{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2020,5,19]],"date-time":"2020-05-19T01:40:38Z","timestamp":1589852438351},"reference-count":49,"publisher":"Oxford University Press (OUP)","issue":"3","license":[{"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model","start":{"date-parts":[[2019,4,5]],"date-time":"2019-04-05T00:00:00Z","timestamp":1554422400000},"delay-in-days":0,"content-version":"vor"}],"funder":[{"DOI":"10.13039\/100006363","name":"National Geographic Society","doi-asserted-by":"publisher","award":[]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,5,21]]},"abstract":"Abstract<\/jats:title>\n Biomedical researchers are increasingly reliant on obtaining bioinformatics training in order to conduct their research. Here we present a model that academic institutions may follow to provide such training for their researchers, based on the Molecular Biology Information Service (MBIS) of the Health Sciences Library System, University of Pittsburgh (Pitt). The MBIS runs a four-facet service with the following goals: (1) identify, procure and implement commercially licensed bioinformatics software, (2) teach hands-on workshops using bioinformatics tools to solve research questions, (3) provide in-person and email consultations on software\/databases and (4) maintain a web portal providing overall guidance on the access and use of bioinformatics resources and MBIS-created webtools. This paper describes these facets of MBIS activities from 2006 to 2018, including outcomes from a survey measuring attitudes of Pitt researchers about MBIS service and performance.<\/jats:p>","DOI":"10.1093\/bib\/bbz035","type":"journal-article","created":{"date-parts":[[2019,3,5]],"date-time":"2019-03-05T21:07:15Z","timestamp":1551820035000},"page":"876-884","source":"Crossref","is-referenced-by-count":0,"title":["Molecular Biology Information Service: an innovative medical library-based bioinformatics support service for biomedical researchers"],"prefix":"10.1093","volume":"21","author":[{"ORCID":"http:\/\/orcid.org\/0000-0002-5412-3749","authenticated-orcid":false,"given":"Ansuman","family":"Chattopadhyay","sequence":"first","affiliation":[{"name":"University of Pittsburgh, Health Sciences Library System"}]},{"ORCID":"http:\/\/orcid.org\/0000-0002-2750-305X","authenticated-orcid":false,"given":"Carrie L","family":"Iwema","sequence":"first","affiliation":[{"name":"University of Pittsburgh, Health Sciences Library System"}]},{"ORCID":"http:\/\/orcid.org\/0000-0002-5246-6211","authenticated-orcid":false,"given":"Barbara A","family":"Epstein","sequence":"first","affiliation":[{"name":"University of Pittsburgh, Health Sciences Library System"}]},{"ORCID":"http:\/\/orcid.org\/0000-0001-9917-514X","authenticated-orcid":false,"given":"Adrian V","family":"Lee","sequence":"first","affiliation":[{"name":"University of Pittsburgh, Health Sciences Library System"}]},{"given":"Arthur S","family":"Levine","sequence":"first","affiliation":[{"name":"University of Pittsburgh, Health Sciences Library System"}]}],"member":"286","published-online":{"date-parts":[[2019,4,5]]},"reference":[{"key":"2020051819281104400_ref1","doi-asserted-by":"crossref","first-page":"29","DOI":"10.1038\/526029a","article-title":"Human genome project: twenty-five years of big biology","volume":"526","author":"Green","year":"2015","journal-title":"Nature"},{"key":"2020051819281104400_ref2","doi-asserted-by":"crossref","first-page":"860","DOI":"10.1038\/35057062","article-title":"Initial sequencing and analysis of the human genome","volume":"409","author":"Lander","year":"2001","journal-title":"Nature"},{"key":"2020051819281104400_ref3","doi-asserted-by":"crossref","first-page":"2317","DOI":"10.1101\/gr.096651.109","article-title":"The NIH Human Microbiome Project","volume":"19","author":"NIH HMP Working Group","year":"2009","journal-title":"Genome Res"},{"key":"2020051819281104400_ref4","doi-asserted-by":"crossref","first-page":"287","DOI":"10.1016\/j.chom.2011.10.001","article-title":"The Human Microbiome Project in 2011 and beyond","volume":"10","author":"Proctor","year":"2011","journal-title":"Cell Host Microbe"},{"key":"2020051819281104400_ref5","doi-asserted-by":"crossref","first-page":"57","DOI":"10.1038\/nature11247","article-title":"An integrated encyclopedia of DNA elements in the human genome","volume":"489","author":"ENCODE Project Consortium","year":"2012","journal-title":"Nature"},{"key":"2020051819281104400_ref6","doi-asserted-by":"crossref","first-page":"283","DOI":"10.1016\/j.cell.2018.03.042","article-title":"The Cancer Genome Atlas: creating lasting value beyond its data","volume":"173","author":"Hutter","year":"2018","journal-title":"Cell"},{"key":"2020051819281104400_ref7","doi-asserted-by":"crossref","first-page":"459","DOI":"10.1038\/nmeth.1974","article-title":"The 1000 Genomes Project: data management and community access","volume":"9","author":"Clarke","year":"2012","journal-title":"Nat Methods"},{"key":"2020051819281104400_ref8","doi-asserted-by":"crossref","first-page":"e46262","DOI":"10.15252\/embr.201846262","article-title":"Bringing bioinformatics to the scientific masses: as the demand for high-level bioinformatics is growing, training students in the field becomes ever more important","volume":"19","author":"Smith","year":"2018","journal-title":"EMBO Rep"},{"key":"2020051819281104400_ref9","doi-asserted-by":"crossref","first-page":"544","DOI":"10.1093\/bib\/bbq021","article-title":"Bioinformatics training: a review of challenges, actions and support requirements","volume":"11","author":"Schneider","year":"2010","journal-title":"Brief Bioinform"},{"key":"2020051819281104400_ref10","doi-asserted-by":"crossref","first-page":"e0179581","DOI":"10.1371\/journal.pone.0179581","article-title":"Bioinformatic training needs at a health sciences campus","volume":"12","author":"Oliver","year":"2017","journal-title":"PLoS ONE"},{"key":"2020051819281104400_ref11","first-page":"36","article-title":"A library-based bioinformatics services program","volume":"88","author":"Yarfitz","year":"2000","journal-title":"Bull Med Libr Assoc"},{"key":"2020051819281104400_ref12","first-page":"307","article-title":"Design and implementation of a library-based information service in molecular biology and genetics at the University of Pittsburgh","volume":"94","author":"Chattopadhyay","year":"2006","journal-title":"J Med Libr Assoc"},{"key":"2020051819281104400_ref13","first-page":"245","article-title":"A management case study: challenges of initiating an information service in molecular biology and genetics","volume":"94","author":"Epstein","year":"2006","journal-title":"J Med Libr Assoc"},{"key":"2020051819281104400_ref14","doi-asserted-by":"crossref","first-page":"e1129","DOI":"10.7191\/jeslib.2018.1129","article-title":"Developing a bioinformatics program and supporting infrastructure in a biomedical library","volume":"7","author":"National Institutes of Health","year":"2018","journal-title":"J Escience Librariansh"},{"key":"2020051819281104400_ref15","doi-asserted-by":"crossref","first-page":"303","DOI":"10.3163\/1536-5050.101.4.012","article-title":"Expanding roles in a library-based bioinformatics service program: a case study","volume":"101","author":"Li","year":"2013","journal-title":"J Med Libr Assoc"},{"key":"2020051819281104400_ref16","doi-asserted-by":"crossref","first-page":"e5553","DOI":"10.7717\/peerj.5553","article-title":"Data challenges of biomedical researchers in the age of omics","volume":"6","author":"Garcia-Milian","year":"2018","journal-title":"PeerJ"},{"key":"2020051819281104400_ref17","first-page":"286","article-title":"Broad issues to consider for library involvement in bioinformatics","volume":"94","author":"Geer","year":"2006","journal-title":"J Med Libr Assoc"},{"issue":"306","key":"2020051819281104400_ref18","first-page":"E188","article-title":"Vignettes: diverse library staff offering diverse bioinformatics services","volume":"94","author":"Osterbur","year":"2006","journal-title":"J Med Libr Assoc"},{"key":"2020051819281104400_ref19","first-page":"330","article-title":"Carving a niche: establishing bioinformatics collaborations","volume":"94","author":"Lyon","year":"2006","journal-title":"J Med Libr Assoc"},{"key":"2020051819281104400_ref20","doi-asserted-by":"crossref","first-page":"57","DOI":"10.1038\/nrg2484","article-title":"RNA-Seq: a revolutionary tool for transcriptomics","volume":"10","author":"Wang","year":"2009","journal-title":"Nat Rev Genet"},{"key":"2020051819281104400_ref21","doi-asserted-by":"crossref","first-page":"272","DOI":"10.1038\/nature08250","article-title":"Targeted capture and massively parallel sequencing of 12 human exomes","volume":"461","author":"Ng","year":"2009","journal-title":"Nature"},{"key":"2020051819281104400_ref22","doi-asserted-by":"crossref","first-page":"1497","DOI":"10.1126\/science.1141319","article-title":"Genome-wide mapping of in vivo protein\u2013DNA interactions","volume":"316","author":"Johnson","year":"2007","journal-title":"Science"},{"key":"2020051819281104400_ref23","doi-asserted-by":"crossref","first-page":"21.29.1","DOI":"10.1002\/0471142727.mb2129s109","article-title":"ATAC-seq: a method for assaying chromatin accessibility genome-wide","volume":"109","author":"Buenrostro","year":"2015","journal-title":"Curr Protoc Mol Biol"},{"key":"2020051819281104400_ref24","doi-asserted-by":"crossref","first-page":"e1005772","DOI":"10.1371\/journal.pcbi.1005772","article-title":"The development and application of bioinformatics core competencies to improve bioinformatics training and education","volume":"14","author":"Mulder","year":"2018","journal-title":"PLoS Comput Biol"},{"key":"2020051819281104400_ref25"},{"key":"2020051819281104400_ref26"},{"key":"2020051819281104400_ref27"},{"key":"2020051819281104400_ref28","author":"Iwema"},{"key":"2020051819281104400_ref29"},{"key":"2020051819281104400_ref30"},{"key":"2020051819281104400_ref31"},{"key":"2020051819281104400_ref32"},{"key":"2020051819281104400_ref33"},{"key":"2020051819281104400_ref34"},{"key":"2020051819281104400_ref35","doi-asserted-by":"crossref","first-page":"700","DOI":"10.1093\/bib\/bbu030","article-title":"Buying in to bioinformatics: an introduction to commercial sequence analysis software","volume":"16","author":"Smith","year":"2015","journal-title":"Brief Bioinform"},{"key":"2020051819281104400_ref36"},{"key":"2020051819281104400_ref37"},{"key":"2020051819281104400_ref38"},{"key":"2020051819281104400_ref39","doi-asserted-by":"crossref","first-page":"528","DOI":"10.1093\/bib\/bbt043","article-title":"Best practices in bioinformatics training for life scientists","volume":"14","author":"Via","year":"2013","journal-title":"Brief Bioinform"},{"key":"2020051819281104400_ref40"},{"key":"2020051819281104400_ref41"},{"key":"2020051819281104400_ref42","doi-asserted-by":"crossref","first-page":"D780","DOI":"10.1093\/nar\/gkl781","article-title":"The Online Bioinformatics Resources Collection at the University of Pittsburgh Health Sciences Library System\u2014a one-stop gateway to online bioinformatics databases and software tools","volume":"35","author":"Chen","year":"2007","journal-title":"Nucleic Acids Res"},{"key":"2020051819281104400_ref43"},{"key":"2020051819281104400_ref44"},{"key":"2020051819281104400_ref45","doi-asserted-by":"crossref","first-page":"E1","DOI":"10.3163\/1536-5050.104.1.E1","article-title":"Proceedings, 115th Annual Meeting, Medical Library Association, Inc. Austin, TX","volume":"104","author":"Mitchell","year":"2016","journal-title":"J Med Libr Assoc"},{"key":"2020051819281104400_ref46"},{"key":"2020051819281104400_ref47","doi-asserted-by":"crossref","first-page":"1396","DOI":"10.12688\/f1000research.8798.1","article-title":"search.bioPreprint: a discovery tool for cutting edge, preprint biomedical research articles. [version 2; referees: 2 approved]","volume":"5","author":"Iwema","year":"2016","journal-title":"F1000Res"},{"key":"2020051819281104400_ref48"},{"key":"2020051819281104400_ref49","doi-asserted-by":"crossref","first-page":"dev163972","DOI":"10.1242\/dev.163972","article-title":"Single-cell biology: resolving biological complexity, one cell at a time","volume":"145","author":"Ranzoni","year":"2018","journal-title":"Development"}],"container-title":["Briefings in Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/bib\/article-pdf\/21\/3\/876\/33227440\/bbz035.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"http:\/\/academic.oup.com\/bib\/article-pdf\/21\/3\/876\/33227440\/bbz035.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,5,19]],"date-time":"2020-05-19T01:08:45Z","timestamp":1589850525000},"score":1.0,"subtitle":[],"short-title":[],"issued":{"date-parts":[[2019,4,5]]},"references-count":49,"journal-issue":{"published-online":{"date-parts":[[2019,4,5]]},"published-print":{"date-parts":[[2020,5,21]]},"issue":"3"},"URL":"http:\/\/dx.doi.org\/10.1093\/bib\/bbz035","relation":{"cites":[]},"ISSN":["1467-5463","1477-4054"],"issn-type":[{"value":"1467-5463","type":"print"},{"value":"1477-4054","type":"electronic"}],"subject":["Molecular Biology","Information Systems"]}}
https://api.crossref.org/works/10.1093%2Fbib%2Fbbz035
api.crossref.org
crawl=CC-MAIN-2020-45
13858
application/http; msgtype=response
sha1:DXHIHRYUXRQWBRGKW6WRFBOBYXAFAIMM
<urn:uuid:1e31c0f5-e94b-476a-a5cf-8abf8dc9adf4>
2020-10-27T08:25:09Z
208.254.38.72
application/json
sha1:BD2QLIFDAZ7IYMQBA7CPSRP2JEGMTEHS
<urn:uuid:1da682fb-c0cf-42b2-9618-16f0283c7ef2>
https://api.crossref.org/works/10.1093%2Fbib%2Fbbz035
response
<urn:uuid:750a027c-941f-4dc7-947b-bd165f80cdda>
isPartOf: CC-MAIN-2020-45
publisher: Common Crawl
description: Wide crawl of the web for October 2020
operator: Common Crawl Admin (info@commoncrawl.org)
hostname: ip-10-67-67-43.ec2.internal
software: Apache Nutch 1.17 (modified, https://github.com/commoncrawl/nutch/)
robots: checked via crawler-commons 1.2-SNAPSHOT (https://github.com/crawler-commons/crawler-commons)
format: WARC File Format 1.1
conformsTo: http://iipc.github.io/warc-specifications/specifications/warc-format/warc-1.1/