Krishnan A - Search Results

1

Reconciling differential gene expression data with molecular interaction networks.

Poirel CL, Rahman A, Rodrigues RR, Krishnan A, Addesa JR, Murali TM. Poirel CL, et al. Among authors: krishnan a. Bioinformatics. 2013 Mar 1;29(5):622-9. doi: 10.1093/bioinformatics/btt007. Epub 2013 Jan 12. Bioinformatics. 2013. PMID: 23314326 Free PMC article.

2

Ontology-aware classification of tissue and cell-type signals in gene expression profiles across platforms and technologies.

Lee YS, Krishnan A, Zhu Q, Troyanskaya OG. Lee YS, et al. Among authors: krishnan a. Bioinformatics. 2013 Dec 1;29(23):3036-44. doi: 10.1093/bioinformatics/btt529. Epub 2013 Sep 12. Bioinformatics. 2013. PMID: 24037214 Free PMC article.

3

Tissue-aware data integration approach for the inference of pathway interactions in metazoan organisms.

Park CY, Krishnan A, Zhu Q, Wong AK, Lee YS, Troyanskaya OG. Park CY, et al. Among authors: krishnan a. Bioinformatics. 2015 Apr 1;31(7):1093-101. doi: 10.1093/bioinformatics/btu786. Epub 2014 Nov 26. Bioinformatics. 2015. PMID: 25431329 Free PMC article.

4

Understanding multicellular function and disease with human tissue-specific networks.

Greene CS, Krishnan A, Wong AK, Ricciotti E, Zelaya RA, Himmelstein DS, Zhang R, Hartmann BM, Zaslavsky E, Sealfon SC, Chasman DI, FitzGerald GA, Dolinski K, Grosser T, Troyanskaya OG. Greene CS, et al. Among authors: krishnan a. Nat Genet. 2015 Jun;47(6):569-76. doi: 10.1038/ng.3259. Epub 2015 Apr 27. Nat Genet. 2015. PMID: 25915600 Free PMC article.

5

FNTM: a server for predicting functional networks of tissues in mouse.

Goya J, Wong AK, Yao V, Krishnan A, Homilius M, Troyanskaya OG. Goya J, et al. Among authors: krishnan a. Nucleic Acids Res. 2015 Jul 1;43(W1):W182-7. doi: 10.1093/nar/gkv443. Epub 2015 May 4. Nucleic Acids Res. 2015. PMID: 25940632 Free PMC article.

6

IMP 2.0: a multi-species functional genomics portal for integration, visualization and prediction of protein functions and networks.

Wong AK, Krishnan A, Yao V, Tadych A, Troyanskaya OG. Wong AK, et al. Among authors: krishnan a. Nucleic Acids Res. 2015 Jul 1;43(W1):W128-33. doi: 10.1093/nar/gkv486. Epub 2015 May 12. Nucleic Acids Res. 2015. PMID: 25969450 Free PMC article.

7

GIANT 2.0: genome-scale integrated analysis of gene networks in tissues.

Wong AK, Krishnan A, Troyanskaya OG. Wong AK, et al. Among authors: krishnan a. Nucleic Acids Res. 2018 Jul 2;46(W1):W65-W70. doi: 10.1093/nar/gky408. Nucleic Acids Res. 2018. PMID: 29800226 Free PMC article.

8

Supervised learning is an accurate method for network-based gene classification.

Liu R, Mancuso CA, Yannakopoulos A, Johnson KA, Krishnan A. Liu R, et al. Among authors: krishnan a. Bioinformatics. 2020 Jun 1;36(11):3457-3465. doi: 10.1093/bioinformatics/btaa150. Bioinformatics. 2020. PMID: 32129827 Free PMC article.

9

Accurately modeling biased random walks on weighted networks using node2vec.

Liu R, Hirn M, Krishnan A. Liu R, et al. Among authors: krishnan a. Bioinformatics. 2023 Jan 1;39(1):btad047. doi: 10.1093/bioinformatics/btad047. Bioinformatics. 2023. PMID: 36688699 Free PMC article.

10

PyGenePlexus: a Python package for gene discovery using network-based machine learning.

Mancuso CA, Liu R, Krishnan A. Mancuso CA, et al. Among authors: krishnan a. Bioinformatics. 2023 Feb 3;39(2):btad064. doi: 10.1093/bioinformatics/btad064. Bioinformatics. 2023. PMID: 36721325 Free PMC article.

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