Pesquisa | BVS Doenças Infecciosas e Parasitárias

1.

Personal omics profiling reveals dynamic molecular and medical phenotypes.

Chen, Rui; Mias, George I; Li-Pook-Than, Jennifer; Jiang, Lihua; Lam, Hugo Y K; Chen, Rong; Miriami, Elana; Karczewski, Konrad J; Hariharan, Manoj; Dewey, Frederick E; Cheng, Yong; Clark, Michael J; Im, Hogune; Habegger, Lukas; Balasubramanian, Suganthi; O'Huallachain, Maeve; Dudley, Joel T; Hillenmeyer, Sara; Haraksingh, Rajini; Sharon, Donald; Euskirchen, Ghia; Lacroute, Phil; Bettinger, Keith; Boyle, Alan P; Kasowski, Maya; Grubert, Fabian; Seki, Scott; Garcia, Marco; Whirl-Carrillo, Michelle; Gallardo, Mercedes; Blasco, Maria A; Greenberg, Peter L; Snyder, Phyllis; Klein, Teri E; Altman, Russ B; Butte, Atul J; Ashley, Euan A; Gerstein, Mark; Nadeau, Kari C; Tang, Hua; Snyder, Michael.

Cell ; 148(6): 1293-307, 2012 Mar 16.

Artigo em Inglês | MEDLINE | ID: mdl-22424236

2.

The phenotype-genotype reference map: Improving biobank data science through replication.

Bastarache, Lisa; Delozier, Sarah; Pandit, Anita; He, Jing; Lewis, Adam; Annis, Aubrey C; LeFaive, Jonathon; Denny, Joshua C; Carroll, Robert J; Altman, Russ B; Hughey, Jacob J; Zawistowski, Matthew; Peterson, Josh F.

Am J Hum Genet ; 110(9): 1522-1533, 2023 09 07.

Artigo em Inglês | MEDLINE | ID: mdl-37607538

3.

Functional genomics of OCTN2 variants informs protein-specific variant effect predictor for Carnitine Transporter Deficiency.

Koleske, Megan L; McInnes, Gregory; Brown, Julia E H; Thomas, Neil; Hutchinson, Keino; Chin, Marcus Y; Koehl, Antoine; Arkin, Michelle R; Schlessinger, Avner; Gallagher, Renata C; Song, Yun S; Altman, Russ B; Giacomini, Kathleen M.

Proc Natl Acad Sci U S A ; 119(46): e2210247119, 2022 Nov 16.

Artigo em Inglês | MEDLINE | ID: mdl-36343260

4.

Opportunities and challenges for the computational interpretation of rare variation in clinically important genes.

McInnes, Gregory; Sharo, Andrew G; Koleske, Megan L; Brown, Julia E H; Norstad, Matthew; Adhikari, Aashish N; Wang, Sheng; Brenner, Steven E; Halpern, Jodi; Koenig, Barbara A; Magnus, David C; Gallagher, Renata C; Giacomini, Kathleen M; Altman, Russ B.

Am J Hum Genet ; 108(4): 535-548, 2021 04 01.

Artigo em Inglês | MEDLINE | ID: mdl-33798442

5.

Contexts and contradictions: a roadmap for computational drug repurposing with knowledge inference.

Sosa, Daniel N; Altman, Russ B.

Brief Bioinform ; 23(4)2022 07 18.

Artigo em Inglês | MEDLINE | ID: mdl-35817308

6.

Challenges and opportunities in network-based solutions for biological questions.

Guo, Margaret G; Sosa, Daniel N; Altman, Russ B.

Brief Bioinform ; 23(1)2022 01 17.

Artigo em Inglês | MEDLINE | ID: mdl-34849568

7.

Gene set proximity analysis: expanding gene set enrichment analysis through learned geometric embeddings, with drug-repurposing applications in COVID-19.

Cousins, Henry; Hall, Taryn; Guo, Yinglong; Tso, Luke; Tzeng, Kathy T H; Cong, Le; Altman, Russ B.

Bioinformatics ; 39(1)2023 01 01.

Artigo em Inglês | MEDLINE | ID: mdl-36394254

8.

Analyzing the vast coronavirus literature with CoronaCentral.

Lever, Jake; Altman, Russ B.

Proc Natl Acad Sci U S A ; 118(23)2021 06 08.

Artigo em Inglês | MEDLINE | ID: mdl-34016708

9.

MARS: discovering novel cell types across heterogeneous single-cell experiments.

Brbic, Maria; Zitnik, Marinka; Wang, Sheng; Pisco, Angela O; Altman, Russ B; Darmanis, Spyros; Leskovec, Jure.

Nat Methods ; 17(12): 1200-1206, 2020 12.

Artigo em Inglês | MEDLINE | ID: mdl-33077966

10.

Construction of disease-specific cytokine profiles by associating disease genes with immune responses.

Liu, Tianyun; Wang, Shiyin; Wornow, Michael; Altman, Russ B.

PLoS Comput Biol ; 18(4): e1009497, 2022 04.

Artigo em Inglês | MEDLINE | ID: mdl-35404985

11.

Associating biological context with protein-protein interactions through text mining at PubMed scale.

Sosa, Daniel N; Hintzen, Rogier; Xiong, Betty; de Giorgio, Alex; Fauqueur, Julien; Davies, Mark; Lever, Jake; Altman, Russ B.

J Biomed Inform ; 145: 104474, 2023 09.

Artigo em Inglês | MEDLINE | ID: mdl-37572825

12.

Modeling drug response using network-based personalized treatment prediction (NetPTP) with applications to inflammatory bowel disease.

Han, Lichy; Sayyid, Zahra N; Altman, Russ B.

PLoS Comput Biol ; 17(2): e1008631, 2021 02.

Artigo em Inglês | MEDLINE | ID: mdl-33544718

13.

Large-scale labeling and assessment of sex bias in publicly available expression data.

Flynn, Emily; Chang, Annie; Altman, Russ B.

BMC Bioinformatics ; 22(1): 168, 2021 Mar 30.

Artigo em Inglês | MEDLINE | ID: mdl-33784977

14.

A Holy Grail - The Prediction of Protein Structure.

Altman, Russ B.

N Engl J Med ; 389(15): 1431-1434, 2023 Oct 12.

Artigo em Inglês | MEDLINE | ID: mdl-37732608

15.

Transfer learning enables prediction of CYP2D6 haplotype function.

McInnes, Gregory; Dalton, Rachel; Sangkuhl, Katrin; Whirl-Carrillo, Michelle; Lee, Seung-Been; Tsao, Philip S; Gaedigk, Andrea; Altman, Russ B; Woodahl, Erica L.

PLoS Comput Biol ; 16(11): e1008399, 2020 11.

Artigo em Inglês | MEDLINE | ID: mdl-33137098

16.

Distinct clinical phenotypes for Crohn's disease derived from patient surveys.

Liu, Tianyun; Han, Lichy; Tilley, Mera; Afzelius, Lovisa; Maciejewski, Mateusz; Jelinsky, Scott; Tian, Chao; McIntyre, Matthew; Bing, Nan; Hung, Kenneth; Altman, Russ B.

BMC Gastroenterol ; 21(1): 160, 2021 Apr 09.

Artigo em Inglês | MEDLINE | ID: mdl-33836648

17.

Search and visualization of gene-drug-disease interactions for pharmacogenomics and precision medicine research using GeneDive.

Wong, Mike; Previde, Paul; Cole, Jack; Thomas, Brook; Laxmeshwar, Nayana; Mallory, Emily; Lever, Jake; Petkovic, Dragutin; Altman, Russ B; Kulkarni, Anagha.

J Biomed Inform ; 117: 103732, 2021 05.

Artigo em Inglês | MEDLINE | ID: mdl-33737208

18.

Quantifying the Severity of Adverse Drug Reactions Using Social Media: Network Analysis.

Lavertu, Adam; Hamamsy, Tymor; Altman, Russ B.

J Med Internet Res ; 23(10): e27714, 2021 10 21.

Artigo em Inglês | MEDLINE | ID: mdl-34673524

19.

Extracting chemical reactions from text using Snorkel.

Mallory, Emily K; de Rochemonteix, Matthieu; Ratner, Alex; Acharya, Ambika; Re, Chris; Bright, Roselie A; Altman, Russ B.

BMC Bioinformatics ; 21(1): 217, 2020 May 27.

Artigo em Inglês | MEDLINE | ID: mdl-32460703

20.

Pharmacogenomics and big genomic data: from lab to clinic and back again.

Lavertu, Adam; McInnes, Greg; Daneshjou, Roxana; Whirl-Carrillo, Michelle; Klein, Teri E; Altman, Russ B.

Hum Mol Genet ; 27(R1): R72-R78, 2018 05 01.

Artigo em Inglês | MEDLINE | ID: mdl-29635477

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