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Evaluation of software impact designed for biomedical research: Are we measuring what's meaningful?
Afiaz A, Ivanov AA, Chamberlin J, Hanauer D, Savonen CL, Goldman MJ, Morgan M, Reich M, Getka A, Holmes A, Pati S, Knight D, Boutros PC, Bakas S, Caporaso JG, Del Fiol G, Hochheiser H, Haas B, Schloss PD, Eddy JA, Albrecht J, Fedorov A, Waldron L, Hoffman AM, Bradshaw RL, Leek JT, Wright C. Afiaz A, et al. Among authors: caporaso jg. ArXiv [Preprint]. 2023 Jun 5:arXiv:2306.03255v1. ArXiv. 2023. PMID: 37332562 Free PMC article. Preprint.
Best practices to evaluate the impact of biomedical research software-metric collection beyond citations.
Afiaz A, Ivanov AA, Chamberlin J, Hanauer D, Savonen CL, Goldman MJ, Morgan M, Reich M, Getka A, Holmes A, Pati S, Knight D, Boutros PC, Bakas S, Caporaso JG, Del Fiol G, Hochheiser H, Haas B, Schloss PD, Eddy JA, Albrecht J, Fedorov A, Waldron L, Hoffman AM, Bradshaw RL, Leek JT, Wright C. Afiaz A, et al. Among authors: caporaso jg. Bioinformatics. 2024 Aug 2;40(8):btae469. doi: 10.1093/bioinformatics/btae469. Bioinformatics. 2024. PMID: 39067017 Free PMC article.
Microbiome science of human excrement composting.
Meilander J, Caporaso JG. Meilander J, et al. Among authors: caporaso jg. ISME J. 2024 Jan 8;18(1):wrae228. doi: 10.1093/ismejo/wrae228. ISME J. 2024. PMID: 39520251 Free PMC article. Review.
Predicting Neurodegenerative Disease Using Prepathology Gut Microbiota Composition: a Longitudinal Study in Mice Modeling Alzheimer's Disease Pathologies.
Borsom EM, Conn K, Keefe CR, Herman C, Orsini GM, Hirsch AH, Palma Avila M, Testo G, Jaramillo SA, Bolyen E, Lee K, Caporaso JG, Cope EK. Borsom EM, et al. Among authors: caporaso jg. Microbiol Spectr. 2023 Mar 6;11(2):e0345822. doi: 10.1128/spectrum.03458-22. Online ahead of print. Microbiol Spectr. 2023. PMID: 36877047 Free PMC article.
A pile of pipelines: An overview of the bioinformatics software for metabarcoding data analyses.
Hakimzadeh A, Abdala Asbun A, Albanese D, Bernard M, Buchner D, Callahan B, Caporaso JG, Curd E, Djemiel C, Brandström Durling M, Elbrecht V, Gold Z, Gweon HS, Hajibabaei M, Hildebrand F, Mikryukov V, Normandeau E, Özkurt E, M Palmer J, Pascal G, Porter TM, Straub D, Vasar M, Větrovský T, Zafeiropoulos H, Anslan S. Hakimzadeh A, et al. Among authors: caporaso jg. Mol Ecol Resour. 2024 Jul;24(5):e13847. doi: 10.1111/1755-0998.13847. Epub 2023 Aug 7. Mol Ecol Resour. 2024. PMID: 37548515 Review.
The mouth of America: the oral microbiome profile of the US population.
Chaturvedi AK, Vogtmann E, Shi J, Yano Y, Blaser MJ, Bokulich NA, Caporaso JG, Gillison ML, Graubard BI, Hua X, Hullings AG, Kahle L, Knight R, Li S, McLean J, Purandare V, Wan Y, Freedman ND, Abnet CC. Chaturvedi AK, et al. Among authors: caporaso jg. medRxiv [Preprint]. 2024 Dec 7:2024.12.03.24318415. doi: 10.1101/2024.12.03.24318415. medRxiv. 2024. PMID: 39677463 Free PMC article. Preprint.
The oral microbiome and all-cause mortality in the US population.
Vogtmann E, Yano Y, Shi J, Wan Y, Purandare V, McLean J, Li S, Knight R, Kahle L, Hullings AG, Hua X, Graubard BI, Gillison ML, Caporaso JG, Bokulich NA, Blaser MJ, Freedman ND, Chaturvedi AK, Abnet CC. Vogtmann E, et al. Among authors: caporaso jg. medRxiv [Preprint]. 2024 Dec 5:2024.12.03.24318413. doi: 10.1101/2024.12.03.24318413. medRxiv. 2024. PMID: 39677439 Free PMC article. Preprint.
128 results