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Author Title [ Year(Desc)]
Filters: Keyword is Gene Regulatory Networks  [Clear All Filters]
2012
Adamson B, Smogorzewska A, Sigoillot FD, King RW, Elledge SJ. A genome-wide homologous recombination screen identifies the RNA-binding protein RBMX as a component of the DNA-damage response. Nat Cell Biol. 2012 ;14(3):318-28.
2015
Goya J, Wong AK, Yao V, Krishnan A, Homilius M, Troyanskaya OG. FNTM: a server for predicting functional networks of tissues in mouse. Nucleic Acids Res. 2015 ;43(W1):W182-7.
Gorenshteyn D, Zaslavsky E, Fribourg M, Park CY, Wong AK, Tadych A, et al. Interactive Big Data Resource to Elucidate Human Immune Pathways and Diseases. Immunity. 2015 ;43(3):605-14.
Nadimpalli S, Persikov AV, Singh M. Pervasive variation of transcription factor orthologs contributes to regulatory network evolution. PLoS Genet. 2015 ;11(3):e1005011.
2016
Schüpbach T. The Complexities and Unexpected Insights of Developmental Genetic Analysis. Curr Top Dev Biol. 2016 ;117:319-30.
Krishnan A, Zhang R, Yao V, Theesfeld CL, Wong AK, Tadych A, et al. Genome-wide prediction and functional characterization of the genetic basis of autism spectrum disorder. Nat Neurosci. 2016 ;19(11):1454-1462.
Roberts AM, Wong AK, Fisk I, Troyanskaya OG. GIANT API: an application programming interface for functional genomics. Nucleic Acids Res. 2016 ;44(W1):W587-92.
Costanzo M, VanderSluis B, Koch EN, Baryshnikova A, Pons C, Tan G, et al. A global genetic interaction network maps a wiring diagram of cellular function. Science. 2016 ;353(6306).
2017
Pyrowolakis G, Veikkolainen V, Yakoby N, Shvartsman SY. Gene regulation during eggshell patterning. Proc Natl Acad Sci U S A. 2017 ;114(23):5808-5813.
Hristov BH, Singh M. Network-Based Coverage of Mutational Profiles Reveals Cancer Genes. Cell Syst. 2017 ;5(3):221-229.e4.
Aedo SJ, Gelderman G, Brynildsen MP. Tackling host-circuit give and take. Nat Microbiol. 2017 ;2(12):1584-1585.
Rogers WA, Goyal Y, Yamaya K, Shvartsman SY, Levine MS. Uncoupling neurogenic gene networks in the embryo. Genes Dev. 2017 ;31(7):634-638.
2018
Wong AK, Krishnan A, Troyanskaya OG. GIANT 2.0: genome-scale integrated analysis of gene networks in tissues. Nucleic Acids Res. 2018 ;46(W1):W65-W70.
Lee Y-S, Wong AK, Tadych A, Hartmann BM, Park CY, DeJesus VA, et al. Interpretation of an individual functional genomics experiment guided by massive public data. Nat Methods. 2018 ;15(12):1049-1052.
Horlbeck MA, Xu A, Wang M, Bennett NK, Park CY, Bogdanoff D, et al. Mapping the Genetic Landscape of Human Cells. Cell. 2018 ;174(4):953-967.e22.
2019
Gaska JM, Parsons L, Balev M, Cirincione A, Wang W, Schwartz RE, et al. Conservation of cell-intrinsic immune responses in diverse nonhuman primate species. Life Sci Alliance. 2019 ;2(5).
Petkova MD, Tkačik G, Bialek W, Wieschaus EF, Gregor T. Optimal Decoding of Cellular Identities in a Genetic Network. Cell. 2019 ;176(4):844-855.e15.
2020
Ledo JHenrique, Zhang R, Mesin L, Mourão-Sá D, Azevedo EP, Troyanskaya OG, et al.. Lack of a site-specific phosphorylation of Presenilin 1 disrupts microglial gene networks and progenitors during development. PLoS One. 2020 ;15(8):e0237773.
Menon R, Otto EA, Sealfon R, Nair V, Wong AK, Theesfeld CL, et al. SARS-CoV-2 receptor networks in diabetic and COVID-19-associated kidney disease. Kidney Int. 2020 ;98(6):1502-1518.
Roussarie J-P, Yao V, Rodriguez-Rodriguez P, Oughtred R, Rust J, Plautz Z, et al. Selective Neuronal Vulnerability in Alzheimer's Disease: A Network-Based Analysis. Neuron. 2020 ;107(5):821-835.e12.
Hristov BH, Chazelle B, Singh M. uKIN Combines New and Prior Information with Guided Network Propagation to Accurately Identify Disease Genes. Cell Syst. 2020 ;10(6):470-479.e3.
2021
Wong AK, Sealfon RSG, Theesfeld CL, Troyanskaya OG. Decoding disease: from genomes to networks to phenotypes. Nat Rev Genet. 2021 ;22(12):774-790.
Posfai E, Schell JPaul, Janiszewski A, Rovic I, Murray A, Bradshaw B, et al. Evaluating totipotency using criteria of increasing stringency. Nat Cell Biol. 2021 ;23(1):49-60.
Ruf-Zamojski F, Zhang Z, Zamojski M, Smith GR, Mendelev N, Liu H, et al. Single nucleus multi-omics regulatory landscape of the murine pituitary. Nat Commun. 2021 ;12(1):2677.
Chen X, Zhou J, Zhang R, Wong AK, Park CY, Theesfeld CL, et al. Tissue-specific enhancer functional networks for associating distal regulatory regions to disease. Cell Syst. 2021 ;12(4):353-362.e6.