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Items: 22


Microbiota contribute to obesity-related increases in the pulmonary response to ozone.

Tashiro H, Cho Y, Kasahara DI, Brand JD, Bry L, Yeliseyev V, Abu-Ali G, Huttenhower C, Shore SA.

Am J Respir Cell Mol Biol. 2019 May 30. doi: 10.1165/rcmb.2019-0144OC. [Epub ahead of print]


Sex Differences in Pulmonary Responses to Ozone in Mice. Role of the Microbiome.

Cho Y, Abu-Ali G, Tashiro H, Brown TA, Osgood RS, Kasahara DI, Huttenhower C, Shore SA.

Am J Respir Cell Mol Biol. 2019 Feb;60(2):198-208. doi: 10.1165/rcmb.2018-0099OC.


The Microbiome Regulates Pulmonary Responses to Ozone in Mice.

Cho Y, Abu-Ali G, Tashiro H, Kasahara DI, Brown TA, Brand JD, Mathews JA, Huttenhower C, Shore SA.

Am J Respir Cell Mol Biol. 2018 Sep;59(3):346-354. doi: 10.1165/rcmb.2017-0404OC.


Metatranscriptome of human faecal microbial communities in a cohort of adult men.

Abu-Ali GS, Mehta RS, Lloyd-Price J, Mallick H, Branck T, Ivey KL, Drew DA, DuLong C, Rimm E, Izard J, Chan AT, Huttenhower C.

Nat Microbiol. 2018 Mar;3(3):356-366. doi: 10.1038/s41564-017-0084-4. Epub 2018 Jan 15.


Stability of the human faecal microbiome in a cohort of adult men.

Mehta RS, Abu-Ali GS, Drew DA, Lloyd-Price J, Subramanian A, Lochhead P, Joshi AD, Ivey KL, Khalili H, Brown GT, DuLong C, Song M, Nguyen LH, Mallick H, Rimm EB, Izard J, Huttenhower C, Chan AT.

Nat Microbiol. 2018 Mar;3(3):347-355. doi: 10.1038/s41564-017-0096-0. Epub 2018 Jan 15.


bioBakery: a meta'omic analysis environment.

McIver LJ, Abu-Ali G, Franzosa EA, Schwager R, Morgan XC, Waldron L, Segata N, Huttenhower C.

Bioinformatics. 2018 Apr 1;34(7):1235-1237. doi: 10.1093/bioinformatics/btx754.


Assessment of variation in microbial community amplicon sequencing by the Microbiome Quality Control (MBQC) project consortium.

Sinha R, Abu-Ali G, Vogtmann E, Fodor AA, Ren B, Amir A, Schwager E, Crabtree J, Ma S; Microbiome Quality Control Project Consortium, Abnet CC, Knight R, White O, Huttenhower C.

Nat Biotechnol. 2017 Nov;35(11):1077-1086. doi: 10.1038/nbt.3981. Epub 2017 Oct 2.


The Role of Gut Microbiome in the Pathogenesis of Prostate Cancer: A Prospective, Pilot Study.

Golombos DM, Ayangbesan A, O'Malley P, Lewicki P, Barlow L, Barbieri CE, Chan C, DuLong C, Abu-Ali G, Huttenhower C, Scherr DS.

Urology. 2018 Jan;111:122-128. doi: 10.1016/j.urology.2017.08.039. Epub 2017 Sep 6.


Fluoride Depletes Acidogenic Taxa in Oral but Not Gut Microbial Communities in Mice.

Yasuda K, Hsu T, Gallini CA, Mclver LJ, Schwager E, Shi A, DuLong CR, Schwager RN, Abu-Ali GS, Franzosa EA, Garrett WS, Huttenhower C, Morgan XC.

mSystems. 2017 Aug 8;2(4). pii: e00047-17. doi: 10.1128/mSystems.00047-17. eCollection 2017 Jul-Aug.


Lactobacillus-Deficient Cervicovaginal Bacterial Communities Are Associated with Increased HIV Acquisition in Young South African Women.

Gosmann C, Anahtar MN, Handley SA, Farcasanu M, Abu-Ali G, Bowman BA, Padavattan N, Desai C, Droit L, Moodley A, Dong M, Chen Y, Ismail N, Ndung'u T, Ghebremichael MS, Wesemann DR, Mitchell C, Dong KL, Huttenhower C, Walker BD, Virgin HW, Kwon DS.

Immunity. 2017 Jan 17;46(1):29-37. doi: 10.1016/j.immuni.2016.12.013. Epub 2017 Jan 10.


Urban Transit System Microbial Communities Differ by Surface Type and Interaction with Humans and the Environment.

Hsu T, Joice R, Vallarino J, Abu-Ali G, Hartmann EM, Shafquat A, DuLong C, Baranowski C, Gevers D, Green JL, Morgan XC, Spengler JD, Huttenhower C.

mSystems. 2016 Jun 28;1(3). pii: e00018-16. eCollection 2016 May-Jun.


The healthy human microbiome.

Lloyd-Price J, Abu-Ali G, Huttenhower C.

Genome Med. 2016 Apr 27;8(1):51. doi: 10.1186/s13073-016-0307-y. Review.


Fecal Microbiome in Epidemiologic Studies-Letter.

Drew DA, Lochhead P, Abu-Ali G, Chan AT, Huttenhower C, Izard J.

Cancer Epidemiol Biomarkers Prev. 2016 May;25(5):869. doi: 10.1158/1055-9965.EPI-16-0063. Epub 2016 Mar 9. No abstract available.


Sequencing and beyond: integrating molecular 'omics' for microbial community profiling.

Franzosa EA, Hsu T, Sirota-Madi A, Shafquat A, Abu-Ali G, Morgan XC, Huttenhower C.

Nat Rev Microbiol. 2015 Jun;13(6):360-72. doi: 10.1038/nrmicro3451. Epub 2015 Apr 27. Review.


Genomic paradigms for food-borne enteric pathogen analysis at the USFDA: case studies highlighting method utility, integration and resolution.

Elkins CA, Kotewicz ML, Jackson SA, Lacher DW, Abu-Ali GS, Patel IR.

Food Addit Contam Part A Chem Anal Control Expo Risk Assess. 2013;30(8):1422-36. doi: 10.1080/19440049.2012.743192. Epub 2012 Dec 3.


Correlation between in vivo biofilm formation and virulence gene expression in Escherichia coli O104:H4.

Al Safadi R, Abu-Ali GS, Sloup RE, Rudrik JT, Waters CM, Eaton KA, Manning SD.

PLoS One. 2012;7(7):e41628. doi: 10.1371/journal.pone.0041628. Epub 2012 Jul 25.


Shiga toxin 2 overexpression in Escherichia coli O157:H7 strains associated with severe human disease.

Neupane M, Abu-Ali GS, Mitra A, Lacher DW, Manning SD, Riordan JT.

Microb Pathog. 2011 Dec;51(6):466-70. doi: 10.1016/j.micpath.2011.07.009. Epub 2011 Aug 16.


Increased adherence and expression of virulence genes in a lineage of Escherichia coli O157:H7 commonly associated with human infections.

Abu-Ali GS, Ouellette LM, Henderson ST, Lacher DW, Riordan JT, Whittam TS, Manning SD.

PLoS One. 2010 Apr 21;5(4):e10167. doi: 10.1371/journal.pone.0010167.


Differences in adherence and virulence gene expression between two outbreak strains of enterohaemorrhagic Escherichia coli O157 : H7.

Abu-Ali GS, Ouellette LM, Henderson ST, Whittam TS, Manning SD.

Microbiology. 2010 Feb;156(Pt 2):408-19. doi: 10.1099/mic.0.033126-0. Epub 2009 Nov 5.


Genomic diversity of pathogenic Escherichia coli of the EHEC 2 clonal complex.

Abu-Ali GS, Lacher DW, Wick LM, Qi W, Whittam TS.

BMC Genomics. 2009 Jul 3;10:296. doi: 10.1186/1471-2164-10-296.


The putative tumour modifier gene ATP5A1 is not mutated in human colorectal cancer cell lines but expression levels correlate with TP53 mutations and chromosomal instability.

Seth R, Keeley J, Abu-Ali G, Crook S, Jackson D, Ilyas M.

J Clin Pathol. 2009 Jul;62(7):598-603. doi: 10.1136/jcp.2009.064436. Epub 2009 Mar 3.


Pathogenesis of renal disease due to enterohemorrhagic Escherichia coli in germ-free mice.

Eaton KA, Friedman DI, Francis GJ, Tyler JS, Young VB, Haeger J, Abu-Ali G, Whittam TS.

Infect Immun. 2008 Jul;76(7):3054-63. doi: 10.1128/IAI.01626-07. Epub 2008 Apr 28.

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