Setty MN - Search Results

1

HLA type inference via haplotypes identical by descent.

Setty MN, Gusev A, Pe'er I. Setty MN, et al. J Comput Biol. 2011 Mar;18(3):483-93. doi: 10.1089/cmb.2010.0258. J Comput Biol. 2011. PMID: 21385049

2

SEACells infers transcriptional and epigenomic cellular states from single-cell genomics data.

Persad S, Choo ZN, Dien C, Sohail N, Masilionis I, Chaligné R, Nawy T, Brown CC, Sharma R, Pe'er I, Setty M, Pe'er D. Persad S, et al. Nat Biotechnol. 2023 Dec;41(12):1746-1757. doi: 10.1038/s41587-023-01716-9. Epub 2023 Mar 27. Nat Biotechnol. 2023. PMID: 36973557 Free PMC article.

3

Inferring transcriptional and microRNA-mediated regulatory programs in glioblastoma.

Setty M, Helmy K, Khan AA, Silber J, Arvey A, Neezen F, Agius P, Huse JT, Holland EC, Leslie CS. Setty M, et al. Mol Syst Biol. 2012;8:605. doi: 10.1038/msb.2012.37. Mol Syst Biol. 2012. PMID: 22929615 Free PMC article.

4

SeqGL Identifies Context-Dependent Binding Signals in Genome-Wide Regulatory Element Maps.

Setty M, Leslie CS. Setty M, et al. PLoS Comput Biol. 2015 May 27;11(5):e1004271. doi: 10.1371/journal.pcbi.1004271. eCollection 2015 May. PLoS Comput Biol. 2015. PMID: 26016777 Free PMC article.

5

Single-Cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment.

Azizi E, Carr AJ, Plitas G, Cornish AE, Konopacki C, Prabhakaran S, Nainys J, Wu K, Kiseliovas V, Setty M, Choi K, Fromme RM, Dao P, McKenney PT, Wasti RC, Kadaveru K, Mazutis L, Rudensky AY, Pe'er D. Azizi E, et al. Cell. 2018 Aug 23;174(5):1293-1308.e36. doi: 10.1016/j.cell.2018.05.060. Epub 2018 Jun 28. Cell. 2018. PMID: 29961579 Free PMC article.

6

Characterization of cell fate probabilities in single-cell data with Palantir.

Setty M, Kiseliovas V, Levine J, Gayoso A, Mazutis L, Pe'er D. Setty M, et al. Nat Biotechnol. 2019 Apr;37(4):451-460. doi: 10.1038/s41587-019-0068-4. Epub 2019 Mar 21. Nat Biotechnol. 2019. PMID: 30899105 Free PMC article.

7

Single-Cell Transcriptomics Reveals Early Emergence of Liver Parenchymal and Non-parenchymal Cell Lineages.

Lotto J, Drissler S, Cullum R, Wei W, Setty M, Bell EM, Boutet SC, Nowotschin S, Kuo YY, Garg V, Pe'er D, Church DM, Hadjantonakis AK, Hoodless PA. Lotto J, et al. Cell. 2020 Oct 29;183(3):702-716.e14. doi: 10.1016/j.cell.2020.09.012. Cell. 2020. PMID: 33125890 Free PMC article.

8

CellRank for directed single-cell fate mapping.

Lange M, Bergen V, Klein M, Setty M, Reuter B, Bakhti M, Lickert H, Ansari M, Schniering J, Schiller HB, Pe'er D, Theis FJ. Lange M, et al. Nat Methods. 2022 Feb;19(2):159-170. doi: 10.1038/s41592-021-01346-6. Epub 2022 Jan 13. Nat Methods. 2022. PMID: 35027767 Free PMC article.

9

A cooperative microRNA-tumor suppressor gene network in acute T-cell lymphoblastic leukemia (T-ALL).

Mavrakis KJ, Van Der Meulen J, Wolfe AL, Liu X, Mets E, Taghon T, Khan AA, Setty M, Rondou P, Vandenberghe P, Delabesse E, Benoit Y, Socci NB, Leslie CS, Van Vlierberghe P, Speleman F, Wendel HG. Mavrakis KJ, et al. Nat Genet. 2011 Jun 5;43(7):673-8. doi: 10.1038/ng.858. Nat Genet. 2011. PMID: 21642990 Free PMC article.

10

Early enhancer establishment and regulatory locus complexity shape transcriptional programs in hematopoietic differentiation.

González AJ, Setty M, Leslie CS. González AJ, et al. Nat Genet. 2015 Nov;47(11):1249-59. doi: 10.1038/ng.3402. Epub 2015 Sep 21. Nat Genet. 2015. PMID: 26390058 Free PMC article.

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