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Computational workflow for functional characterization of COVID-19 through secondary data analysis.
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- Author(s): Ghandikota S;Ghandikota S;Ghandikota S; Sharma M; Sharma M; Jegga AG; Jegga AG; Jegga AG; Jegga AG
- Source:
STAR protocols [STAR Protoc] 2021 Sep 24; Vol. 2 (4), pp. 100873. Date of Electronic Publication: 2021 Sep 24 (Print Publication: 2021).- Publication Type:
Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't- Language:
English - Source:
- Additional Information
- Source: Publisher: Cell Press Country of Publication: United States NLM ID: 101769501 Publication Model: eCollection Cited Medium: Internet ISSN: 2666-1667 (Electronic) Linking ISSN: 26661667 NLM ISO Abbreviation: STAR Protoc
- Publication Information: Original Publication: [Cambridge, MA] : Cell Press, [2020]-
- Subject Terms:
- Abstract: Standard transcriptomic analyses cannot fully capture the molecular mechanisms underlying disease pathophysiology and outcomes. We present a computational heterogeneous data integration and mining protocol that combines transcriptional signatures from multiple model systems, protein-protein interactions, single-cell RNA-seq markers, and phenotype-genotype associations to identify functional feature complexes. These feature modules represent a higher order multifeatured machines collectively working toward common pathophysiological goals. We apply this protocol for functional characterization of COVID-19, but it could be applied to many other diseases. For complete details on the use and execution of this protocol, please refer to Ghandikota et al. (2021).
Competing Interests: The authors declare no competing interests.
(© 2021 The Author(s).) - References: BMC Bioinformatics. 2011 Dec 17;12:480. (PMID: 22177264)
Nat Commun. 2018 Mar 15;9(1):1090. (PMID: 29545622)
Nature. 2020 Sep;585(7825):357-362. (PMID: 32939066)
Sci Adv. 2020 Jul 08;6(28):eaba1972. (PMID: 32832598)
Genome Res. 2003 Nov;13(11):2498-504. (PMID: 14597658)
Nucleic Acids Res. 2002 Apr 1;30(7):1575-84. (PMID: 11917018)
Nat Methods. 2017 Apr;14(4):417-419. (PMID: 28263959)
Nat Biotechnol. 2014 Sep;32(9):896-902. (PMID: 25150836)
Protein Sci. 2021 Jan;30(1):187-200. (PMID: 33070389)
Nature. 2020 Jul;583(7816):459-468. (PMID: 32353859)
Nature. 2020 Nov;587(7835):619-625. (PMID: 33208946)
PLoS Comput Biol. 2015 Apr 08;11(4):e1004120. (PMID: 25853560)
Nat Protoc. 2009;4(8):1184-91. (PMID: 19617889)
BMC Bioinformatics. 2010 Feb 18;11:94. (PMID: 20167110)
BMC Bioinformatics. 2013 Apr 15;14:128. (PMID: 23586463)
BMC Bioinformatics. 2006 Nov 06;7:488. (PMID: 17087821)
Nucleic Acids Res. 2010 Jul;38(Web Server issue):W96-102. (PMID: 20484371)
BMC Bioinformatics. 2009 Feb 03;10:48. (PMID: 19192299)
Genome Biol. 2014;15(12):550. (PMID: 25516281)
Nat Biotechnol. 2016 May;34(5):525-7. (PMID: 27043002)
Nucleic Acids Res. 2019 Jan 8;47(D1):D711-D715. (PMID: 30357387)
BMC Bioinformatics. 2009 Mar 30;10:99. (PMID: 19331680)
Bioinformatics. 2018 Sep 15;34(18):3160-3168. (PMID: 29590301)
Nucleic Acids Res. 2015 Apr 20;43(7):e47. (PMID: 25605792)
BMC Bioinformatics. 2011 Nov 09;12:436. (PMID: 22070249)
J Evol Biol. 2011 Aug;24(8):1836-41. (PMID: 21605215)
Nat Methods. 2020 Mar;17(3):261-272. (PMID: 32015543)
Patterns (N Y). 2021 May 14;2(5):100247. (PMID: 33842903)
Nucleic Acids Res. 2013 Jan;41(Database issue):D991-5. (PMID: 23193258)
Nat Methods. 2009 Jan;6(1):75-7. (PMID: 19079255)
BMC Bioinformatics. 2011 Aug 04;12:323. (PMID: 21816040)
Eur J Hum Genet. 2014 Jan;22(1):144-7. (PMID: 23695286)
Bioinformatics. 2010 Jan 1;26(1):139-40. (PMID: 19910308)
Nucleic Acids Res. 2019 Jan 8;47(D1):D1005-D1012. (PMID: 30445434)
Bioinformatics. 2012 Jul 1;28(13):1805-6. (PMID: 22543366)
Nat Methods. 2012 Mar 04;9(4):357-9. (PMID: 22388286)
Nature. 2020 Apr;580(7803):402-408. (PMID: 32296183)
Nucleic Acids Res. 2019 Jan 8;47(D1):D607-D613. (PMID: 30476243)
Sci Adv. 2020 Jul 08;6(28):eaba1983. (PMID: 32832599)
Cell. 2020 Aug 6;182(3):734-743.e5. (PMID: 32643603)
Bioinformatics. 2013 Jan 1;29(1):15-21. (PMID: 23104886)
J Evol Biol. 2005 Sep;18(5):1368-73. (PMID: 16135132)
Bioinformatics. 2010 Apr 15;26(8):1112-8. (PMID: 20200009)
Cell. 2020 May 28;181(5):1036-1045.e9. (PMID: 32416070)
Nucleic Acids Res. 2019 Jan 8;47(D1):D419-D426. (PMID: 30407594)
Nat Commun. 2019 Apr 3;10(1):1523. (PMID: 30944313)
Nucleic Acids Res. 2009 Jul;37(Web Server issue):W305-11. (PMID: 19465376)
Nature. 2020 Oct;586(7827):113-119. (PMID: 32707573) - Grant Information: UG3 TR002612 United States TR NCATS NIH HHS
- Contributed Indexing: Keywords: Bioinformatics; Gene Expression; Genomics; Health Sciences; Immunology; RNAseq; Single Cell; Systems biology
- Publication Date: Date Created: 20211108 Date Completed: 20220218 Latest Revision: 20221231
- Publication Date: 20221231
- Accession Number: PMC8551262
- Accession Number: 10.1016/j.xpro.2021.100873
- Accession Number: 34746856
- Source:
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