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NIDHI SAHNI

TitleAssistant Professor
InstitutionMD Anderson
DepartmentSystems Biology
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    1. Li Y, Burgman B, McGrail DJ, Sun M, Qi D, Shukla SA, Wu E, Capasso A, Lin SY, Wu CJ, Eckhardt SG, Mills GB, Li B, Sahni N, Yi SS. Integrated Genomic Characterization of the Human Immunome in Cancer. Cancer Res. 2020 Aug 27. PMID: 32855206.
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    2. Liu XD, Kong W, Peterson CB, McGrail DJ, Hoang A, Zhang X, Lam T, Pilie PG, Zhu H, Beckermann KE, Haake SM, Isgandrova S, Martinez-Moczygemba M, Sahni N, Tannir NM, Lin SY, Rathmell WK, Jonasch E. PBRM1 loss defines a nonimmunogenic tumor phenotype associated with checkpoint inhibitor resistance in renal carcinoma. Nat Commun. 2020 05 01; 11(1):2135. PMID: 32358509.
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    3. Daniels J, Doukas PG, Escala MEM, Ringbloom KG, Shih DJH, Yang J, Tegtmeyer K, Park J, Thomas JJ, Selli ME, Altunbulakli C, Gowthaman R, Mo SH, Jothishankar B, Pease DR, Pro B, Abdulla FR, Shea C, Sahni N, Gru AA, Pierce BG, Louissaint A, Guitart J, Choi J. Cellular origins and genetic landscape of cutaneous gamma delta T cell lymphomas. Nat Commun. 2020 04 14; 11(1):1806. PMID: 32286303.
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    4. McGrail DJ, Garnett J, Yin J, Dai H, Shih DJH, Lam TNA, Li Y, Sun C, Li Y, Schmandt R, Wu JY, Hu L, Liang Y, Peng G, Jonasch E, Menter D, Yates MS, Kopetz S, Lu KH, Broaddus R, Mills GB, Sahni N, Lin SY. Proteome Instability Is a Therapeutic Vulnerability in Mismatch Repair-Deficient Cancer. Cancer Cell. 2020 03 16; 37(3):371-386.e12. PMID: 32109374.
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    5. Fang Y, McGrail DJ, Sun C, Labrie M, Chen X, Zhang D, Ju Z, Vellano CP, Lu Y, Li Y, Jeong KJ, Ding Z, Liang J, Wang SW, Dai H, Lee S, Sahni N, Mercado-Uribe I, Kim TB, Chen K, Lin SY, Peng G, Westin SN, Liu J, O'Connor MJ, Yap TA, Mills GB. Sequential Therapy with PARP and WEE1 Inhibitors Minimizes Toxicity while Maintaining Efficacy. Cancer Cell. 2019 06 10; 35(6):851-867.e7. PMID: 31185210.
      View in: PubMed
    6. Li Y, McGrail DJ, Xu J, Li J, Liu NN, Sun M, Lin R, Pancsa R, Zhang J, Lee JS, Wang H, Mills GB, Li X, Yi S, Sahni N. MERIT: Systematic Analysis and Characterization of Mutational Effect on RNA Interactome Topology. Hepatology. 2019 08; 70(2):532-546. PMID: 30153342.
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    7. Lu J, Xu J, Li J, Pan T, Bai J, Wang L, Jin X, Lin X, Zhang Y, Li Y, Sahni N, Li X. FACER: comprehensive molecular and functional characterization of epigenetic chromatin regulators. Nucleic Acids Res. 2018 11 02; 46(19):10019-10033. PMID: 30102398.
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    8. Ip CKM, Ng PKS, Jeong KJ, Shao SH, Ju Z, Leonard PG, Hua X, Vellano CP, Woessner R, Sahni N, Scott KL, Mills GB. Neomorphic PDGFRA extracellular domain driver mutations are resistant to PDGFRA targeted therapies. Nat Commun. 2018 11 02; 9(1):4583. PMID: 30389923.
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    9. Li Y, McGrail DJ, Xu J, Mills GB, Sahni N, Yi S. Gene Regulatory Network Perturbation by Genetic and Epigenetic Variation. Trends Biochem Sci. 2018 08; 43(8):576-592. PMID: 29941230.
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    10. Li Y, McGrail DJ, Latysheva N, Yi S, Babu MM, Sahni N. Pathway perturbations in signaling networks: Linking genotype to phenotype. Semin Cell Dev Biol. 2020 03; 99:3-11. PMID: 29738884.
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    11. McGrail DJ, Federico L, Li Y, Dai H, Lu Y, Mills GB, Yi S, Lin SY, Sahni N. Multi-omics analysis reveals neoantigen-independent immune cell infiltration in copy-number driven cancers. Nat Commun. 2018 04 03; 9(1):1317. PMID: 29615613.
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    12. Ng PK, Li J, Jeong KJ, Shao S, Chen H, Tsang YH, Sengupta S, Wang Z, Bhavana VH, Tran R, Soewito S, Minussi DC, Moreno D, Kong K, Dogruluk T, Lu H, Gao J, Tokheim C, Zhou DC, Johnson AM, Zeng J, Ip CKM, Ju Z, Wester M, Yu S, Li Y, Vellano CP, Schultz N, Karchin R, Ding L, Lu Y, Cheung LWT, Chen K, Shaw KR, Meric-Bernstam F, Scott KL, Yi S, Sahni N, Liang H, Mills GB. Systematic Functional Annotation of Somatic Mutations in Cancer. Cancer Cell. 2018 03 12; 33(3):450-462.e10. PMID: 29533785.
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    13. Li Y, Li L, Wang Z, Pan T, Sahni N, Jin X, Wang G, Li J, Zheng X, Zhang Y, Xu J, Yi S, Li X. LncMAP: Pan-cancer atlas of long noncoding RNA-mediated transcriptional network perturbations. Nucleic Acids Res. 2018 02 16; 46(3):1113-1123. PMID: 29325141.
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    14. Li Y, Sahni N, Pancsa R, McGrail DJ, Xu J, Hua X, Coulombe-Huntington J, Ryan M, Tychhon B, Sudhakar D, Hu L, Tyers M, Jiang X, Lin SY, Babu MM, Yi S. Revealing the Determinants of Widespread Alternative Splicing Perturbation in Cancer. Cell Rep. 2017 Oct 17; 21(3):798-812. PMID: 29045845.
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    15. Yi S, Liu NN, Hu L, Wang H, Sahni N. Base-resolution stratification of cancer mutations using functional variomics. Nat Protoc. 2017 Nov; 12(11):2323-2341. PMID: 28981122.
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    16. Yi S, Sahni N. Regulome networks and mutational landscape in liver cancer: An informative path to precision medicine. Hepatology. 2017 07; 66(1):280-282. PMID: 28422313.
      View in: PubMed
    17. Yi S, Lin S, Li Y, Zhao W, Mills GB, Sahni N. Functional variomics and network perturbation: connecting genotype to phenotype in cancer. Nat Rev Genet. 2017 07; 18(7):395-410. PMID: 28344341.
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    18. Karras GI, Yi S, Sahni N, Fischer M, Xie J, Vidal M, D'Andrea AD, Whitesell L, Lindquist S. HSP90 Shapes the Consequences of Human Genetic Variation. Cell. 2017 Feb 23; 168(5):856-866.e12. PMID: 28215707.
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    19. Chung CY, Khurana V, Yi S, Sahni N, Loh KH, Auluck PK, Baru V, Udeshi ND, Freyzon Y, Carr SA, Hill DE, Vidal M, Ting AY, Lindquist S. In Situ Peroxidase Labeling and Mass-Spectrometry Connects Alpha-Synuclein Directly to Endocytic Trafficking and mRNA Metabolism in Neurons. Cell Syst. 2017 02 22; 4(2):242-250.e4. PMID: 28131823.
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    20. Li Y, Sahni N, Yi S. Comparative analysis of protein interactome networks prioritizes candidate genes with cancer signatures. Oncotarget. 2016 Nov 29; 7(48):78841-78849. PMID: 27791983.
      View in: PubMed
    21. Yi S, Chen S, Zhang L, Sahni N. Signal Transduction and Regulation: Insights into Evolution. Biomed Res Int. 2016; 2016:8604245. PMID: 27525280.
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    22. Lin S, Yin YA, Jiang X, Sahni N, Yi S. Multi-OMICs and Genome Editing Perspectives on Liver Cancer Signaling Networks. Biomed Res Int. 2016; 2016:6186281. PMID: 27403431.
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    23. Yachie N, Petsalaki E, Mellor JC, Weile J, Jacob Y, Verby M, Ozturk SB, Li S, Cote AG, Mosca R, Knapp JJ, Ko M, Yu A, Gebbia M, Sahni N, Yi S, Tyagi T, Sheykhkarimli D, Roth JF, Wong C, Musa L, Snider J, Liu YC, Yu H, Braun P, Stagljar I, Hao T, Calderwood MA, Pelletier L, Aloy P, Hill DE, Vidal M, Roth FP. Pooled-matrix protein interaction screens using Barcode Fusion Genetics. Mol Syst Biol. 2016 Apr 22; 12(4):863. PMID: 27107012.
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    24. Barrera LA, Vedenko A, Kurland JV, Rogers JM, Gisselbrecht SS, Rossin EJ, Woodard J, Mariani L, Kock KH, Inukai S, Siggers T, Shokri L, Gordân R, Sahni N, Cotsapas C, Hao T, Yi S, Kellis M, Daly MJ, Vidal M, Hill DE, Bulyk ML. Survey of variation in human transcription factors reveals prevalent DNA binding changes. Science. 2016 Mar 25; 351(6280):1450-1454. PMID: 27013732.
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    25. Sun S, Yang F, Tan G, Costanzo M, Oughtred R, Hirschman J, Theesfeld CL, Bansal P, Sahni N, Yi S, Yu A, Tyagi T, Tie C, Hill DE, Vidal M, Andrews BJ, Boone C, Dolinski K, Roth FP. An extended set of yeast-based functional assays accurately identifies human disease mutations. Genome Res. 2016 05; 26(5):670-80. PMID: 26975778.
      View in: PubMed
    26. Yang X, Coulombe-Huntington J, Kang S, Sheynkman GM, Hao T, Richardson A, Sun S, Yang F, Shen YA, Murray RR, Spirohn K, Begg BE, Duran-Frigola M, MacWilliams A, Pevzner SJ, Zhong Q, Trigg SA, Tam S, Ghamsari L, Sahni N, Yi S, Rodriguez MD, Balcha D, Tan G, Costanzo M, Andrews B, Boone C, Zhou XJ, Salehi-Ashtiani K, Charloteaux B, Chen AA, Calderwood MA, Aloy P, Roth FP, Hill DE, Iakoucheva LM, Xia Y, Vidal M. Widespread Expansion of Protein Interaction Capabilities by Alternative Splicing. Cell. 2016 Feb 11; 164(4):805-17. PMID: 26871637.
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    27. Wang Y, Sahni N, Vidal M. Global Edgetic Rewiring in Cancer Networks. Cell Syst. 2015 Oct 28; 1(4):251-3. PMID: 27136053.
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    28. Sahni N, Yi S, Taipale M, Fuxman Bass JI, Coulombe-Huntington J, Yang F, Peng J, Weile J, Karras GI, Wang Y, Kovács IA, Kamburov A, Krykbaeva I, Lam MH, Tucker G, Khurana V, Sharma A, Liu YY, Yachie N, Zhong Q, Shen Y, Palagi A, San-Miguel A, Fan C, Balcha D, Dricot A, Jordan DM, Walsh JM, Shah AA, Yang X, Stoyanova AK, Leighton A, Calderwood MA, Jacob Y, Cusick ME, Salehi-Ashtiani K, Whitesell LJ, Sunyaev S, Berger B, Barabási AL, Charloteaux B, Hill DE, Hao T, Roth FP, Xia Y, Walhout AJM, Lindquist S, Vidal M. Widespread macromolecular interaction perturbations in human genetic disorders. Cell. 2015 Apr 23; 161(3):647-660. PMID: 25910212.
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    29. Fuxman Bass JI, Sahni N, Shrestha S, Garcia-Gonzalez A, Mori A, Bhat N, Yi S, Hill DE, Vidal M, Walhout AJM. Human gene-centered transcription factor networks for enhancers and disease variants. Cell. 2015 Apr 23; 161(3):661-673. PMID: 25910213.
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    30. Sharma A, Menche J, Huang CC, Ort T, Zhou X, Kitsak M, Sahni N, Thibault D, Voung L, Guo F, Ghiassian SD, Gulbahce N, Baribaud F, Tocker J, Dobrin R, Barnathan E, Liu H, Panettieri RA, Tantisira KG, Qiu W, Raby BA, Silverman EK, Vidal M, Weiss ST, Barabási AL. A disease module in the interactome explains disease heterogeneity, drug response and captures novel pathways and genes in asthma. Hum Mol Genet. 2015 Jun 01; 24(11):3005-20. PMID: 25586491.
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    31. Rolland T, Tasan M, Charloteaux B, Pevzner SJ, Zhong Q, Sahni N, Yi S, Lemmens I, Fontanillo C, Mosca R, Kamburov A, Ghiassian SD, Yang X, Ghamsari L, Balcha D, Begg BE, Braun P, Brehme M, Broly MP, Carvunis AR, Convery-Zupan D, Corominas R, Coulombe-Huntington J, Dann E, Dreze M, Dricot A, Fan C, Franzosa E, Gebreab F, Gutierrez BJ, Hardy MF, Jin M, Kang S, Kiros R, Lin GN, Luck K, MacWilliams A, Menche J, Murray RR, Palagi A, Poulin MM, Rambout X, Rasla J, Reichert P, Romero V, Ruyssinck E, Sahalie JM, Scholz A, Shah AA, Sharma A, Shen Y, Spirohn K, Tam S, Tejeda AO, Trigg SA, Twizere JC, Vega K, Walsh J, Cusick ME, Xia Y, Barabási AL, Iakoucheva LM, Aloy P, De Las Rivas J, Tavernier J, Calderwood MA, Hill DE, Hao T, Roth FP, Vidal M. A proteome-scale map of the human interactome network. Cell. 2014 Nov 20; 159(5):1212-1226. PMID: 25416956.
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    32. Hill SJ, Rolland T, Adelmant G, Xia X, Owen MS, Dricot A, Zack TI, Sahni N, Jacob Y, Hao T, McKinney KM, Clark AP, Reyon D, Tsai SQ, Joung JK, Beroukhim R, Marto JA, Vidal M, Gaudet S, Hill DE, Livingston DM. Systematic screening reveals a role for BRCA1 in the response to transcription-associated DNA damage. Genes Dev. 2014 Sep 01; 28(17):1957-75. PMID: 25184681.
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    33. Dittmer TA, Sahni N, Kubben N, Hill DE, Vidal M, Burgess RC, Roukos V, Misteli T. Systematic identification of pathological lamin A interactors. Mol Biol Cell. 2014 May; 25(9):1493-510. PMID: 24623722.
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    34. Sahni N, Yi S, Zhong Q, Jailkhani N, Charloteaux B, Cusick ME, Vidal M. Edgotype: a fundamental link between genotype and phenotype. Curr Opin Genet Dev. 2013 Dec; 23(6):649-57. PMID: 24287335.
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    35. Phutela UG, Sahni N. Microscopic Structural Changes in Paddy Straw Pretreated with Trichoderma reesei MTCC 164 and Coriolus versicolor MTCC 138. Indian J Microbiol. 2013 Jun; 53(2):227-31. PMID: 24426113.
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    36. Srikantha T, Daniels KJ, Pujol C, Sahni N, Yi S, Soll DR. Nonsex genes in the mating type locus of Candida albicans play roles in a/a biofilm formation, including impermeability and fluconazole resistance. PLoS Pathog. 2012 Jan; 8(1):e1002476. PMID: 22253594.
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    37. Yi S, Sahni N, Daniels KJ, Lu KL, Srikantha T, Huang G, Garnaas AM, Soll DR. Alternative mating type configurations (a/a versus a/a or a/a) of Candida albicans result in alternative biofilms regulated by different pathways. PLoS Biol. 2011 Aug; 9(8):e1001117. PMID: 21829325.
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    38. Yi S, Sahni N, Daniels KJ, Lu KL, Huang G, Srikantha T, Soll DR. Self-induction of a/a or alpha/alpha biofilms in Candida albicans is a pheromone-based paracrine system requiring switching. Eukaryot Cell. 2011 Jun; 10(6):753-60. PMID: 21498642.
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    39. Yi S, Sahni N, Daniels KJ, Lu KL, Huang G, Garnaas AM, Pujol C, Srikantha T, Soll DR. Utilization of the mating scaffold protein in the evolution of a new signal transduction pathway for biofilm development. mBio. 2011 Jan 11; 2(1):e00237-10. PMID: 21221248.
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    40. Sahni N, Yi S, Daniels KJ, Huang G, Srikantha T, Soll DR. Tec1 mediates the pheromone response of the white phenotype of Candida albicans: insights into the evolution of new signal transduction pathways. PLoS Biol. 2010 May 04; 8(5):e1000363. PMID: 20454615.
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    41. Huang G, Yi S, Sahni N, Daniels KJ, Srikantha T, Soll DR. N-acetylglucosamine induces white to opaque switching, a mating prerequisite in Candida albicans. PLoS Pathog. 2010 Mar 12; 6(3):e1000806. PMID: 20300604.
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    42. Sahni N, Yi S, Daniels KJ, Srikantha T, Pujol C, Soll DR. Genes selectively up-regulated by pheromone in white cells are involved in biofilm formation in Candida albicans. PLoS Pathog. 2009 Oct; 5(10):e1000601. PMID: 19798425.
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    43. Huang G, Srikantha T, Sahni N, Yi S, Soll DR. CO(2) regulates white-to-opaque switching in Candida albicans. Curr Biol. 2009 Feb 24; 19(4):330-4. PMID: 19200725.
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    44. Yi S, Sahni N, Pujol C, Daniels KJ, Srikantha T, Ma N, Soll DR. A Candida albicans-specific region of the alpha-pheromone receptor plays a selective role in the white cell pheromone response. Mol Microbiol. 2009 Feb; 71(4):925-47. PMID: 19170873.
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    45. Sahni N, Yi S, Pujol C, Soll DR. The white cell response to pheromone is a general characteristic of Candida albicans strains. Eukaryot Cell. 2009 Feb; 8(2):251-6. PMID: 19074600.
      View in: PubMed
    46. Srikantha T, Daniels KJ, Wu W, Lockhart SR, Yi S, Sahni N, Ma N, Soll DR. Dark brown is the more virulent of the switch phenotypes of Candida glabrata. Microbiology (Reading). 2008 Nov; 154(Pt 11):3309-3318. PMID: 18957584.
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    47. Yi S, Sahni N, Daniels KJ, Pujol C, Srikantha T, Soll DR. The same receptor, G protein, and mitogen-activated protein kinase pathway activate different downstream regulators in the alternative white and opaque pheromone responses of Candida albicans. Mol Biol Cell. 2008 Mar; 19(3):957-70. PMID: 18162580.
      View in: PubMed
    48. An extended set of yeast-based functional assays accurately identifies human disease mutations. Genome Research. 26:670-680.
    49. Multi-OMICs and genome editing perspectives on liver cancer signaling networks. BioMed Research International. 2016.
    50. Comparative analysis of protein interactome networks prioritizes candidate genes with cancer signatures. Oncotarget. 7:78841-78849.
    51. Survey of variation in human transcription factors reveals prevalent DNA binding changes. Science. 351:1450-1454.
    52. Widespread Expansion of Protein Interaction Capabilities by Alternative Splicing. Cell. 164:805-817.
    53. Signal Transduction and Regulation. BioMed Research International. 2016.
    54. Global Edgetic Rewiring in Cancer Networks. Cell Systems. 1:251-253.
    55. A disease module in the interactome explains disease heterogeneity, drug response and captures novel pathways and genes in asthma. Human Molecular Genetics. 24:3005-3020.
    56. Pooled-matrix protein interaction screens using Barcode Fusion Genetics. Molecular Systems Biology. 12.
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