{"doi":"10.1038/nature11209","title":"A framework for human microbiome research","abstract":"A variety of microbial communities and their genes (the microbiome) exist throughout the human body, with fundamental roles in human health and disease. The National Institutes of Health (NIH)-funded Human Microbiome Project Consortium has established a population-scale framework to develop metagenomic protocols, resulting in a broad range of quality-controlled resources and data including standardized methods for creating, processing and interpreting distinct types of high-throughput metagenomic data available to the scientific community. Here we present resources from a population of 242 healthy adults sampled at 15 or 18 body sites up to three times, which have generated 5,177 microbial taxonomic profiles from 16S ribosomal RNA genes and over 3.5 terabases of metagenomic sequence so far. In parallel, approximately 800 reference strains isolated from the human body have been sequenced. Collectively, these data represent the largest resource describing the abundance and variety of the human microbiome, while providing a framework for current and future studies.","journal":"Nature","year":2012,"id":8389,"datarank":9.25664641078686,"base_score":7.896924656268864,"endowment":7.896924656268864,"self_citation_contribution":1.1845386984403299,"citation_network_contribution":8.072107712346531,"self_endowment_contribution":1.1845386984403299,"citer_contribution":8.072107712346531,"corpus_percentile":77.13588283157038,"corpus_rank":282,"citation_count":2741,"citer_count":111,"citers_with_citation_signal":111,"citers_with_endowment":111,"datacite_reuse_total":0,"is_dataset":true,"is_dataset_confidence":0.8776,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2012-06-01","fair_score":52.9167,"fair_percentile":79.11169744942832,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":19811,"name":"Barbara A. Methé","orcid":"0000-0001-8711-1448","position":1,"is_corresponding":false},{"id":19855,"name":"William Nelson","orcid":"0000-0002-1873-3929","position":2,"is_corresponding":false},{"id":29145,"name":"Mihai Pop","orcid":"0000-0001-9617-5304","position":3,"is_corresponding":false},{"id":29019,"name":"Heather H. Creasy","orcid":"0000-0002-1369-6882","position":4,"is_corresponding":false},{"id":29022,"name":"Michelle Giglio","orcid":"0000-0001-7628-5565","position":5,"is_corresponding":false},{"id":493,"name":"Curtis Huttenhower","orcid":"0000-0002-1110-0096","position":6,"is_corresponding":false},{"id":490,"name":"Dirk Gevers","orcid":"0000-0003-1998-0363","position":7,"is_corresponding":false},{"id":19859,"name":"Joseph F. Petrosino","orcid":"0000-0002-4046-6898","position":8,"is_corresponding":false},{"id":29016,"name":"Sahar Abubucker","orcid":null,"position":9,"is_corresponding":false},{"id":29017,"name":"Jonathan H. Badger","orcid":"0000-0002-5662-423X","position":10,"is_corresponding":false},{"id":59059,"name":"Elanine Miranda","orcid":"0000-0002-1633-9303","position":11,"is_corresponding":false},{"id":29020,"name":"Ashlee M. Earl","orcid":"0000-0001-7857-9145","position":12,"is_corresponding":false},{"id":29021,"name":"Michael G. FitzGerald","orcid":"0000-0002-0488-0530","position":13,"is_corresponding":false},{"id":1766,"name":"Robert S. Fulton","orcid":"0009-0006-6820-3404","position":14,"is_corresponding":false},{"id":29023,"name":"Kymberlie Hallsworth-Pepin","orcid":null,"position":15,"is_corresponding":false},{"id":29024,"name":"Elizabeth A. Lobos","orcid":null,"position":16,"is_corresponding":false},{"id":1789,"name":"Vincent Magrini","orcid":"0000-0002-2019-4872","position":18,"is_corresponding":false},{"id":29026,"name":"John Martin","orcid":"0000-0003-1235-5952","position":19,"is_corresponding":false},{"id":29027,"name":"Makedonka Mitreva","orcid":"0000-0001-9572-3436","position":20,"is_corresponding":false},{"id":1751,"name":"Donna M. Muzny","orcid":"0000-0002-3055-0359","position":21,"is_corresponding":false},{"id":17279,"name":"Erica Sodergren","orcid":"0000-0003-4843-0483","position":22,"is_corresponding":false},{"id":29028,"name":"James Versalovic","orcid":"0000-0002-5765-4385","position":23,"is_corresponding":false},{"id":41931,"name":"Jiayu Wen","orcid":"0000-0003-1249-6456","position":24,"is_corresponding":false},{"id":20068,"name":"Kim C. Worley","orcid":"0000-0002-0282-1000","position":25,"is_corresponding":false},{"id":4318,"name":"Jennifer R. Wortman","orcid":"0000-0002-8713-1227","position":26,"is_corresponding":false},{"id":29031,"name":"Qiandong Zeng","orcid":"0000-0002-1885-7892","position":28,"is_corresponding":false},{"id":29032,"name":"Kjersti M. Aagaard","orcid":"0000-0002-2960-0371","position":29,"is_corresponding":false},{"id":29033,"name":"Olukemi O. Abolude","orcid":null,"position":30,"is_corresponding":false},{"id":29034,"name":"Emma Allen‐Vercoe","orcid":"0000-0002-8716-327X","position":31,"is_corresponding":false},{"id":29035,"name":"Eric J. Alm","orcid":"0000-0001-8294-9364","position":32,"is_corresponding":false},{"id":29036,"name":"Lucia Alvarado","orcid":null,"position":33,"is_corresponding":false},{"id":29037,"name":"Gary L. Andersen","orcid":"0000-0002-1618-9827","position":34,"is_corresponding":false},{"id":29038,"name":"Scott Anderson","orcid":"0000-0002-0331-6129","position":35,"is_corresponding":false},{"id":13213,"name":"Elizabeth L. Appelbaum","orcid":null,"position":36,"is_corresponding":false},{"id":29039,"name":"Harindra Arachchi","orcid":null,"position":37,"is_corresponding":false},{"id":29040,"name":"Gary C. Armitage","orcid":null,"position":38,"is_corresponding":false},{"id":29041,"name":"Cesar Arze","orcid":"0000-0002-3606-4183","position":39,"is_corresponding":false},{"id":29042,"name":"Tulin Ayvaz","orcid":null,"position":40,"is_corresponding":false},{"id":29043,"name":"Carl C. Baker","orcid":null,"position":41,"is_corresponding":false},{"id":29044,"name":"Lisa Begg","orcid":null,"position":42,"is_corresponding":false},{"id":29045,"name":"Tsegahiwot Belachew","orcid":null,"position":43,"is_corresponding":false},{"id":29046,"name":"Veena Bhonagiri","orcid":null,"position":44,"is_corresponding":false},{"id":54129,"name":"Martin Blaser","orcid":null,"position":45,"is_corresponding":false},{"id":19777,"name":"Martin J. Blaser","orcid":"0000-0003-2447-2443","position":46,"is_corresponding":false},{"id":29048,"name":"Toby Bloom","orcid":null,"position":47,"is_corresponding":false},{"id":4096,"name":"Vivien R. Bonazzi","orcid":"0000-0002-7359-9072","position":48,"is_corresponding":false},{"id":29049,"name":"J. Paul Brooks","orcid":"0000-0003-0423-8422","position":49,"is_corresponding":false},{"id":29050,"name":"Gregory A. Buck","orcid":"0000-0003-4621-3987","position":50,"is_corresponding":false},{"id":29051,"name":"Christian Buhay","orcid":null,"position":51,"is_corresponding":false},{"id":4168,"name":"Dana Busam","orcid":null,"position":52,"is_corresponding":false},{"id":29052,"name":"Joseph L. Campbell","orcid":null,"position":53,"is_corresponding":false},{"id":29053,"name":"Shane R. Canon","orcid":null,"position":54,"is_corresponding":false},{"id":29054,"name":"Brandi L. Cantarel","orcid":"0000-0003-4126-4478","position":55,"is_corresponding":false},{"id":19846,"name":"Patrick Chain","orcid":"0000-0003-3949-3634","position":56,"is_corresponding":false},{"id":29055,"name":"I.-Min A. Chen","orcid":null,"position":57,"is_corresponding":false},{"id":29056,"name":"Lei Chen","orcid":"0000-0002-5733-5026","position":58,"is_corresponding":false},{"id":29057,"name":"Shaila Chhibba","orcid":null,"position":59,"is_corresponding":false},{"id":29058,"name":"Ken Chu","orcid":"0000-0002-9602-1433","position":60,"is_corresponding":false},{"id":86797,"name":"Jose C Clemente","orcid":null,"position":61,"is_corresponding":false},{"id":29060,"name":"José C. Clemente","orcid":"0000-0002-3970-9856","position":62,"is_corresponding":false},{"id":29061,"name":"Sandra W. Clifton","orcid":null,"position":63,"is_corresponding":false},{"id":29062,"name":"Sean Conlan","orcid":"0000-0001-6848-3465","position":64,"is_corresponding":false},{"id":19713,"name":"Jonathan Crabtree","orcid":"0000-0002-7286-5690","position":65,"is_corresponding":false},{"id":29063,"name":"Mary A. Cutting","orcid":null,"position":66,"is_corresponding":false},{"id":29064,"name":"Noam J. Davidovics","orcid":null,"position":67,"is_corresponding":false},{"id":29065,"name":"Catherine Davis","orcid":"0000-0003-3156-9163","position":68,"is_corresponding":false},{"id":19848,"name":"Todd Z. DeSantis","orcid":"0000-0002-1786-1013","position":69,"is_corresponding":false},{"id":29066,"name":"Carolyn Deal","orcid":null,"position":70,"is_corresponding":false},{"id":29067,"name":"Kimberley D. Delehaunty","orcid":null,"position":71,"is_corresponding":false},{"id":29068,"name":"Floyd E. Dewhirst","orcid":"0000-0003-4427-7928","position":72,"is_corresponding":false},{"id":29069,"name":"Elena Deych","orcid":"0000-0002-6083-3579","position":73,"is_corresponding":false},{"id":29070,"name":"Yan Ding","orcid":"0000-0002-7708-4391","position":74,"is_corresponding":false},{"id":1772,"name":"David J. Dooling","orcid":null,"position":75,"is_corresponding":false},{"id":29071,"name":"Shannon Dugan","orcid":null,"position":76,"is_corresponding":false},{"id":29072,"name":"W. Michael Dunne","orcid":null,"position":77,"is_corresponding":false},{"id":29074,"name":"R. C. Edgar","orcid":"0000-0001-7355-2541","position":79,"is_corresponding":false},{"id":29075,"name":"Rachel Erlich","orcid":null,"position":80,"is_corresponding":false},{"id":29076,"name":"Candace N. Farmer","orcid":null,"position":81,"is_corresponding":false},{"id":29077,"name":"Ruth M. Farrell","orcid":"0000-0002-8258-8842","position":82,"is_corresponding":false},{"id":29078,"name":"Karoline Faust","orcid":"0000-0001-7129-2803","position":83,"is_corresponding":false},{"id":29079,"name":"Michael Feldgarden","orcid":"0000-0003-4686-8916","position":84,"is_corresponding":false},{"id":29080,"name":"Victor Felix","orcid":"0000-0001-7825-6418","position":85,"is_corresponding":false},{"id":25084,"name":"Sheila Fisher","orcid":"0000-0002-8681-2362","position":86,"is_corresponding":false},{"id":29081,"name":"Anthony A. Fodor","orcid":"0000-0002-9305-4264","position":87,"is_corresponding":false},{"id":29082,"name":"Larry J. Forney","orcid":"0000-0003-2448-1219","position":88,"is_corresponding":false},{"id":29083,"name":"Leslie Foster","orcid":null,"position":89,"is_corresponding":false},{"id":4102,"name":"Valentina Di Francesco","orcid":"0000-0003-4216-724X","position":90,"is_corresponding":false},{"id":29084,"name":"Jonathan Friedman","orcid":"0000-0001-8476-8030","position":91,"is_corresponding":false},{"id":29085,"name":"Dennis C. Friedrich","orcid":null,"position":92,"is_corresponding":false},{"id":24466,"name":"Stephanie M. Fullerton","orcid":"0000-0002-0938-6048","position":93,"is_corresponding":false},{"id":1266,"name":"Lucinda Fulton","orcid":"0000-0001-6429-4288","position":94,"is_corresponding":false},{"id":29086,"name":"Hongyu Gao","orcid":"0000-0001-8633-3604","position":95,"is_corresponding":false},{"id":29087,"name":"M. Nathalia Garcia","orcid":"0000-0003-3685-027X","position":96,"is_corresponding":false},{"id":29088,"name":"Georgia Giannoukos","orcid":null,"position":97,"is_corresponding":false},{"id":29089,"name":"Christina Giblin","orcid":null,"position":98,"is_corresponding":false},{"id":29090,"name":"Maria Y. Giovanni","orcid":null,"position":99,"is_corresponding":false},{"id":29091,"name":"Jonathan M. Goldberg","orcid":"0000-0001-9439-321X","position":100,"is_corresponding":false},{"id":29092,"name":"Johannes B. Goll","orcid":"0000-0002-9968-4080","position":101,"is_corresponding":false},{"id":3555,"name":"Antonio González","orcid":"0000-0002-2624-0606","position":102,"is_corresponding":false},{"id":29093,"name":"Allison Griggs","orcid":null,"position":103,"is_corresponding":false},{"id":29094,"name":"Sharvari Gujja","orcid":null,"position":104,"is_corresponding":false},{"id":29096,"name":"Brian J. Haas","orcid":"0000-0002-6609-4973","position":105,"is_corresponding":false},{"id":29097,"name":"Holli Hamilton","orcid":null,"position":106,"is_corresponding":false},{"id":29098,"name":"Emily Harris","orcid":"0000-0002-9047-6883","position":107,"is_corresponding":false},{"id":29099,"name":"Theresa A. Hepburn","orcid":null,"position":108,"is_corresponding":false},{"id":29100,"name":"Brandi Herter","orcid":null,"position":109,"is_corresponding":false},{"id":29101,"name":"Diane E. Hoffmann","orcid":"0000-0002-3439-9967","position":110,"is_corresponding":false},{"id":29102,"name":"Michael Holder","orcid":null,"position":111,"is_corresponding":false},{"id":18863,"name":"Donald F. Conrad","orcid":"0000-0003-3828-8970","position":112,"is_corresponding":false},{"id":29104,"name":"Katherine Huang","orcid":"0000-0002-5013-4790","position":113,"is_corresponding":false},{"id":488,"name":"Jacques Izard","orcid":"0000-0002-5904-5436","position":115,"is_corresponding":false},{"id":19796,"name":"Janet Jansson","orcid":"0000-0002-5487-4315","position":116,"is_corresponding":false},{"id":20069,"name":"Huaiyang Jiang","orcid":null,"position":117,"is_corresponding":false},{"id":4279,"name":"Catherine Jordan","orcid":"0000-0002-4079-4509","position":118,"is_corresponding":false},{"id":29106,"name":"Vandita Joshi","orcid":null,"position":119,"is_corresponding":false},{"id":29107,"name":"James A. Katancik","orcid":"0000-0002-3017-439X","position":120,"is_corresponding":false},{"id":29108,"name":"Wendy A. Keitel","orcid":null,"position":121,"is_corresponding":false},{"id":19798,"name":"Scott T. Kelley","orcid":"0000-0001-9547-4169","position":122,"is_corresponding":false},{"id":73402,"name":"Susan Kinder-Haake","orcid":null,"position":124,"is_corresponding":false},{"id":29110,"name":"Nicholas B. King","orcid":"0000-0002-2093-3380","position":125,"is_corresponding":false},{"id":3554,"name":"Rob Knight","orcid":"0000-0002-0975-9019","position":126,"is_corresponding":false},{"id":19800,"name":"Dan Knights","orcid":"0000-0002-8205-2511","position":127,"is_corresponding":false},{"id":29111,"name":"Heidi H. Kong","orcid":"0000-0003-4424-064X","position":128,"is_corresponding":false},{"id":19801,"name":"Omry Koren","orcid":"0000-0002-7738-1337","position":129,"is_corresponding":false},{"id":2118,"name":"Sergey Koren","orcid":"0000-0002-1472-8962","position":130,"is_corresponding":false},{"id":7153,"name":"Xiaohui Xie","orcid":"0000-0002-5479-6345","position":131,"is_corresponding":false},{"id":29113,"name":"Christie Kovar","orcid":null,"position":132,"is_corresponding":false},{"id":19851,"name":"Nikos C. Kyrpides","orcid":"0000-0002-6131-0462","position":133,"is_corresponding":false},{"id":29114,"name":"Patricio S. La Rosa","orcid":null,"position":134,"is_corresponding":false},{"id":29115,"name":"Sandra L. Lee","orcid":null,"position":135,"is_corresponding":false},{"id":29116,"name":"Katherine P. Lemon","orcid":"0000-0003-1542-1679","position":136,"is_corresponding":false},{"id":29117,"name":"Niall J. Lennon","orcid":"0000-0002-2874-7371","position":137,"is_corresponding":false},{"id":29118,"name":"Cecil M. Lewis","orcid":"0000-0002-2198-3427","position":138,"is_corresponding":false},{"id":19807,"name":"Ruth E. Ley","orcid":"0000-0002-9087-1672","position":140,"is_corresponding":false},{"id":29119,"name":"Kelvin Li","orcid":"0000-0003-3922-5664","position":141,"is_corresponding":false},{"id":29120,"name":"Konstantinos Liolios","orcid":null,"position":142,"is_corresponding":false},{"id":29121,"name":"Bo Liu","orcid":"0000-0002-4414-4001","position":143,"is_corresponding":false},{"id":29122,"name":"Yue Liu","orcid":"0000-0002-5747-7710","position":144,"is_corresponding":false},{"id":19808,"name":"Catherine A Lozupone","orcid":null,"position":145,"is_corresponding":false},{"id":19853,"name":"Catherine Lozupone","orcid":"0000-0003-4786-7202","position":146,"is_corresponding":false},{"id":29124,"name":"R. Dwayne Lunsford","orcid":"0000-0001-6516-6181","position":147,"is_corresponding":false},{"id":29125,"name":"Tessa Madden","orcid":"0000-0001-9455-1943","position":148,"is_corresponding":false},{"id":29126,"name":"Anup A. Mahurkar","orcid":"0000-0002-4999-2296","position":149,"is_corresponding":false},{"id":1278,"name":"Elaine R. Mardis","orcid":"0000-0002-5892-1553","position":151,"is_corresponding":false},{"id":29128,"name":"Victor Markowitz","orcid":null,"position":152,"is_corresponding":false},{"id":73403,"name":"Konstantinos Mavrommatis","orcid":"0000-0003-4549-385X","position":153,"is_corresponding":false},{"id":29130,"name":"Jamison McCorrison","orcid":"0000-0002-4807-0847","position":154,"is_corresponding":false},{"id":3535,"name":"Daniel McDonald","orcid":"0000-0003-0876-9060","position":155,"is_corresponding":false},{"id":29131,"name":"Jean E. McEwen","orcid":null,"position":156,"is_corresponding":false},{"id":29132,"name":"Amy L. McGuire","orcid":"0000-0002-7819-519X","position":157,"is_corresponding":false},{"id":29133,"name":"Pamela McInnes","orcid":null,"position":158,"is_corresponding":false},{"id":29134,"name":"Teena Mehta","orcid":null,"position":159,"is_corresponding":false},{"id":29135,"name":"Kathie A. Mihindukulasuriya","orcid":"0000-0001-9372-3758","position":160,"is_corresponding":false},{"id":29136,"name":"Jason Miller","orcid":"0000-0002-6912-2925","position":161,"is_corresponding":false},{"id":29137,"name":"Patrick Minx","orcid":"0000-0003-1179-2173","position":162,"is_corresponding":false},{"id":1745,"name":"Irene Newsham","orcid":"0000-0003-4913-298X","position":163,"is_corresponding":false},{"id":73404,"name":"Michelle D. O’Laughlin","orcid":"0000-0001-7678-3783","position":165,"is_corresponding":false},{"id":29139,"name":"Joshua Orvis","orcid":"0000-0002-5705-5710","position":166,"is_corresponding":false},{"id":29140,"name":"Ioanna Pagani","orcid":null,"position":167,"is_corresponding":false},{"id":29141,"name":"Krishna Palaniappan","orcid":"0000-0003-4484-7505","position":168,"is_corresponding":false},{"id":29142,"name":"Shital M. Patel","orcid":"0000-0003-2828-6250","position":169,"is_corresponding":false},{"id":29143,"name":"M.A. Pearson","orcid":"0000-0002-8833-5192","position":170,"is_corresponding":false},{"id":2360,"name":"Pavel A. Pevzner","orcid":"0000-0002-0418-165X","position":171,"is_corresponding":false},{"id":29144,"name":"Mircea Podar","orcid":"0000-0003-2776-0205","position":172,"is_corresponding":false},{"id":14377,"name":"Steven J.M. Jones","orcid":"0000-0003-3394-2208","position":173,"is_corresponding":false},{"id":21361,"name":"Katherine S. Pollard","orcid":"0000-0002-9870-6196","position":174,"is_corresponding":false},{"id":29146,"name":"Margaret Priest","orcid":null,"position":175,"is_corresponding":false},{"id":19860,"name":"Lita M. Proctor","orcid":null,"position":176,"is_corresponding":false},{"id":19773,"name":"Manimozhiyan Arumugam","orcid":"0000-0002-0886-9101","position":177,"is_corresponding":false},{"id":16741,"name":"Jeroen Raes","orcid":"0000-0002-1337-041X","position":178,"is_corresponding":false},{"id":19828,"name":"Jacques Ravel","orcid":"0000-0002-0851-2233","position":179,"is_corresponding":false},{"id":19571,"name":"Jeffrey G. Reid","orcid":"0000-0001-8645-4713","position":180,"is_corresponding":false},{"id":29148,"name":"Mina Rho","orcid":null,"position":181,"is_corresponding":false},{"id":29149,"name":"Rosamond Rhodes","orcid":"0000-0002-4621-0818","position":182,"is_corresponding":false},{"id":29150,"name":"Kevin Riehle","orcid":"0000-0003-4888-2404","position":183,"is_corresponding":false},{"id":29151,"name":"Maria C. Rivera","orcid":"0000-0001-9470-6642","position":184,"is_corresponding":false},{"id":29152,"name":"Beltran Rodriguez-Mueller","orcid":null,"position":185,"is_corresponding":false},{"id":29153,"name":"Yu Hui Rogers","orcid":null,"position":186,"is_corresponding":false},{"id":29154,"name":"Matthew C. Ross","orcid":"0000-0002-7621-8829","position":187,"is_corresponding":false},{"id":7676,"name":"Carsten Russ","orcid":null,"position":188,"is_corresponding":false},{"id":29155,"name":"Ravi Sanka","orcid":null,"position":189,"is_corresponding":false},{"id":29156,"name":"Pamela Sankar","orcid":"0000-0002-7780-9655","position":190,"is_corresponding":false},{"id":201,"name":"J. Fah Sathirapongsasuti","orcid":"0000-0002-8157-3665","position":191,"is_corresponding":false},{"id":19831,"name":"Patrick D. Schloss","orcid":"0000-0002-6935-4275","position":193,"is_corresponding":false},{"id":29158,"name":"Thomas M. Schmidt","orcid":"0000-0002-8209-6055","position":194,"is_corresponding":false},{"id":36349,"name":"R. Balfour Sartor","orcid":"0000-0002-7820-632X","position":195,"is_corresponding":false},{"id":19861,"name":"Lynn M. Schriml","orcid":"0000-0001-8910-9851","position":196,"is_corresponding":false},{"id":29160,"name":"Alyxandria M. Schubert","orcid":"0000-0003-4938-6007","position":197,"is_corresponding":false},{"id":29161,"name":"Julia A. Segre","orcid":"0000-0001-6860-348X","position":199,"is_corresponding":false},{"id":29162,"name":"William D. Shannon","orcid":null,"position":200,"is_corresponding":false},{"id":29163,"name":"Richard R. Sharp","orcid":"0000-0001-5441-2084","position":201,"is_corresponding":false},{"id":29164,"name":"Thomas J. Sharpton","orcid":"0000-0002-5996-7764","position":202,"is_corresponding":false},{"id":29165,"name":"Narmada Shenoy","orcid":null,"position":203,"is_corresponding":false},{"id":29166,"name":"Nihar U. Sheth","orcid":null,"position":204,"is_corresponding":false},{"id":29167,"name":"Gina Simone","orcid":null,"position":205,"is_corresponding":false},{"id":29168,"name":"Indresh Singh","orcid":"0000-0002-5522-0903","position":206,"is_corresponding":false},{"id":18915,"name":"Christopher S. Smillie","orcid":"0000-0002-7606-3433","position":207,"is_corresponding":false},{"id":29169,"name":"Jack D. Sobel","orcid":"0000-0002-5589-4609","position":208,"is_corresponding":false},{"id":29170,"name":"Doron D. Sommer","orcid":"0000-0001-9692-7414","position":209,"is_corresponding":false},{"id":29171,"name":"Paul Spicer","orcid":null,"position":210,"is_corresponding":false},{"id":4051,"name":"Granger G. Sutton","orcid":null,"position":211,"is_corresponding":false},{"id":29172,"name":"Sean M. Sykes","orcid":null,"position":212,"is_corresponding":false},{"id":29173,"name":"Diana Tabbaa","orcid":null,"position":213,"is_corresponding":false},{"id":29174,"name":"Mathangi Thiagarajan","orcid":"0000-0003-3190-2691","position":214,"is_corresponding":false},{"id":24554,"name":"Chad Tomlinson","orcid":"0000-0001-9905-6159","position":215,"is_corresponding":false},{"id":29175,"name":"Manolito Torralba","orcid":"0000-0002-6055-1109","position":216,"is_corresponding":false},{"id":29176,"name":"Todd J. Treangen","orcid":"0000-0002-3760-564X","position":217,"is_corresponding":false},{"id":29177,"name":"Rebecca Truty","orcid":"0000-0001-9035-9639","position":218,"is_corresponding":false},{"id":29178,"name":"Tatiana A. Vishnivetskaya","orcid":"0000-0002-0660-023X","position":219,"is_corresponding":false},{"id":29179,"name":"Jason Walker","orcid":null,"position":220,"is_corresponding":false},{"id":4896,"name":"Lu Wang","orcid":"0000-0002-0206-1830","position":221,"is_corresponding":false},{"id":29180,"name":"Zhengyuan Wang","orcid":null,"position":222,"is_corresponding":false},{"id":19838,"name":"Doyle V. Ward","orcid":"0000-0002-4952-824X","position":223,"is_corresponding":false},{"id":29181,"name":"Wesley C. Warren","orcid":"0000-0003-2255-2730","position":224,"is_corresponding":false},{"id":29182,"name":"Mark A. Watson","orcid":null,"position":225,"is_corresponding":false},{"id":11028,"name":"Matthew T. Wheeler","orcid":"0000-0001-8721-3022","position":226,"is_corresponding":false},{"id":19961,"name":"Kris A. Wetterstrand","orcid":"0000-0001-6866-2842","position":227,"is_corresponding":false},{"id":29183,"name":"James R. White","orcid":"0000-0002-7535-9179","position":228,"is_corresponding":false},{"id":29184,"name":"Katarzyna Wilczek-Boney","orcid":null,"position":229,"is_corresponding":false},{"id":24644,"name":"Yuanqing Wu","orcid":"0000-0002-8286-8078","position":230,"is_corresponding":false},{"id":29185,"name":"Kristine M. Wylie","orcid":"0000-0002-2504-0661","position":231,"is_corresponding":false},{"id":1769,"name":"Todd Wylie","orcid":"0000-0001-8834-8404","position":232,"is_corresponding":false},{"id":29186,"name":"Chandri Yandava","orcid":null,"position":233,"is_corresponding":false},{"id":29187,"name":"Ye Liang","orcid":"0000-0002-6513-8962","position":234,"is_corresponding":false},{"id":29188,"name":"Yuzhen Ye","orcid":"0000-0003-3707-3185","position":235,"is_corresponding":false},{"id":4250,"name":"Shibu Yooseph","orcid":"0000-0001-5581-5002","position":236,"is_corresponding":false},{"id":29189,"name":"Bonnie P. Youmans","orcid":null,"position":237,"is_corresponding":false},{"id":29190,"name":"Lan Zhang","orcid":"0000-0002-9714-999X","position":238,"is_corresponding":false},{"id":17271,"name":"Yanjiao Zhou","orcid":"0000-0001-6528-7039","position":239,"is_corresponding":false},{"id":29191,"name":"Yiming Zhu","orcid":"0009-0001-3486-2368","position":240,"is_corresponding":false},{"id":29192,"name":"Laurie Zoloth","orcid":"0000-0001-8751-7261","position":241,"is_corresponding":false},{"id":29193,"name":"Jeremy Zucker","orcid":"0000-0002-7276-9009","position":242,"is_corresponding":false},{"id":19776,"name":"Bruce W. Birren","orcid":"0000-0001-6971-945X","position":243,"is_corresponding":false},{"id":1753,"name":"Richard A. Gibbs","orcid":"0000-0002-1356-5698","position":244,"is_corresponding":false},{"id":19850,"name":"Sarah K. Highlander","orcid":"0000-0002-3800-4950","position":245,"is_corresponding":false},{"id":1796,"name":"George M. Weinstock","orcid":"0000-0002-2997-4592","position":246,"is_corresponding":false},{"id":1280,"name":"Richard K. Wilson","orcid":"0000-0002-1992-1358","position":247,"is_corresponding":false},{"id":38385,"name":"Owen R. White","orcid":"0000-0003-2407-7320","position":248,"is_corresponding":false},{"id":29195,"name":" Rebecca M. Truty","orcid":null,"position":249,"is_corresponding":false},{"id":29196,"name":"Kevin P. Riehle","orcid":null,"position":250,"is_corresponding":false},{"id":29197,"name":"Gina A. Simone","orcid":null,"position":251,"is_corresponding":false}],"reference_count":17,"raw_metadata":{"citation_network_status":"fetched"},"created_at":"2026-03-01T18:20:47.508186Z","pmid":"22699610","pmcid":"PMC3377744","fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":"hybrid","license":"cc-by-nc-sa","views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":65.0,"fair_a":67.5,"fair_i":37.5,"fair_r":41.6667,"fair_zscore":0.697,"fair_rationale":{"fair_score":52.92,"has_llm":true,"dimensions":{"F":{"name":"Findable","score":65.0,"criteria":[{"key":"f_has_doi","label":"Has a persistent DOI","kind":"deterministic","weight":1.0,"fraction":1.0,"signal":"DOI present","rationale":null},{"key":"f_repository_presence","label":"Indexed in repositories / literature DBs","kind":"deterministic","weight":1.0,"fraction":1.0,"signal":"datacite=0, pmcid=True, pmid=True","rationale":null},{"key":"f_persistent_ids","label":"Resolvable scholarly identifiers (OpenAlex)","kind":"deterministic","weight":0.5,"fraction":0.0,"signal":"no OpenAlex id","rationale":null},{"key":"f_metadata_richness","label":"Rich, machine-readable metadata","kind":"llm","weight":1.0,"fraction":0.5,"signal":null,"rationale":"The paper mentions data deposition at NCBI and DACC with specific identifiers (e.g., RES:HMMC, RES:HMIWGS), but does not describe structured, machine-readable metadata or use of formal metadata standards."}]},"A":{"name":"Accessible","score":67.5,"criteria":[{"key":"a_open_access","label":"Open Access / files deposited","kind":"deterministic","weight":1.5,"fraction":1.0,"signal":"Open Access","rationale":null},{"key":"a_retrievable","label":"Free full text retrievable","kind":"deterministic","weight":1.0,"fraction":0.0,"signal":"0 OA location(s)","rationale":null},{"key":"a_access_protocol","label":"Clear data/code access protocol","kind":"llm","weight":1.0,"fraction":0.75,"signal":null,"rationale":"The paper states that data are available at DACC (http://hmpdacc.org) and NCBI, and mentions a Creative Commons license, but does not provide a clear, step-by-step protocol for accessing the specific data or code."}]},"I":{"name":"Interoperable","score":37.5,"criteria":[{"key":"i_linked_data","label":"Linked datasets / DataCite relations","kind":"deterministic","weight":1.0,"fraction":0.0,"signal":"linked_datasets=0, datacite=0","rationale":null},{"key":"i_standard_ids","label":"References data via standard accessions","kind":"deterministic","weight":1.0,"fraction":0.0,"signal":"accessions=0, trials=0","rationale":null},{"key":"i_standards","label":"Standard formats, vocabularies & identifiers","kind":"llm","weight":1.0,"fraction":0.75,"signal":null,"rationale":"The paper mentions use of standardized protocols (e.g., 16S rRNA gene V35 region, mothur, QIIME) and reference genomes, but does not explicitly state use of standard community vocabularies or formal identifiers like MIxS."}]},"R":{"name":"Reusable","score":41.67,"criteria":[{"key":"r_license","label":"Clear, open reuse license","kind":"deterministic","weight":1.5,"fraction":0.0,"signal":"no license","rationale":null},{"key":"r_downloads","label":"Demonstrated reuse (downloads)","kind":"deterministic","weight":0.5,"fraction":0.0,"signal":"downloads=0","rationale":null},{"key":"r_version","label":"Versioned / maintained","kind":"deterministic","weight":0.5,"fraction":0.0,"signal":"no version chain","rationale":null},{"key":"r_dataset","label":"Classified as a data resource","kind":"deterministic","weight":0.5,"fraction":1.0,"signal":"is_dataset","rationale":null},{"key":"r_reusability","label":"Data-availability statement, license & reproducibility","kind":"llm","weight":2.0,"fraction":0.667,"signal":null,"rationale":"The paper includes a data-availability statement (DACC and NCBI), mentions a Creative Commons license, and provides some reproducibility details (e.g., protocols, mock community), but lacks a formal license for all data and does not specify conditions for reuse."}]}},"suggestions":["Provide a machine-readable metadata file (e.g., ISA-Tab or JSON-LD) for all datasets, including sample attributes and processing steps.","Include a direct, persistent link to the exact data repository (e.g., DOI) and a step-by-step access protocol in the paper.","Adopt and cite community standard vocabularies (e.g., MIxS, OBI) and use persistent identifiers (e.g., DOI for each dataset) to improve interoperability.","Add a clear, explicit license (e.g., CC-BY 4.0) for all data and code, and include a reproducibility statement with version numbers of all software used."],"model":"deepseek/deepseek-v4-flash","agent_version":"fair_agent_v2","fulltext_source":"unpaywall_pdf"},"fair_model":"deepseek/deepseek-v4-flash","fair_agent_version":"fair_agent_v2","fair_fulltext_source":"unpaywall_pdf","fair_has_llm":true,"fair_computed_at":"2026-06-18T00:29:47.524833Z","clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}