox RM, June V, Dong OX, Kwon T, Wan C, Salmi ML, Roux SJ, Browning KS, Chen ZJ, Ronald PC, Marcotte EM. A Pan-plant Protein Complex Map Reveals Deep Conservation and Novel Assemblies. Cell. PMID 32191846 DOI: 10.1016/J.Cell.2020.02.049 |
0.331 |
|
| 2020 |
Blank HM, Papoulas O, Maitra N, Garge R, Kennedy BK, Schilling B, Marcotte EM, Polymenis M. Abundances of transcripts, proteins, and metabolites in the cell cycle of budding yeast reveal coordinate control of lipid metabolism. Molecular Biology of the Cell. mbcE19120708. PMID 32129706 DOI: 10.1091/Mbc.E19-12-0708 |
0.792 |
|
| 2019 |
Kim JJ, Lee SY, Gong F, Battenhouse AM, Boutz DR, Bashyal A, Refvik ST, Chiang CM, Xhemalce B, Paull TT, Brodbelt JS, Marcotte EM, Miller KM. Systematic bromodomain protein screens identify homologous recombination and R-loop suppression pathways involved in genome integrity. Genes & Development. PMID 31753913 DOI: 10.1101/Gad.331231.119 |
0.802 |
|
| 2019 |
Verbeke EJ, Zhou Y, Horton AP, Mallam AL, Taylor DW, Marcotte EM. Separating distinct structures of multiple macromolecular assemblies from cryo-EM projections. Journal of Structural Biology. 107416. PMID 31726096 DOI: 10.1016/J.Jsb.2019.107416 |
0.301 |
|
| 2019 |
Mallam AL, Sae-Lee W, Schaub JM, Tu F, Battenhouse A, Jang YJ, Kim J, Wallingford JB, Finkelstein IJ, Marcotte EM, Drew K. Systematic Discovery of Endogenous Human Ribonucleoprotein Complexes. Cell Reports. 29: 1351-1368.e5. PMID 31665645 DOI: 10.1016/J.Celrep.2019.09.060 |
0.326 |
|
| 2019 |
Liebeskind BJ, Aldrich RW, Marcotte EM. Ancestral reconstruction of protein interaction networks. Plos Computational Biology. 15: e1007396. PMID 31658251 DOI: 10.1371/Journal.Pcbi.1007396 |
0.379 |
|
| 2019 |
Boulgakov AA, Ellington AD, Marcotte EM. Bringing Microscopy-By-Sequencing into View. Trends in Biotechnology. PMID 31416630 DOI: 10.1016/J.Tibtech.2019.06.001 |
0.466 |
|
| 2018 |
Huizar RL, Lee C, Boulgakov AA, Horani A, Tu F, Marcotte EM, Brody SL, Wallingford JB. A liquid-like organelle at the root of motile ciliopathy. Elife. 7. PMID 30561330 DOI: 10.7554/Elife.38497 |
0.342 |
|
| 2018 |
Teufel AI, Johnson MM, Laurent JM, Kachroo AH, Marcotte EM, Wilke CO. The many nuanced evolutionary consequences of duplicated genes. Molecular Biology and Evolution. PMID 30445614 DOI: 10.1093/Molbev/Msy216 |
0.332 |
|
| 2018 |
Teufel AI, Johnson MM, Laurent JM, Kachroo AH, Marcotte EM, Wilke CO. The many nuanced evolutionary consequences of duplicated genes. Molecular Biology and Evolution. PMID 30428072 DOI: 10.1093/Molbev/Msy210 |
0.332 |
|
| 2018 |
Hwang S, Kim CY, Yang S, Kim E, Hart T, Marcotte EM, Lee I. HumanNet v2: human gene networks for disease research. Nucleic Acids Research. PMID 30418591 DOI: 10.1093/Nar/Gky1126 |
0.328 |
|
| 2018 |
Swaminathan J, Boulgakov AA, Hernandez ET, Bardo AM, Bachman JL, Marotta J, Johnson AM, Anslyn EV, Marcotte EM. Highly parallel single-molecule identification of proteins in zeptomole-scale mixtures. Nature Biotechnology. PMID 30346938 DOI: 10.1038/Nbt.4278 |
0.79 |
|
| 2018 |
Akhmetov A, Ellington AD, Marcotte EM. A highly parallel strategy for storage of digital information in living cells. Bmc Biotechnology. 18: 64. PMID 30333005 DOI: 10.1186/S12896-018-0476-4 |
0.455 |
|
| 2018 |
Verbeke EJ, Mallam AL, Drew K, Marcotte EM, Taylor DW. Classification of Single Particles from Human Cell Extract Reveals Distinct Structures. Cell Reports. 24: 259-268.e3. PMID 29972786 DOI: 10.1016/J.Celrep.2018.06.022 |
0.35 |
|
| 2018 |
Akhmetov A, Laurent JM, Gollihar J, Gardner EC, Garge RK, Ellington AD, Kachroo AH, Marcotte EM. Single-step Precision Genome Editing in Yeast Using CRISPR-Cas9. Bio-Protocol. 8. PMID 29770349 DOI: 10.21769/BioProtoc.2765 |
0.792 |
|
| 2018 |
Gibeaux R, Acker R, Kitaoka M, Georgiou G, van Kruijsbergen I, Ford B, Marcotte EM, Nomura DK, Kwon T, Veenstra GJC, Heald R. Paternal chromosome loss and metabolic crisis contribute to hybrid inviability in Xenopus. Nature. PMID 29320479 DOI: 10.1038/Nature25188 |
0.317 |
|
| 2017 |
Tu F, Sedzinski J, Ma Y, Marcotte EM, Wallingford JB. Protein localization screening in vivo reveals novel regulators of multiciliated cell development and function. Journal of Cell Science. PMID 29180514 DOI: 10.1242/Jcs.206565 |
0.41 |
|
| 2017 |
Drew K, Müller CL, Bonneau R, Marcotte EM. Identifying direct contacts between protein complex subunits from their conditional dependence in proteomics datasets. Plos Computational Biology. 13: e1005625. PMID 29023445 DOI: 10.1371/Journal.Pcbi.1005625 |
0.377 |
|
| 2017 |
Hernandez ET, Swaminathan J, Marcotte EM, Anslyn EV. Solution-phase and solid-phase sequential, selective modification of side chains in KDYWEC and KDYWE as models for usage in single-molecule protein sequencing. New Journal of Chemistry = Nouveau Journal De Chimie. 41: 462-469. PMID 28983186 DOI: 10.1039/C6Nj02932A |
0.35 |
|
| 2017 |
Kachroo AH, Laurent JM, Akhmetov A, Szilagyi-Jones M, McWhite CD, Zhao A, Marcotte EM. Systematic bacterialization of yeast genes identifies a near-universally swappable pathway. Elife. 6. PMID 28661399 DOI: 10.7554/Elife.25093 |
0.341 |
|
| 2017 |
Drew K, Lee C, Huizar RL, Tu F, Borgeson B, McWhite CD, Ma Y, Wallingford JB, Marcotte EM. Integration of over 9,000 mass spectrometry experiments builds a global map of human protein complexes. Molecular Systems Biology. 13: 932. PMID 28596423 DOI: 10.15252/Msb.20167490 |
0.371 |
|
| 2017 |
Mallam AL, Marcotte EM. Systems-wide Studies Uncover Commander, a Multiprotein Complex Essential to Human Development. Cell Systems. 4: 483-494. PMID 28544880 DOI: 10.1016/J.Cels.2017.04.006 |
0.359 |
|
| 2017 |
Shim JE, Bang C, Yang S, Lee T, Hwang S, Kim CY, Singh-Blom UM, Marcotte EM, Lee I. GWAB: a web server for the network-based boosting of human genome-wide association data. Nucleic Acids Research. PMID 28449091 DOI: 10.1093/Nar/Gkx284 |
0.321 |
|
| 2017 |
Caglar MU, Houser JR, Barnhart CS, Boutz DR, Carroll SM, Dasgupta A, Lenoir WF, Smith BL, Sridhara V, Sydykova DK, Vander Wood D, Marx CJ, Marcotte EM, Barrick JE, Wilke CO. The E. coli molecular phenotype under different growth conditions. Scientific Reports. 7: 45303. PMID 28417974 DOI: 10.1038/Srep45303 |
0.788 |
|
| 2017 |
Brown CW, Sridhara V, Boutz DR, Person MD, Marcotte EM, Barrick JE, Wilke CO. Large-scale analysis of post-translational modifications in E. coli under glucose-limiting conditions. Bmc Genomics. 18: 301. PMID 28412930 DOI: 10.1186/S12864-017-3676-8 |
0.795 |
|
| 2017 |
Hilterbrand AT, Boutz DR, Marcotte EM, Upton JW. Murine Cytomegalovirus Deubiquitinase Regulates Viral Chemokine Levels To Control Inflammation and Pathogenesis. Mbio. 8. PMID 28096485 DOI: 10.1128/Mbio.01864-16 |
0.762 |
|
| 2016 |
Young JH, Marcotte EM. Predictability of Genetic Interactions from Functional Gene Modules. G3 (Bethesda, Md.). PMID 28007839 DOI: 10.1534/G3.116.035915 |
0.301 |
|
| 2016 |
Lee J, Boutz DR, Chromikova V, Joyce MG, Vollmers C, Leung K, Horton AP, DeKosky BJ, Lee CH, Lavinder JJ, Murrin EM, Chrysostomou C, Hoi KH, Tsybovsky Y, Thomas PV, ... ... Marcotte EM, et al. Molecular-level analysis of the serum antibody repertoire in young adults before and after seasonal influenza vaccination. Nature Medicine. PMID 27820605 DOI: 10.1038/Nm.4224 |
0.761 |
|
| 2016 |
Session AM, Uno Y, Kwon T, Chapman JA, Toyoda A, Takahashi S, Fukui A, Hikosaka A, Suzuki A, Kondo M, van Heeringen SJ, Quigley I, Heinz S, Ogino H, Ochi H, ... ... Marcotte EM, et al. Genome evolution in the allotetraploid frog Xenopus laevis. Nature. 538: 336-343. PMID 27762356 DOI: 10.1038/Nature19840 |
0.526 |
|
| 2016 |
Toriyama M, Lee C, Taylor SP, Duran I, Cohn DH, Bruel AL, Tabler JM, Drew K, Kelly MR, Kim S, Park TJ, Braun D, Pierquin G, Biver A, Wagner K, ... ... Marcotte EM, et al. The ciliopathy-associated CPLANE proteins direct basal body recruitment of intraflagellar transport machinery. Nature Genetics. PMID 27158779 DOI: 10.1038/Ng.3558 |
0.396 |
|
| 2016 |
Phanse S, Wan C, Borgeson B, Tu F, Drew K, Clark G, Xiong X, Kagan O, Kwan J, Bezginov A, Chessman K, Pal S, Cromar G, Papoulas O, Ni Z, ... ... Marcotte EM, et al. Proteome-wide dataset supporting the study of ancient metazoan macromolecular complexes. Data in Brief. 6: 715-21. PMID 26870755 DOI: 10.1016/J.Dib.2015.11.062 |
0.789 |
|
| 2015 |
Kim E, Hwang S, Kim H, Shim H, Kang B, Yang S, Shim JH, Shin SY, Marcotte EM, Lee I. MouseNet v2: a database of gene networks for studying the laboratory mouse and eight other model vertebrates. Nucleic Acids Research. PMID 26527726 DOI: 10.1093/Nar/Gkv1155 |
0.341 |
|
| 2015 |
Laurent JM, Young JH, Kachroo AH, Marcotte EM. Efforts to make and apply humanized yeast. Briefings in Functional Genomics. PMID 26462863 DOI: 10.1093/Bfgp/Elv041 |
0.364 |
|
| 2015 |
Wan C, Borgeson B, Phanse S, Tu F, Drew K, Clark G, Xiong X, Kagan O, Kwan J, Bezginov A, Chessman K, Pal S, Cromar G, Papoulas O, Ni Z, ... ... Marcotte EM, et al. Panorama of ancient metazoan macromolecular complexes. Nature. 525: 339-44. PMID 26344197 DOI: 10.1038/Nature14877 |
0.789 |
|
| 2015 |
McWhite CD, Liebeskind BJ, Marcotte EM. Applications of comparative evolution to human disease genetics. Current Opinion in Genetics & Development. 35: 16-24. PMID 26338499 DOI: 10.1016/J.Gde.2015.08.004 |
0.31 |
|
| 2015 |
Houser JR, Barnhart C, Boutz DR, Carroll SM, Dasgupta A, Michener JK, Needham BD, Papoulas O, Sridhara V, Sydykova DK, Marx CJ, Trent MS, Barrick JE, Marcotte EM, Wilke CO. Controlled Measurement and Comparative Analysis of Cellular Components in E. coli Reveals Broad Regulatory Changes in Response to Glucose Starvation. Plos Computational Biology. 11: e1004400. PMID 26275208 DOI: 10.1371/Journal.Pcbi.1004400 |
0.809 |
|
| 2015 |
Kachroo AH, Laurent JM, Yellman CM, Meyer AG, Wilke CO, Marcotte EM. Evolution. Systematic humanization of yeast genes reveals conserved functions and genetic modularity. Science (New York, N.Y.). 348: 921-5. PMID 25999509 DOI: 10.1126/Science.Aaa0769 |
0.37 |
|
| 2015 |
Swaminathan J, Boulgakov AA, Marcotte EM. A theoretical justification for single molecule peptide sequencing. Plos Computational Biology. 11: e1004080. PMID 25714988 DOI: 10.1371/Journal.Pcbi.1004080 |
0.375 |
|
| 2015 |
Houser JR, Barnhart C, Boutz DR, Carroll SM, Dasgupta A, Michener JK, Needham BD, Papoulas O, Sridhara V, Sydykova DK, Marx CJ, Trent MS, Barrick JE, Marcotte EM, Wilke CO. Controlled Measurement and Comparative Analysis of Cellular Components in E. coli Reveals Broad Regulatory Changes in Response to Glucose Starvation Plos Computational Biology. 11. DOI: 10.1371/journal.pcbi.1004400 |
0.766 |
|
| 2014 |
Kwon T, Chung MI, Gupta R, Baker JC, Wallingford JB, Marcotte EM. Identifying direct targets of transcription factor Rfx2 that coordinate ciliogenesis and cell movement. Genomics Data. 2: 192-194. PMID 25419512 DOI: 10.1016/J.Gdata.2014.06.015 |
0.33 |
|
| 2014 |
Hwang S, Kim E, Yang S, Marcotte EM, Lee I. MORPHIN: a web tool for human disease research by projecting model organism biology onto a human integrated gene network. Nucleic Acids Research. 42: W147-53. PMID 24861622 DOI: 10.1093/Nar/Gku434 |
0.322 |
|
| 2014 |
Kwon T, Huse HK, Vogel C, Whiteley M, Marcotte EM. Protein-to-mRNA ratios are conserved between Pseudomonas aeruginosa strains. Journal of Proteome Research. 13: 2370-80. PMID 24742327 DOI: 10.1021/Pr4011684 |
0.373 |
|
| 2014 |
Boutz DR, Horton AP, Wine Y, Lavinder JJ, Georgiou G, Marcotte EM. Proteomic identification of monoclonal antibodies from serum. Analytical Chemistry. 86: 4758-66. PMID 24684310 DOI: 10.1021/Ac4037679 |
0.79 |
|
| 2014 |
O'Connell JD, Tsechansky M, Royall A, Boutz DR, Ellington AD, Marcotte EM. A proteomic survey of widespread protein aggregation in yeast. Molecular Biosystems. 10: 851-61. PMID 24488121 DOI: 10.1039/C3Mb70508K |
0.791 |
|
| 2014 |
Hammerling MJ, Ellefson JW, Boutz DR, Marcotte EM, Ellington AD, Barrick JE. Bacteriophages use an expanded genetic code on evolutionary paths to higher fitness. Nature Chemical Biology. 10: 178-80. PMID 24487692 DOI: 10.1038/Nchembio.1450 |
0.766 |
|
| 2014 |
Lavinder JJ, Wine Y, Giesecke C, Ippolito GC, Horton AP, Lungu OI, Hoi KH, DeKosky BJ, Murrin EM, Wirth MM, Ellington AD, Dörner T, Marcotte EM, Boutz DR, Georgiou G. Identification and characterization of the constituent human serum antibodies elicited by vaccination. Proceedings of the National Academy of Sciences of the United States of America. 111: 2259-64. PMID 24469811 DOI: 10.1073/Pnas.1317793111 |
0.766 |
|
| 2014 |
Zhao A, Tsechansky M, Ellington AD, Marcotte EM. Revisiting and revising the purinosome. Molecular Biosystems. 10: 369-74. PMID 24413256 DOI: 10.1039/C3Mb70397E |
0.475 |
|
| 2014 |
Gerster S, Kwon T, Ludwig C, Matondo M, Vogel C, Marcotte EM, Aebersold R, Bühlmann P. Statistical approach to protein quantification. Molecular & Cellular Proteomics : McP. 13: 666-77. PMID 24255132 DOI: 10.1074/Mcp.M112.025445 |
0.368 |
|
| 2013 |
Li Z, Park Y, Marcotte EM. A Bacteriophage tailspike domain promotes self-cleavage of a human membrane-bound transcription factor, the myelin regulatory factor MYRF. Plos Biology. 11: e1001624. PMID 23966832 DOI: 10.1371/Journal.Pbio.1001624 |
0.467 |
|
| 2013 |
Woods JO, Singh-Blom UM, Laurent JM, McGary KL, Marcotte EM. Prediction of gene-phenotype associations in humans, mice, and plants using phenologs. Bmc Bioinformatics. 14: 203. PMID 23800157 DOI: 10.1186/1471-2105-14-203 |
0.763 |
|
| 2013 |
Singh-Blom UM, Natarajan N, Tewari A, Woods JO, Dhillon IS, Marcotte EM. Prediction and validation of gene-disease associations using methods inspired by social network analyses. Plos One. 8: e58977. PMID 23650495 DOI: 10.1371/Journal.Pone.0058977 |
0.307 |
|
| 2013 |
Zhao A, Tsechansky M, Swaminathan J, Cook L, Ellington AD, Marcotte EM. Transiently transfected purine biosynthetic enzymes form stress bodies. Plos One. 8: e56203. PMID 23405267 DOI: 10.1371/Journal.Pone.0056203 |
0.489 |
|
| 2013 |
Zhou L, Zhang AB, Wang R, Marcotte EM, Vogel C. The proteomic response to mutants of the Escherichia coli RNA degradosome. Molecular Biosystems. 9: 750-7. PMID 23403814 DOI: 10.1039/C3Mb25513A |
0.35 |
|
| 2013 |
Wine Y, Boutz DR, Lavinder JJ, Miklos AE, Hughes RA, Hoi KH, Jung ST, Horton AP, Murrin EM, Ellington AD, Marcotte EM, Georgiou G. Molecular deconvolution of the monoclonal antibodies that comprise the polyclonal serum response. Proceedings of the National Academy of Sciences of the United States of America. 110: 2993-8. PMID 23382245 DOI: 10.1073/Pnas.1213737110 |
0.775 |
|
| 2013 |
Wan C, Liu J, Fong V, Lugowski A, Stoilova S, Bethune-Waddell D, Borgeson B, Havugimana PC, Marcotte EM, Emili A. ComplexQuant: high-throughput computational pipeline for the global quantitative analysis of endogenous soluble protein complexes using high resolution protein HPLC and precision label-free LC/MS/MS. Journal of Proteomics. 81: 102-11. PMID 23063720 DOI: 10.1016/J.Jprot.2012.10.001 |
0.362 |
|
| 2012 |
Wang PI, Hwang S, Kincaid RP, Sullivan CS, Lee I, Marcotte EM. RIDDLE: reflective diffusion and local extension reveal functional associations for unannotated gene sets via proximity in a gene network. Genome Biology. 13: R125. PMID 23268829 DOI: 10.1186/Gb-2012-13-12-R125 |
0.313 |
|
| 2012 |
Park Y, Marcotte EM. Flaws in evaluation schemes for pair-input computational predictions. Nature Methods. 9: 1134-6. PMID 23223166 DOI: 10.1038/Nmeth.2259 |
0.311 |
|
| 2012 |
O'Connell JD, Zhao A, Ellington AD, Marcotte EM. Dynamic reorganization of metabolic enzymes into intracellular bodies. Annual Review of Cell and Developmental Biology. 28: 89-111. PMID 23057741 DOI: 10.1146/Annurev-Cellbio-101011-155841 |
0.475 |
|
| 2012 |
Uribe RA, Kwon T, Marcotte EM, Gross JM. Id2a functions to limit Notch pathway activity and thereby influence the transition from proliferation to differentiation of retinoblasts during zebrafish retinogenesis. Developmental Biology. 371: 280-92. PMID 22981606 DOI: 10.1016/J.Ydbio.2012.08.032 |
0.305 |
|
| 2012 |
Havugimana PC, Hart GT, Nepusz T, Yang H, Turinsky AL, Li Z, Wang PI, Boutz DR, Fong V, Phanse S, Babu M, Craig SA, Hu P, Wan C, Vlasblom J, ... ... Marcotte EM, et al. A census of human soluble protein complexes. Cell. 150: 1068-81. PMID 22939629 DOI: 10.1016/J.Cell.2012.08.011 |
0.809 |
|
| 2012 |
Cha HJ, Byrom M, Mead PE, Ellington AD, Wallingford JB, Marcotte EM. Evolutionarily repurposed networks reveal the well-known antifungal drug thiabendazole to be a novel vascular disrupting agent. Plos Biology. 10: e1001379. PMID 22927795 DOI: 10.1371/Journal.Pbio.1001379 |
0.49 |
|
| 2012 |
Vogel C, Marcotte EM. Label-free protein quantitation using weighted spectral counting. Methods in Molecular Biology (Clifton, N.J.). 893: 321-41. PMID 22665309 DOI: 10.1007/978-1-61779-885-6_20 |
0.348 |
|
| 2012 |
Orr SJ, Boutz DR, Wang R, Chronis C, Lea NC, Thayaparan T, Hamilton E, Milewicz H, Blanc E, Mufti GJ, Marcotte EM, Thomas NS. Proteomic and protein interaction network analysis of human T lymphocytes during cell-cycle entry. Molecular Systems Biology. 8: 573. PMID 22415777 DOI: 10.1038/Msb.2012.5 |
0.795 |
|
| 2012 |
Vogel C, Marcotte EM. Insights into the regulation of protein abundance from proteomic and transcriptomic analyses. Nature Reviews. Genetics. 13: 227-32. PMID 22411467 DOI: 10.1038/Nrg3185 |
0.405 |
|
| 2012 |
Chung MI, Peyrot SM, LeBoeuf S, Park TJ, McGary KL, Marcotte EM, Wallingford JB. RFX2 is broadly required for ciliogenesis during vertebrate development. Developmental Biology. 363: 155-65. PMID 22227339 DOI: 10.1016/J.Ydbio.2011.12.029 |
0.76 |
|
| 2012 |
Marcotte EM, McGary KK, Ji Cha H, Joo Park T, Woods JO, Blom M, Byrom M, Ellington A, Wallingford JB. Steps Towards a Modular Theory of Disease Biophysical Journal. 102: 9a. DOI: 10.1016/J.Bpj.2011.11.070 |
0.502 |
|
| 2011 |
Lee I, Seo YS, Coltrane D, Hwang S, Oh T, Marcotte EM, Ronald PC. Genetic dissection of the biotic stress response using a genome-scale gene network for rice. Proceedings of the National Academy of Sciences of the United States of America. 108: 18548-53. PMID 22042862 DOI: 10.1073/Pnas.1110384108 |
0.387 |
|
| 2011 |
Vogel C, Silva GM, Marcotte EM. Protein expression regulation under oxidative stress. Molecular & Cellular Proteomics : McP. 10: M111.009217. PMID 21933953 DOI: 10.1074/Mcp.M111.009217 |
0.375 |
|
| 2011 |
Park Y, Marcotte EM. Revisiting the negative example sampling problem for predicting protein-protein interactions. Bioinformatics (Oxford, England). 27: 3024-8. PMID 21908540 DOI: 10.1093/Bioinformatics/Btr514 |
0.35 |
|
| 2011 |
Hwang S, Rhee SY, Marcotte EM, Lee I. Systematic prediction of gene function in Arabidopsis thaliana using a probabilistic functional gene network. Nature Protocols. 6: 1429-42. PMID 21886106 DOI: 10.1038/Nprot.2011.372 |
0.303 |
|
| 2011 |
Lee I, Blom UM, Wang PI, Shim JE, Marcotte EM. Prioritizing candidate disease genes by network-based boosting of genome-wide association data. Genome Research. 21: 1109-21. PMID 21536720 DOI: 10.1101/Gr.118992.110 |
0.337 |
|
| 2011 |
Kwon T, Choi H, Vogel C, Nesvizhskii AI, Marcotte EM. MSblender: A probabilistic approach for integrating peptide identifications from multiple database search engines. Journal of Proteome Research. 10: 2949-58. PMID 21488652 DOI: 10.1021/Pr2002116 |
0.312 |
|
| 2011 |
Boutz DR, Collins PJ, Suresh U, Lu M, RamÃrez CM, Fernández-Hernando C, Huang Y, Abreu Rde S, Le SY, Shapiro BA, Liu AM, Luk JM, Aldred SF, Trinklein ND, Marcotte EM, et al. Two-tiered approach identifies a network of cancer and liver disease-related genes regulated by miR-122. The Journal of Biological Chemistry. 286: 18066-78. PMID 21402708 DOI: 10.1074/Jbc.M110.196451 |
0.775 |
|
| 2011 |
Smith KR, Kieserman EK, Wang PI, Basten SG, Giles RH, Marcotte EM, Wallingford JB. A role for central spindle proteins in cilia structure and function. Cytoskeleton (Hoboken, N.J.). 68: 112-24. PMID 21246755 DOI: 10.1002/Cm.20498 |
0.381 |
|
| 2011 |
Niu W, Hart GT, Marcotte EM. High-throughput immunofluorescence microscopy using yeast spheroplast cell-based microarrays. Methods in Molecular Biology (Clifton, N.J.). 706: 83-95. PMID 21104056 DOI: 10.1007/978-1-61737-970-3_7 |
0.752 |
|
| 2010 |
Laurent JM, Vogel C, Kwon T, Craig SA, Boutz DR, Huse HK, Nozue K, Walia H, Whiteley M, Ronald PC, Marcotte EM. Protein abundances are more conserved than mRNA abundances across diverse taxa. Proteomics. 10: 4209-12. PMID 21089048 DOI: 10.1002/Pmic.201000327 |
0.801 |
|
| 2010 |
Huang N, Lee I, Marcotte EM, Hurles ME. Characterising and predicting haploinsufficiency in the human genome. Plos Genetics. 6: e1001154. PMID 20976243 DOI: 10.1371/Journal.Pgen.1001154 |
0.334 |
|
| 2010 |
Vogel C, Abreu Rde S, Ko D, Le SY, Shapiro BA, Burns SC, Sandhu D, Boutz DR, Marcotte EM, Penalva LO. Sequence signatures and mRNA concentration can explain two-thirds of protein abundance variation in a human cell line. Molecular Systems Biology. 6: 400. PMID 20739923 DOI: 10.1038/Msb.2010.59 |
0.805 |
|
| 2010 |
Lo KY, Li Z, Bussiere C, Bresson S, Marcotte EM, Johnson AW. Defining the pathway of cytoplasmic maturation of the 60S ribosomal subunit. Molecular Cell. 39: 196-208. PMID 20670889 DOI: 10.1016/J.Molcel.2010.06.018 |
0.451 |
|
| 2010 |
Wang PI, Marcotte EM. It's the machine that matters: Predicting gene function and phenotype from protein networks. Journal of Proteomics. 73: 2277-89. PMID 20637909 DOI: 10.1016/J.Jprot.2010.07.005 |
0.388 |
|
| 2010 |
Lee I, Lehner B, Vavouri T, Shin J, Fraser AG, Marcotte EM. Predicting genetic modifier loci using functional gene networks. Genome Research. 20: 1143-53. PMID 20538624 DOI: 10.1101/Gr.102749.109 |
0.33 |
|
| 2010 |
McGary KL, Park TJ, Woods JO, Cha HJ, Wallingford JB, Marcotte EM. Systematic discovery of nonobvious human disease models through orthologous phenotypes. Proceedings of the National Academy of Sciences of the United States of America. 107: 6544-9. PMID 20308572 DOI: 10.1073/Pnas.0910200107 |
0.76 |
|
| 2010 |
Lee I, Ambaru B, Thakkar P, Marcotte EM, Rhee SY. Rational association of genes with traits using a genome-scale gene network for Arabidopsis thaliana. Nature Biotechnology. 28: 149-56. PMID 20118918 DOI: 10.1038/Nbt.1603 |
0.335 |
|
| 2009 |
de Sousa Abreu R, Penalva LO, Marcotte EM, Vogel C. Global signatures of protein and mRNA expression levels. Molecular Biosystems. 5: 1512-26. PMID 20023718 DOI: 10.1039/B908315D |
0.344 |
|
| 2009 |
Hart T, Zhao A, Garg A, Bolusani S, Marcotte EM. Human cell chips: adapting DNA microarray spotting technology to cell-based imaging assays. Plos One. 4: e7088. PMID 19862318 DOI: 10.1371/Journal.Pone.0007088 |
0.332 |
|
| 2009 |
Li Z, Lee I, Moradi E, Hung NJ, Johnson AW, Marcotte EM. Rational extension of the ribosome biogenesis pathway using network-guided genetics. Plos Biology. 7: e1000213. PMID 19806183 DOI: 10.1371/Journal.Pbio.1000213 |
0.499 |
|
| 2009 |
Lo KY, Li Z, Wang F, Marcotte EM, Johnson AW. Ribosome stalk assembly requires the dual-specificity phosphatase Yvh1 for the exchange of Mrt4 with P0. The Journal of Cell Biology. 186: 849-62. PMID 19797078 DOI: 10.1083/Jcb.200904110 |
0.43 |
|
| 2009 |
Gray RS, Abitua PB, Wlodarczyk BJ, Szabo-Rogers HL, Blanchard O, Lee I, Weiss GS, Liu KJ, Marcotte EM, Wallingford JB, Finnell RH. The planar cell polarity effector Fuz is essential for targeted membrane trafficking, ciliogenesis and mouse embryonic development. Nature Cell Biology. 11: 1225-32. PMID 19767740 DOI: 10.1038/Ncb1966 |
0.328 |
|
| 2009 |
Ramakrishnan SR, Vogel C, Kwon T, Penalva LO, Marcotte EM, Miranker DP. Mining gene functional networks to improve mass-spectrometry-based protein identification. Bioinformatics (Oxford, England). 25: 2955-61. PMID 19633097 DOI: 10.1093/Bioinformatics/Btp461 |
0.373 |
|
| 2009 |
Tabor JJ, Salis HM, Simpson ZB, Chevalier AA, Levskaya A, Marcotte EM, Voigt CA, Ellington AD. A synthetic genetic edge detection program. Cell. 137: 1272-81. PMID 19563759 DOI: 10.1016/J.Cell.2009.04.048 |
0.448 |
|
| 2009 |
Narayanaswamy R, Levy M, Tsechansky M, Stovall GM, O'Connell JD, Mirrielees J, Ellington AD, Marcotte EM. Widespread reorganization of metabolic enzymes into reversible assemblies upon nutrient starvation. Proceedings of the National Academy of Sciences of the United States of America. 106: 10147-52. PMID 19502427 DOI: 10.1073/Pnas.0812771106 |
0.679 |
|
| 2009 |
Lee I, Marcotte EM. Effects of functional bias on supervised learning of a gene network model. Methods in Molecular Biology (Clifton, N.J.). 541: 463-75. PMID 19381535 DOI: 10.1007/978-1-59745-243-4_20 |
0.318 |
|
| 2009 |
Ramakrishnan SR, Vogel C, Prince JT, Li Z, Penalva LO, Myers M, Marcotte EM, Miranker DP, Wang R. Integrating shotgun proteomics and mRNA expression data to improve protein identification. Bioinformatics (Oxford, England). 25: 1397-403. PMID 19318424 DOI: 10.1093/Bioinformatics/Btp168 |
0.493 |
|
| 2009 |
Narayanaswamy R, Moradi EK, Niu W, Hart GT, Davis M, McGary KL, Ellington AD, Marcotte EM. Systematic definition of protein constituents along the major polarization axis reveals an adaptive reuse of the polarization machinery in pheromone-treated budding yeast. Journal of Proteome Research. 8: 6-19. PMID 19053807 DOI: 10.1021/Pr800524G |
0.79 |
|
| 2008 |
Hannay K, Marcotte EM, Vogel C. Buffering by gene duplicates: an analysis of molecular correlates and evolutionary conservation. Bmc Genomics. 9: 609. PMID 19087332 DOI: 10.1186/1471-2164-9-609 |
0.321 |
|
| 2008 |
Braisted JC, Kuntumalla S, Vogel C, Marcotte EM, Rodrigues AR, Wang R, Huang ST, Ferlanti ES, Saeed AI, Fleischmann RD, Peterson SN, Pieper R. The APEX Quantitative Proteomics Tool: generating protein quantitation estimates from LC-MS/MS proteomics results. Bmc Bioinformatics. 9: 529. PMID 19068132 DOI: 10.1186/1471-2105-9-529 |
0.334 |
|
| 2008 |
Kim WK, Marcotte EM. Age-dependent evolution of the yeast protein interaction network suggests a limited role of gene duplication and divergence. Plos Computational Biology. 4: e1000232. PMID 19043579 DOI: 10.1371/Journal.Pcbi.1000232 |
0.34 |
|
| 2008 |
Vogel C, Marcotte EM. Calculating absolute and relative protein abundance from mass spectrometry-based protein expression data. Nature Protocols. 3: 1444-51. PMID 18772871 DOI: 10.1038/Nprot.2008.132 |
0.353 |
|
| 2008 |
Lee I, Marcotte EM. Integrating functional genomics data. Methods in Molecular Biology (Clifton, N.J.). 453: 267-78. PMID 18712309 DOI: 10.1007/978-1-60327-429-6_14 |
0.312 |
|
| 2008 |
Niu W, Li Z, Zhan W, Iyer VR, Marcotte EM. Mechanisms of cell cycle control revealed by a systematic and quantitative overexpression screen in S. cerevisiae. Plos Genetics. 4: e1000120. PMID 18617996 DOI: 10.1371/Journal.Pgen.1000120 |
0.604 |
|
| 2008 |
Kim WK, Krumpelman C, Marcotte EM. Inferring mouse gene functions from genomic-scale data using a combined functional network/classification strategy. Genome Biology. 9: S5. PMID 18613949 DOI: 10.1186/Gb-2008-9-S1-S5 |
0.345 |
|
| 2008 |
Peña-Castillo L, Tasan M, Myers CL, Lee H, Joshi T, Zhang C, Guan Y, Leone M, Pagnani A, Kim WK, Krumpelman C, Tian W, Obozinski G, Qi Y, Mostafavi S, ... ... Marcotte EM, et al. A critical assessment of Mus musculus gene function prediction using integrated genomic evidence. Genome Biology. 9: S2. PMID 18613946 DOI: 10.1186/Gb-2008-9-S1-S2 |
0.336 |
|
| 2008 |
Zhao J, Niu W, Yao J, Mohr S, Marcotte EM, Lambowitz AM. Group II intron protein localization and insertion sites are affected by polyphosphate. Plos Biology. 6: e150. PMID 18593213 DOI: 10.1371/Journal.Pbio.0060150 |
0.539 |
|
| 2008 |
Ramani AK, Li Z, Hart GT, Carlson MW, Boutz DR, Marcotte EM. A map of human protein interactions derived from co-expression of human mRNAs and their orthologs. Molecular Systems Biology. 4: 180. PMID 18414481 DOI: 10.1038/Msb.2008.19 |
0.795 |
|
| 2008 |
White J, Li Z, Sardana R, Bujnicki JM, Marcotte EM, Johnson AW. Bud23 methylates G1575 of 18S rRNA and is required for efficient nuclear export of pre-40S subunits. Molecular and Cellular Biology. 28: 3151-61. PMID 18332120 DOI: 10.1128/Mcb.01674-07 |
0.468 |
|
| 2008 |
Wang R, Marcotte EM. The proteomic response of Mycobacterium smegmatis to anti-tuberculosis drugs suggests targeted pathways. Journal of Proteome Research. 7: 855-65. PMID 18275136 DOI: 10.1021/Pr0703066 |
0.327 |
|
| 2008 |
Lee I, Lehner B, Crombie C, Wong W, Fraser AG, Marcotte EM. A single gene network accurately predicts phenotypic effects of gene perturbation in Caenorhabditis elegans. Nature Genetics. 40: 181-8. PMID 18223650 DOI: 10.1038/Ng.2007.70 |
0.324 |
|
| 2007 |
McGary KL, Lee I, Marcotte EM. Broad network-based predictability of Saccharomyces cerevisiae gene loss-of-function phenotypes. Genome Biology. 8: R258. PMID 18053250 DOI: 10.1186/Gb-2007-8-12-R258 |
0.771 |
|
| 2007 |
Lee I, Li Z, Marcotte EM. An improved, bias-reduced probabilistic functional gene network of baker's yeast, Saccharomyces cerevisiae. Plos One. 2: e988. PMID 17912365 DOI: 10.1371/Journal.Pone.0000988 |
0.517 |
|
| 2007 |
Marcotte EM. How do shotgun proteomics algorithms identify proteins? Nature Biotechnology. 25: 755-7. PMID 17621303 DOI: 10.1038/Nbt0707-755 |
0.308 |
|
| 2007 |
Carlson MW, Iyer VR, Marcotte EM. Quantitative gene expression assessment identifies appropriate cell line models for individual cervical cancer pathways. Bmc Genomics. 8: 117. PMID 17493265 DOI: 10.1186/1471-2164-8-117 |
0.68 |
|
| 2007 |
Lu P, Vogel C, Wang R, Yao X, Marcotte EM. Absolute protein expression profiling estimates the relative contributions of transcriptional and translational regulation. Nature Biotechnology. 25: 117-24. PMID 17187058 DOI: 10.1038/Nbt1270 |
0.52 |
|
| 2007 |
Lu P, Rangan A, Chan SY, Appling DR, Hoffman DW, Marcotte EM. Global metabolic changes following loss of a feedback loop reveal dynamic steady states of the yeast metabolome. Metabolic Engineering. 9: 8-20. PMID 17049899 DOI: 10.1016/J.Ymben.2006.06.003 |
0.433 |
|
| 2007 |
Orr SJ, Wang R, Lea NC, Chronis C, Ramani AK, Mufti GJ, Marcotte EM, Thomas NSB. Systems Biology Analysis of Human Primary T Cells Identifies SAP145 as Rate Limiting for the G1→S Phase Transition. Blood. 110: 3350-3350. DOI: 10.1182/Blood.V110.11.3350.3350 |
0.631 |
|
| 2007 |
Orr SJ, Gaymes T, Wang R, Czepulkowski B, Ladon D, Chronis C, Mufti GJ, Marcotte EM, Thomas NSB. Reducing MCM Loading Causes Chromosomal Aneuploidy. Blood. 110: 3349-3349. DOI: 10.1182/Blood.V110.11.3349.3349 |
0.351 |
|
| 2007 |
Lee I, Narayanaswamy R, Marcotte EM. 24 Bioinformatic Prediction of Yeast Gene Function Methods in Microbiology. 36: 597-628. DOI: 10.1016/S0580-9517(06)36024-2 |
0.601 |
|
| 2006 |
Hart GT, Ramani AK, Marcotte EM. How complete are current yeast and human protein-interaction networks? Genome Biology. 7: 120. PMID 17147767 DOI: 10.1186/Gb-2006-7-11-120 |
0.779 |
|
| 2006 |
Ramakrishnan SR, Mao R, Nakorchevskiy AA, Prince JT, Willard WS, Xu W, Marcotte EM, Miranker DP. A fast coarse filtering method for peptide identification by mass spectrometry. Bioinformatics (Oxford, England). 22: 1524-31. PMID 16585069 DOI: 10.1093/Bioinformatics/Btl118 |
0.761 |
|
| 2006 |
Eisenberg D, Marcotte E, McLachlan AD, Pellegrini M. Bioinformatic challenges for the next decade(s). Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 361: 525-7. PMID 16524841 DOI: 10.1098/Rstb.2005.1797 |
0.457 |
|
| 2006 |
Narayanaswamy R, Niu W, Scouras AD, Hart GT, Davies J, Ellington AD, Iyer VR, Marcotte EM. Systematic profiling of cellular phenotypes with spotted cell microarrays reveals mating-pheromone response genes. Genome Biology. 7: R6. PMID 16507139 DOI: 10.1186/Gb-2006-7-1-R6 |
0.79 |
|
| 2005 |
Levskaya A, Chevalier AA, Tabor JJ, Simpson ZB, Lavery LA, Levy M, Davidson EA, Scouras A, Ellington AD, Marcotte EM, Voigt CA. Synthetic biology: engineering Escherichia coli to see light. Nature. 438: 441-2. PMID 16306980 DOI: 10.1038/Nature04405 |
0.458 |
|
| 2005 |
Wang R, Prince JT, Marcotte EM. Mass spectrometry of the M. smegmatis proteome: protein expression levels correlate with function, operons, and codon bias. Genome Research. 15: 1118-26. PMID 16077011 DOI: 10.1101/Gr.3994105 |
0.4 |
|
| 2005 |
Ramani AK, Bunescu RC, Mooney RJ, Marcotte EM. Consolidating the set of known human protein-protein interactions in preparation for large-scale mapping of the human interactome. Genome Biology. 6: R40. PMID 15892868 DOI: 10.1186/Gb-2005-6-5-R40 |
0.658 |
|
| 2005 |
Bunescu R, Ge R, Kate RJ, Marcotte EM, Mooney RJ, Ramani AK, Wong YW. Comparative experiments on learning information extractors for proteins and their interactions. Artificial Intelligence in Medicine. 33: 139-55. PMID 15811782 DOI: 10.1016/J.Artmed.2004.07.016 |
0.644 |
|
| 2005 |
Date SV, Marcotte EM. Protein function prediction using the Protein Link EXplorer (PLEX). Bioinformatics (Oxford, England). 21: 2558-9. PMID 15701682 DOI: 10.1093/Bioinformatics/Bti313 |
0.393 |
|
| 2004 |
Lee I, Date SV, Adai AT, Marcotte EM. A probabilistic functional network of yeast genes. Science (New York, N.Y.). 306: 1555-8. PMID 15567862 DOI: 10.1126/Science.1099511 |
0.337 |
|
| 2004 |
Baliga NS, Bonneau R, Facciotti MT, Pan M, Glusman G, Deutsch EW, Shannon P, Chiu Y, Weng RS, Gan RR, Hung P, Date SV, Marcotte E, Hood L, Ng WV. Genome sequence of Haloarcula marismortui: a halophilic archaeon from the Dead Sea. Genome Research. 14: 2221-34. PMID 15520287 DOI: 10.1101/Gr.2700304 |
0.376 |
|
| 2004 |
Fraser AG, Marcotte EM. Development through the eyes of functional genomics. Current Opinion in Genetics & Development. 14: 336-42. PMID 15261648 DOI: 10.1016/J.Gde.2004.06.015 |
0.339 |
|
| 2004 |
Bork P, Jensen LJ, von Mering C, Ramani AK, Lee I, Marcotte EM. Protein interaction networks from yeast to human. Current Opinion in Structural Biology. 14: 292-9. PMID 15193308 DOI: 10.1016/J.Sbi.2004.05.003 |
0.652 |
|
| 2004 |
Adai AT, Date SV, Wieland S, Marcotte EM. LGL: creating a map of protein function with an algorithm for visualizing very large biological networks. Journal of Molecular Biology. 340: 179-90. PMID 15184029 DOI: 10.1016/J.Jmb.2004.04.047 |
0.362 |
|
| 2004 |
Fraser AG, Marcotte EM. A probabilistic view of gene function. Nature Genetics. 36: 559-64. PMID 15167932 DOI: 10.1038/Ng1370 |
0.335 |
|
| 2004 |
Prince JT, Carlson MW, Wang R, Lu P, Marcotte EM. The need for a public proteomics repository. Nature Biotechnology. 22: 471-2. PMID 15085804 DOI: 10.1038/Nbt0404-471 |
0.76 |
|
| 2004 |
Marcotte EM. Practical computational approaches to inferring protein function Drug Discovery Today: Biosilico. 2: 24-29. DOI: 10.1016/S1741-8364(04)02386-8 |
0.398 |
|
| 2004 |
Date SV, Marcotte EM. Response to McDermott and Samudrala: Enhanced functional information from predicted protein networks Trends in Biotechnology. 22: 62-63. DOI: 10.1016/J.Tibtech.2003.11.008 |
0.333 |
|
| 2003 |
Lu P, Nakorchevskiy A, Marcotte EM. Expression deconvolution: a reinterpretation of DNA microarray data reveals dynamic changes in cell populations. Proceedings of the National Academy of Sciences of the United States of America. 100: 10370-5. PMID 12934019 DOI: 10.1073/Pnas.1832361100 |
0.764 |
|
| 2003 |
Date SV, Marcotte EM. Discovery of uncharacterized cellular systems by genome-wide analysis of functional linkages. Nature Biotechnology. 21: 1055-62. PMID 12923548 DOI: 10.1038/Nbt861 |
0.394 |
|
| 2003 |
Galagan JE, Calvo SE, Borkovich KA, Selker EU, Read ND, Jaffe D, FitzHugh W, Ma LJ, Smirnov S, Purcell S, Rehman B, Elkins T, Engels R, Wang S, Nielsen CB, ... ... Marcotte E, et al. The genome sequence of the filamentous fungus Neurospora crassa. Nature. 422: 859-68. PMID 12712197 DOI: 10.1038/Nature01554 |
0.35 |
|
| 2003 |
Ramani AK, Marcotte EM. Exploiting the co-evolution of interacting proteins to discover interaction specificity. Journal of Molecular Biology. 327: 273-84. PMID 12614624 DOI: 10.1016/S0022-2836(03)00114-1 |
0.631 |
|
| 2002 |
Marcotte E, Date S. Exploiting big biology: integrating large-scale biological data for function inference. Briefings in Bioinformatics. 2: 363-74. PMID 11808748 DOI: 10.1093/Bib/2.4.363 |
0.323 |
|
| 2001 |
Marcotte EM, Xenarios I, Eisenberg D. Mining literature for protein-protein interactions. Bioinformatics (Oxford, England). 17: 359-63. PMID 11301305 DOI: 10.1093/Bioinformatics/17.4.359 |
0.502 |
|
| 2001 |
Marcotte EM. Measuring the dynamics of the proteome. Genome Research. 11: 191-3. PMID 11157781 DOI: 10.1101/Gr.178301 |
0.385 |
|
| 2001 |
Xenarios I, Fernandez E, Salwinski L, Duan XJ, Thompson MJ, Marcotte EM, Eisenberg D. DIP: The Database of Interacting Proteins: 2001 update. Nucleic Acids Research. 29: 239-41. PMID 11125102 DOI: 10.1093/Nar/29.1.239 |
0.499 |
|
| 2000 |
Marcotte EM, Xenarios I, van Der Bliek AM, Eisenberg D. Localizing proteins in the cell from their phylogenetic profiles. Proceedings of the National Academy of Sciences of the United States of America. 97: 12115-20. PMID 11035803 DOI: 10.1073/Pnas.220399497 |
0.512 |
|
| 2000 |
Eisenberg D, Marcotte EM, Xenarios I, Yeates TO. Protein function in the post-genomic era. Nature. 405: 823-6. PMID 10866208 DOI: 10.1038/35015694 |
0.625 |
|
| 2000 |
Marcotte EM. Computational genetics: finding protein function by nonhomology methods. Current Opinion in Structural Biology. 10: 359-65. PMID 10851184 DOI: 10.1016/S0959-440X(00)00097-X |
0.404 |
|
| 2000 |
Xenarios I, Rice DW, Salwinski L, Baron MK, Marcotte EM, Eisenberg D. DIP: the database of interacting proteins. Nucleic Acids Research. 28: 289-91. PMID 10592249 DOI: 10.1093/Nar/28.1.289 |
0.51 |
|
| 1999 |
Marcotte EM, Pellegrini M, Thompson MJ, Yeates TO, Eisenberg D. A combined algorithm for genome-wide prediction of protein function. Nature. 402: 83-6. PMID 10573421 DOI: 10.1038/47048 |
0.673 |
|
| 1999 |
Marcotte EM, Pellegrini M, Yeates TO, Eisenberg D. A census of protein repeats. Journal of Molecular Biology. 293: 151-60. PMID 10512723 DOI: 10.1006/Jmbi.1999.3136 |
0.651 |
|
| 1999 |
Marcotte EM, Pellegrini M, Ng HL, Rice DW, Yeates TO, Eisenberg D. Detecting protein function and protein-protein interactions from genome sequences. Science (New York, N.Y.). 285: 751-3. PMID 10427000 DOI: 10.1126/Science.285.5428.751 |
0.749 |
|
| 1999 |
Pellegrini M, Marcotte EM, Yeates TO. A fast algorithm for genome-wide analysis of proteins with repeated sequences. Proteins. 35: 440-6. PMID 10382671 DOI: 10.1002/(Sici)1097-0134(19990601)35:4<440::Aid-Prot7>3.0.Co;2-Y |
0.566 |
|
| 1999 |
Pellegrini M, Marcotte EM, Thompson MJ, Eisenberg D, Yeates TO. Assigning protein functions by comparative genome analysis: protein phylogenetic profiles. Proceedings of the National Academy of Sciences of the United States of America. 96: 4285-8. PMID 10200254 DOI: 10.1073/Pnas.96.8.4285 |
0.672 |
|
| 1999 |
Marcotte EM, Eisenberg D. Chicken prion tandem repeats form a stable, protease-resistant domain. Biochemistry. 38: 667-76. PMID 9888807 DOI: 10.1021/Bi981487F |
0.492 |
|
| 1998 |
Robertus JD, Monzingo AF, Marcotte EM, Hart PJ. Structural analysis shows five glycohydrolase families diverged from a common ancestor. The Journal of Experimental Zoology. 282: 127-32. PMID 9723170 DOI: 10.1002/(Sici)1097-010X(199809/10)282:1/2<127::Aid-Jez14>3.0.Co;2-R |
0.566 |
|
| 1997 |
Hollis T, Honda Y, Fukamizo T, Marcotte E, Day PJ, Robertus JD. Kinetic analysis of barley chitinase. Archives of Biochemistry and Biophysics. 344: 335-42. PMID 9264547 DOI: 10.1006/Abbi.1997.0225 |
0.548 |
|
| 1996 |
Marcotte EM, Monzingo AF, Ernst SR, Brzezinski R, Robertus JD. X-ray structure of an anti-fungal chitosanase from streptomyces N174. Nature Structural Biology. 3: 155-62. PMID 8564542 DOI: 10.1038/Nsb0296-155 |
0.558 |
|
| 1996 |
Monzingo AF, Marcotte EM, Hart PJ, Robertus JD. Chitinases, chitosanases, and lysozymes can be divided into procaryotic and eucaryotic families sharing a conserved core. Nature Structural Biology. 3: 133-40. PMID 8564539 DOI: 10.1038/Nsb0296-133 |
0.564 |
|
| 1994 |
Kim YJ, Francisco L, Chen GC, Marcotte E, Chan CS. Control of cellular morphogenesis by the Ip12/Bem2 GTPase-activating protein: possible role of protein phosphorylation. The Journal of Cell Biology. 127: 1381-94. PMID 7962097 DOI: 10.1083/Jcb.127.5.1381 |
0.378 |
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| 1993 |
Marcotte E, Hart PJ, Boucher I, Brzezinski R, Robertus JD. Crystallization of a chitosanase from Streptomyces N174. Journal of Molecular Biology. 232: 995-6. PMID 8355284 DOI: 10.1006/Jmbi.1993.1447 |
0.546 |
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| Show low-probability matches. |