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Mapping the common gene networks that underlie related diseases.
Rosenthal SB, Wright SN, Liu S, Churas C, Chilin-Fuentes D, Chen CH, Fisch KM, Pratt D, Kreisberg JF, Ideker T. Rosenthal SB, et al. Among authors: liu s. Nat Protoc. 2023 Jun;18(6):1745-1759. doi: 10.1038/s41596-022-00797-1. Epub 2023 Jan 18. Nat Protoc. 2023. PMID: 36653526 Free PMC article. Review.
Functional Landscape of SARS-CoV-2 Cellular Restriction.
Martin-Sancho L, Lewinski MK, Pache L, Stoneham CA, Yin X, Pratt D, Churas C, Rosenthal SB, Liu S, De Jesus PD, O'Neill AM, Gounder AP, Nguyen C, Pu Y, Oom AL, Miorin L, Rodriguez-Frandsen A, Urbanowski M, Shaw ML, Chang MW, Benner C, Frieman MB, García-Sastre A, Ideker T, Hultquist JF, Guatelli J, Chanda SK. Martin-Sancho L, et al. Among authors: liu s. bioRxiv [Preprint]. 2020 Sep 30:2020.09.29.319566. doi: 10.1101/2020.09.29.319566. bioRxiv. 2020. PMID: 33024967 Free PMC article. Updated. Preprint.
Functional landscape of SARS-CoV-2 cellular restriction.
Martin-Sancho L, Lewinski MK, Pache L, Stoneham CA, Yin X, Becker ME, Pratt D, Churas C, Rosenthal SB, Liu S, Weston S, De Jesus PD, O'Neill AM, Gounder AP, Nguyen C, Pu Y, Curry HM, Oom AL, Miorin L, Rodriguez-Frandsen A, Zheng F, Wu C, Xiong Y, Urbanowski M, Shaw ML, Chang MW, Benner C, Hope TJ, Frieman MB, García-Sastre A, Ideker T, Hultquist JF, Guatelli J, Chanda SK. Martin-Sancho L, et al. Among authors: liu s. Mol Cell. 2021 Jun 17;81(12):2656-2668.e8. doi: 10.1016/j.molcel.2021.04.008. Epub 2021 Apr 13. Mol Cell. 2021. PMID: 33930332 Free PMC article.
Interpretation of cancer mutations using a multiscale map of protein systems.
Zheng F, Kelly MR, Ramms DJ, Heintschel ML, Tao K, Tutuncuoglu B, Lee JJ, Ono K, Foussard H, Chen M, Herrington KA, Silva E, Liu SN, Chen J, Churas C, Wilson N, Kratz A, Pillich RT, Patel DN, Park J, Kuenzi B, Yu MK, Licon K, Pratt D, Kreisberg JF, Kim M, Swaney DL, Nan X, Fraley SI, Gutkind JS, Krogan NJ, Ideker T. Zheng F, et al. Science. 2021 Oct;374(6563):eabf3067. doi: 10.1126/science.abf3067. Epub 2021 Oct 1. Science. 2021. PMID: 34591613 Free PMC article.
A multi-scale map of cell structure fusing protein images and interactions.
Qin Y, Huttlin EL, Winsnes CF, Gosztyla ML, Wacheul L, Kelly MR, Blue SM, Zheng F, Chen M, Schaffer LV, Licon K, Bäckström A, Vaites LP, Lee JJ, Ouyang W, Liu SN, Zhang T, Silva E, Park J, Pitea A, Kreisberg JF, Gygi SP, Ma J, Harper JW, Yeo GW, Lafontaine DLJ, Lundberg E, Ideker T. Qin Y, et al. Nature. 2021 Dec;600(7889):536-542. doi: 10.1038/s41586-021-04115-9. Epub 2021 Nov 24. Nature. 2021. PMID: 34819669 Free PMC article.
A BioID-Derived Proximity Interactome for SARS-CoV-2 Proteins.
May DG, Martin-Sancho L, Anschau V, Liu S, Chrisopulos RJ, Scott KL, Halfmann CT, Díaz Peña R, Pratt D, Campos AR, Roux KJ. May DG, et al. Among authors: liu s. Viruses. 2022 Mar 15;14(3):611. doi: 10.3390/v14030611. Viruses. 2022. PMID: 35337019 Free PMC article.
Genome-wide association studies of human and rat BMI converge on synapse, epigenome, and hormone signaling networks.
Wright SN, Leger BS, Rosenthal SB, Liu SN, Jia T, Chitre AS, Polesskaya O, Holl K, Gao J, Cheng R, Garcia Martinez A, George A, Gileta AF, Han W, Netzley AH, King CP, Lamparelli A, Martin C, St Pierre CL, Wang T, Bimschleger H, Richards J, Ishiwari K, Chen H, Flagel SB, Meyer P, Robinson TE, Solberg Woods LC, Kreisberg JF, Ideker T, Palmer AA. Wright SN, et al. Among authors: liu sn. Cell Rep. 2023 Aug 29;42(8):112873. doi: 10.1016/j.celrep.2023.112873. Epub 2023 Jul 31. Cell Rep. 2023. PMID: 37527041 Free PMC article.
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