Dual RNA Sequencing Meta-analysis in
dual RNA-Seq
malaria
meta-analysis
transcriptomics
Journal
mSystems
ISSN: 2379-5077
Titre abrégé: mSystems
Pays: United States
ID NLM: 101680636
Informations de publication
Date de publication:
20 Apr 2021
20 Apr 2021
Historique:
entrez:
21
4
2021
pubmed:
22
4
2021
medline:
22
4
2021
Statut:
epublish
Résumé
Dual RNA sequencing (RNA-Seq) is the simultaneous transcriptomic analysis of interacting symbionts, for example, in malaria. Potential cross-species interactions identified by correlated gene expression might highlight interlinked signaling, metabolic, or gene regulatory pathways in addition to physically interacting proteins. Often, malaria studies address one of the interacting organisms-host or parasite-rendering the other "contamination." Here we perform a meta-analysis using such studies for cross-species expression analysis. We screened experiments for gene expression from host and
Identifiants
pubmed: 33879496
pii: 6/2/e00182-21
doi: 10.1128/mSystems.00182-21
pmc: PMC8546971
pii:
doi:
Types de publication
Journal Article
Langues
eng
Informations de copyright
Copyright © 2021 Mukherjee et al.
Références
Trends Parasitol. 2017 Sep;33(9):731-743
pubmed: 28688800
J Immunol. 1992 Mar 15;148(6):1635-42
pubmed: 1347304
Nucleic Acids Res. 2020 Jan 8;48(D1):D768-D775
pubmed: 31372645
Genome Res. 2004 Jun;14(6):1085-94
pubmed: 15173114
Methods Mol Biol. 2017;1446:25-37
pubmed: 27812933
Curr Biol. 2009 Feb 24;19(4):277-86
pubmed: 19217293
Cell Rep. 2018 Dec 11;25(11):3099-3109.e3
pubmed: 30540942
PLoS Comput Biol. 2013;9(8):e1003118
pubmed: 23950696
Int J Parasitol Drugs Drug Resist. 2012 Jan 09;2:1-10
pubmed: 24533266
Science. 2015 Jan 23;347(6220):1260419
pubmed: 25613900
PLoS Pathog. 2020 Apr 20;16(4):e1008482
pubmed: 32310999
Science. 2013 Sep 20;341(6152):1359-65
pubmed: 23929949
PLoS Pathog. 2019 Jun 6;15(6):e1007722
pubmed: 31170268
J Clin Immunol. 1996 Sep;16(5):278-82
pubmed: 8886997
Nucleic Acids Res. 2020 Jan 8;48(D1):D45-D50
pubmed: 31724722
Sci Transl Med. 2018 Jun 27;10(447):
pubmed: 29950443
Immunity. 2018 Feb 20;48(2):350-363.e7
pubmed: 29426701
Nat Commun. 2020 Jun 2;11(1):2763
pubmed: 32488076
Methods Mol Biol. 2012;804:281-95
pubmed: 22144159
Front Microbiol. 2019 Feb 28;10:127
pubmed: 30891005
PLoS Genet. 2014 Mar 06;10(3):e1004082
pubmed: 24603482
Cell Host Microbe. 2018 Mar 14;23(3):395-406.e4
pubmed: 29478773
Genome Res. 2014 Sep;24(9):1433-44
pubmed: 25091627
Cell Rep. 2014 Apr 24;7(2):436-447
pubmed: 24703850
BMC Genomics. 2017 Sep 18;18(1):734
pubmed: 28923023
Trends Parasitol. 2016 Sep;32(9):682-696
pubmed: 27289273
Mol Biochem Parasitol. 2016 Sep - Oct;209(1-2):18-25
pubmed: 26844642
Stat Appl Genet Mol Biol. 2010;9:Article39
pubmed: 21044043
Nat Immunol. 2017 Jan;18(1):54-63
pubmed: 27721430
Cell Microbiol. 2017 Aug;19(8):
pubmed: 28256794
mSystems. 2020 Jul 7;5(4):
pubmed: 32636334
Mol Microbiol. 2010 Apr;76(1):12-24
pubmed: 20141604
PLoS Negl Trop Dis. 2015 Aug 05;9(8):e0003978
pubmed: 26244760
J Clin Pathol. 1994 Sep;47(9):787-9
pubmed: 7525659
Genome Biol. 2001;2(4):COMMENT1005
pubmed: 11305932
Elife. 2017 Sep 19;6:
pubmed: 28923166
Immunity. 2018 Apr 17;48(4):760-772.e4
pubmed: 29625893
PLoS Pathog. 2019 Apr 4;15(4):e1007512
pubmed: 30947298
Proc Natl Acad Sci U S A. 2018 Mar 13;115(11):E2604-E2613
pubmed: 29483266
Front Genet. 2016 Nov 21;7:206
pubmed: 27917194
PLoS One. 2018 Jun 19;13(6):e0199392
pubmed: 29920562
Proc Natl Acad Sci U S A. 2017 Dec 5;114(49):E10568-E10577
pubmed: 29162686
Malar J. 2016 Jan 20;15:30
pubmed: 26791272
Sci Rep. 2015 Dec 07;5:17818
pubmed: 26639022
Nature. 2013 Jun 13;498(7453):228-31
pubmed: 23719378
PLoS Biol. 2015 Apr 22;13(4):e1002132
pubmed: 25901609
BMC Genomics. 2020 Jun 8;21(1):395
pubmed: 32513207
Mol Biochem Parasitol. 1993 Oct;61(2):231-41
pubmed: 8264727
Cell Host Microbe. 2018 Jun 13;23(6):796-808.e6
pubmed: 29805094
Sci Rep. 2017 Oct 24;7(1):13872
pubmed: 29066816
Nucleic Acids Res. 2003 Jan 1;31(1):212-5
pubmed: 12519984
IEEE Trans Vis Comput Graph. 2014 Dec;20(12):1983-92
pubmed: 26356912
Front Immunol. 2018 Dec 19;9:3005
pubmed: 30619354
Nat Rev Microbiol. 2012 Sep;10(9):618-30
pubmed: 22890146
BMC Genomics. 2012 Mar 29;13:125
pubmed: 22458863
Parasitol Today. 1999 Dec;15(12):488-91
pubmed: 10557149
Nat Immunol. 2018 May;19(5):497-507
pubmed: 29662170
Genome Res. 2003 Nov;13(11):2498-504
pubmed: 14597658
Sci Rep. 2017 Aug 10;7(1):7761
pubmed: 28798400
Nat Rev Genet. 2019 Nov;20(11):631-656
pubmed: 31341269
Cell. 1998 May 1;93(3):455-66
pubmed: 9590179
Cell Calcium. 2015 Mar;57(3):186-93
pubmed: 25605521
Nucleic Acids Res. 2011 Jan;39(Database issue):D19-21
pubmed: 21062823
Nat Rev Genet. 2009 Jan;10(1):57-63
pubmed: 19015660
Front Genet. 2020 Jan 24;10:1357
pubmed: 32038713
J Infect. 2018 Nov;77(5):440-447
pubmed: 30248353
Elife. 2017 Dec 07;6:
pubmed: 29215331
Science. 2020 Jan 3;367(6473):51-59
pubmed: 31896710
PLoS Pathog. 2017 Feb 16;13(2):e1006033
pubmed: 28207848
Biochim Biophys Acta Mol Basis Dis. 2018 Jun;1864(6 Pt B):2329-2340
pubmed: 29069611
Nucleic Acids Res. 2013 Feb 1;41(3):1508-18
pubmed: 23275547
Molecules. 2020 Dec 15;25(24):
pubmed: 33334080
Int J Mol Sci. 2012 Dec 03;13(12):16346-72
pubmed: 23208374
Genome Biol. 2019 Nov 14;20(1):238
pubmed: 31727128
BMC Syst Biol. 2015;9 Suppl 4:S1
pubmed: 26100579
mBio. 2020 Feb 4;11(1):
pubmed: 32019802
Wellcome Open Res. 2018 Nov 2;3:142
pubmed: 30542666
Malar J. 2016 Sep 02;15(1):451
pubmed: 27590312
Curr Protoc Bioinformatics. 2015 Sep 03;51:11.14.1-11.14.19
pubmed: 26334920
Cell. 2017 Jul 13;170(2):260-272.e8
pubmed: 28708996
Nat Immunol. 2020 Jul;21(7):700-703
pubmed: 32577013
Bioinformatics. 2013 Jan 1;29(1):15-21
pubmed: 23104886
Vaccine. 2015 Dec 22;33(52):7462-8
pubmed: 26469716
Nat Commun. 2018 Sep 18;9(1):3801
pubmed: 30228310
Nature. 2016 Feb 11;530(7589):233-6
pubmed: 26863983
Sci Rep. 2016 Aug 10;6:31291
pubmed: 27506615
Cell Host Microbe. 2014 Jul 9;16(1):128-40
pubmed: 25011111
Curr Opin Struct Biol. 2002 Jun;12(3):355-61
pubmed: 12127455
Science. 2018 May 4;360(6388):
pubmed: 29724925
PLoS Biol. 2003 Oct;1(1):E5
pubmed: 12929205
Front Immunol. 2018 Dec 07;9:2888
pubmed: 30581439
J Biol Chem. 2015 Aug 7;290(32):19496-511
pubmed: 25960542
Nat Commun. 2019 Jan 30;10(1):488
pubmed: 30700707
Nucleic Acids Res. 2011 Jan;39(Database issue):D28-31
pubmed: 20972220
Expert Rev Vaccines. 2017 Jan;16(1):45-54
pubmed: 27327875
Nat Methods. 2015 Feb;12(2):115-21
pubmed: 25633503
Eukaryot Cell. 2013 Dec;12(12):1588-99
pubmed: 23873863
BMC Bioinformatics. 2013 Jan 17;14:19
pubmed: 23323543
Science. 2003 Oct 10;302(5643):249-55
pubmed: 12934013
J Inherit Metab Dis. 2009 Dec;32 Suppl 1:S169-73
pubmed: 19757147
Cell Host Microbe. 2019 Apr 10;25(4):565-577.e6
pubmed: 30905437
Bioinformatics. 2009 Jun 15;25(12):i161-8
pubmed: 19477983
Am J Pathol. 1998 Jun;152(6):1477-87
pubmed: 9626052
J Mol Biol. 1990 Oct 5;215(3):403-10
pubmed: 2231712
PLoS Pathog. 2011 Feb;7(2):e1001288
pubmed: 21379566
Mol Biol Cell. 2016 Feb 1;27(3):549-71
pubmed: 26680740