{"id":"https://openalex.org/W2046658048","doi":"https://doi.org/10.1145/2616498.2616575","title":"DNA Subway","display_name":"DNA Subway","publication_year":2014,"publication_date":"2014-07-11","ids":{"openalex":"https://openalex.org/W2046658048","doi":"https://doi.org/10.1145/2616498.2616575","mag":"2046658048"},"language":"en","primary_location":{"id":"doi:10.1145/2616498.2616575","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2616498.2616575","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2014 Annual Conference on Extreme Science and Engineering Discovery Environment","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5040419037","display_name":"Uwe Hilgert","orcid":"https://orcid.org/0000-0002-6053-1714"},"institutions":[{"id":"https://openalex.org/I138006243","display_name":"University of Arizona","ror":"https://ror.org/03m2x1q45","country_code":"US","type":"education","lineage":["https://openalex.org/I138006243"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Uwe Hilgert","raw_affiliation_strings":["iPlant Collaborative and Bio5 Institute, University of Arizona, 1657 East Helen Street, PO Box 210240, Tucson, AZ 85721, +1-520-626-1367"],"affiliations":[{"raw_affiliation_string":"iPlant Collaborative and Bio5 Institute, University of Arizona, 1657 East Helen Street, PO Box 210240, Tucson, AZ 85721, +1-520-626-1367","institution_ids":["https://openalex.org/I138006243"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038643665","display_name":"Sheldon McKay","orcid":"https://orcid.org/0000-0002-4011-3160"},"institutions":[{"id":"https://openalex.org/I112260969","display_name":"Ontario Institute for Cancer Research","ror":"https://ror.org/043q8yx54","country_code":"CA","type":"funder","lineage":["https://openalex.org/I112260969"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Sheldon McKay","raw_affiliation_strings":["Ontario Institute for Cancer Research, 101 College, Toronto, ON M5G 1L7, Canada, +1-516-367-5170","Ontario Institute for Cancer Research, 101 College, Toronto, ON M5G 1L7, Canada, +1-516-367-5170#TAB#"],"affiliations":[{"raw_affiliation_string":"Ontario Institute for Cancer Research, 101 College, Toronto, ON M5G 1L7, Canada, +1-516-367-5170","institution_ids":["https://openalex.org/I112260969"]},{"raw_affiliation_string":"Ontario Institute for Cancer Research, 101 College, Toronto, ON M5G 1L7, Canada, +1-516-367-5170#TAB#","institution_ids":["https://openalex.org/I112260969"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004713422","display_name":"Mohammed Khalfan","orcid":null},"institutions":[{"id":"https://openalex.org/I2750212522","display_name":"Cold Spring Harbor Laboratory","ror":"https://ror.org/02qz8b764","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2750212522"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mohammed Khalfan","raw_affiliation_strings":["iPlant Collaborative and DNA Learning Center, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, +1-516-367-5162","iPlant Collaborative and DNA Learning Center, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, +1-516-367-5162#TAB#"],"affiliations":[{"raw_affiliation_string":"iPlant Collaborative and DNA Learning Center, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, +1-516-367-5162","institution_ids":["https://openalex.org/I2750212522"]},{"raw_affiliation_string":"iPlant Collaborative and DNA Learning Center, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, +1-516-367-5162#TAB#","institution_ids":["https://openalex.org/I2750212522"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034832191","display_name":"Jason Williams","orcid":"https://orcid.org/0000-0003-3049-2010"},"institutions":[{"id":"https://openalex.org/I2750212522","display_name":"Cold Spring Harbor Laboratory","ror":"https://ror.org/02qz8b764","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2750212522"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jason Williams","raw_affiliation_strings":["iPlant Collaborative and DNA Learning Center, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, +1-516-367-5186"],"affiliations":[{"raw_affiliation_string":"iPlant Collaborative and DNA Learning Center, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, +1-516-367-5186","institution_ids":["https://openalex.org/I2750212522"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082057017","display_name":"Cornel Ghiban","orcid":null},"institutions":[{"id":"https://openalex.org/I2750212522","display_name":"Cold Spring Harbor Laboratory","ror":"https://ror.org/02qz8b764","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2750212522"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Cornel Ghiban","raw_affiliation_strings":["iPlant Collaborative and DNA Learning Center, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, +1-516-367-5196"],"affiliations":[{"raw_affiliation_string":"iPlant Collaborative and DNA Learning Center, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, +1-516-367-5196","institution_ids":["https://openalex.org/I2750212522"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5054384273","display_name":"David Micklos","orcid":null},"institutions":[{"id":"https://openalex.org/I2750212522","display_name":"Cold Spring Harbor Laboratory","ror":"https://ror.org/02qz8b764","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2750212522"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David Micklos","raw_affiliation_strings":["iPlant Collaborative and DNA Learning Center, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, +1-516-367-5172","iPlant Collaborative and DNA Learning Center, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, +1-516-367-5172#TAB#"],"affiliations":[{"raw_affiliation_string":"iPlant Collaborative and DNA Learning Center, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, +1-516-367-5172","institution_ids":["https://openalex.org/I2750212522"]},{"raw_affiliation_string":"iPlant Collaborative and DNA Learning Center, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, +1-516-367-5172#TAB#","institution_ids":["https://openalex.org/I2750212522"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5040419037"],"corresponding_institution_ids":["https://openalex.org/I138006243"],"apc_list":null,"apc_paid":null,"fwci":0.4183,"has_fulltext":false,"cited_by_count":15,"citation_normalized_percentile":{"value":0.62811461,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"3"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9918000102043152,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9729999899864197,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6217741966247559},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.5680505633354187},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.5634863376617432},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.538983941078186},{"id":"https://openalex.org/keywords/construct","display_name":"Construct (python library)","score":0.5371898412704468},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5142301917076111},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.5108134746551514},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.4763118028640747},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4755936563014984},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.46996209025382996},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.35568615794181824},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3133998513221741},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2864978313446045}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6217741966247559},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.5680505633354187},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.5634863376617432},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.538983941078186},{"id":"https://openalex.org/C2780801425","wikidata":"https://www.wikidata.org/wiki/Q5164392","display_name":"Construct (python library)","level":2,"score":0.5371898412704468},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5142301917076111},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.5108134746551514},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.4763118028640747},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4755936563014984},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.46996209025382996},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.35568615794181824},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3133998513221741},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2864978313446045},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1145/2616498.2616575","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2616498.2616575","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2014 Annual Conference on Extreme Science and Engineering Discovery Environment","raw_type":"proceedings-article"},{"id":"pmh:oai:repository.cshl.edu:30719","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306402288","display_name":"Cold Spring Harbor Laboratory Institutional Repository (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"PeerReviewed"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":2,"referenced_works":["https://openalex.org/W2094082118","https://openalex.org/W2100305481"],"related_works":["https://openalex.org/W2366107444","https://openalex.org/W4388145910","https://openalex.org/W1976205134","https://openalex.org/W2381570729","https://openalex.org/W4248336175","https://openalex.org/W3009369890","https://openalex.org/W2031260042","https://openalex.org/W2391445434","https://openalex.org/W4312490297","https://openalex.org/W1981780420"],"abstract_inverted_index":{"DNA":[0,32,46,75,95,126],"Subway":[1,76,127],"bundles":[2],"research-grade":[3],"bioinformatics":[4],"tools,":[5],"high-performance":[6],"computing,":[7],"and":[8,23,48,54,63,72,92,97,119],"databases":[9],"into":[10],"easy-to-use":[11],"workflows.":[12],"Students":[13],"have":[14,134],"been":[15],"\"riding\"":[16],"different":[17],"lines":[18],"since":[19],"2010,":[20],"to":[21,28,84],"predict":[22],"annotate":[24],"genes":[25],"in":[26,38,79,88,121],"up":[27],"150kb":[29],"of":[30,105,112],"raw":[31],"sequence":[33,57],"(Red":[34],"Line),":[35,42,53],"identify":[36,43],"homologs":[37],"sequenced":[39],"genomes":[40],"(Yellow":[41],"species":[44],"using":[45,108],"barcodes":[47],"construct":[49],"phylogenetic":[50],"trees":[51],"(Blue":[52],"examine":[55],"RNA":[56,98],"(RNA-Seq)":[58],"datasets":[59],"for":[60,70],"transcript":[61],"abundance":[62],"differential":[64],"expression":[65],"(Green":[66],"Line).":[67],"With":[68],"support":[69,102],"plant":[71],"animal":[73],"genomes,":[74],"engages":[77],"students":[78],"their":[80],"own":[81],"learning,":[82],"bringing":[83],"life":[85],"key":[86],"concepts":[87],"molecular":[89],"biology,":[90],"genetics,":[91],"evolution.":[93],"Integrated":[94],"barcoding":[96],"extraction":[99],"wet-lab":[100],"experiments":[101],"a":[103],"variety":[104],"inquiry-based":[106],"projects":[107],"student-generated":[109],"data.":[110],"Products":[111],"student":[113],"research":[114],"can":[115],"be":[116],"exported,":[117],"published,":[118],"used":[120],"follow-up":[122],"experiments.":[123],"To":[124],"date,":[125],"has":[128],"over":[129],"8,000":[130],"registered":[131],"users":[132],"who":[133],"produced":[135],"51,000":[136],"projects.":[137]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":3},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2016-06-24T00:00:00"}