{"id":"https://openalex.org/W2066431283","doi":"https://doi.org/10.1186/1751-0473-3-5","title":"Simple tools for assembling and searching high-density picolitre pyrophosphate sequence data","display_name":"Simple tools for assembling and searching high-density picolitre pyrophosphate sequence data","publication_year":2008,"publication_date":"2008-04-18","ids":{"openalex":"https://openalex.org/W2066431283","doi":"https://doi.org/10.1186/1751-0473-3-5","mag":"2066431283","pmid":"https://pubmed.ncbi.nlm.nih.gov/18423012"},"language":"en","primary_location":{"id":"doi:10.1186/1751-0473-3-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1751-0473-3-5","pdf_url":"https://scfbm.biomedcentral.com/counter/pdf/10.1186/1751-0473-3-5","source":{"id":"https://openalex.org/S45786803","display_name":"Source Code for Biology and Medicine","issn_l":"1751-0473","issn":["1751-0473"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Source Code for Biology and Medicine","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://scfbm.biomedcentral.com/counter/pdf/10.1186/1751-0473-3-5","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5078170990","display_name":"Nicolas J. Parker","orcid":null},"institutions":[{"id":"https://openalex.org/I243155512","display_name":"Agriculture and Horticulture Development Board","ror":"https://ror.org/010gf7388","country_code":"GB","type":"government","lineage":["https://openalex.org/I1326803253","https://openalex.org/I243155512","https://openalex.org/I2802373619"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Nicolas J Parker","raw_affiliation_strings":["10 Lockhart Close, Kenilworth, Warwickshire, CV8 1RB, UK","10 Lockhart Close, Kenilworth, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"10 Lockhart Close, Kenilworth, Warwickshire, CV8 1RB, UK","institution_ids":["https://openalex.org/I243155512"]},{"raw_affiliation_string":"10 Lockhart Close, Kenilworth, UK","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5025147086","display_name":"Andrew Parker","orcid":"https://orcid.org/0000-0001-8187-1278"},"institutions":[{"id":"https://openalex.org/I1281029379","display_name":"International Atomic Energy Agency","ror":"https://ror.org/02zt1gg83","country_code":"AT","type":"nonprofit","lineage":["https://openalex.org/I1281029379"]}],"countries":["AT"],"is_corresponding":true,"raw_author_name":"Andrew G Parker","raw_affiliation_strings":["Entomology Unit, FAO/IAEA Agriculture and Biotechnology Laboratory, Agency's Laboratories Seibersdorf, International Atomic Energy Agency, A-1400 Vienna, Austria","Entomology Unit, FAO/IAEA Agriculture and Biotechnology Laboratory, Agency's Laboratories Seibersdorf, International Atomic Energy Agency, Vienna, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Entomology Unit, FAO/IAEA Agriculture and Biotechnology Laboratory, Agency's Laboratories Seibersdorf, International Atomic Energy Agency, A-1400 Vienna, Austria","institution_ids":["https://openalex.org/I1281029379"]},{"raw_affiliation_string":"Entomology Unit, FAO/IAEA Agriculture and Biotechnology Laboratory, Agency's Laboratories Seibersdorf, International Atomic Energy Agency, Vienna, Austria","institution_ids":["https://openalex.org/I1281029379"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5025147086"],"corresponding_institution_ids":["https://openalex.org/I1281029379"],"apc_list":null,"apc_paid":null,"fwci":0.2808,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.60800378,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"3","issue":"1","first_page":"5","last_page":"5"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12763","display_name":"ATP Synthase and ATPases Research","score":0.12319999933242798,"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/T12763","display_name":"ATP Synthase and ATPases Research","score":0.12319999933242798,"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/T10890","display_name":"Trypanosoma species research and implications","score":0.1014999970793724,"subfield":{"id":"https://openalex.org/subfields/2713","display_name":"Epidemiology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":0.08649999648332596,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8022523522377014},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.7004165649414062},{"id":"https://openalex.org/keywords/simple","display_name":"Simple (philosophy)","score":0.5811976790428162},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.5784672498703003},{"id":"https://openalex.org/keywords/data-set","display_name":"Data set","score":0.43241819739341736},{"id":"https://openalex.org/keywords/fragment","display_name":"Fragment (logic)","score":0.4254196882247925},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3964115381240845},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3236883878707886},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.24238666892051697},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.15125414729118347},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.15020671486854553}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8022523522377014},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.7004165649414062},{"id":"https://openalex.org/C2780586882","wikidata":"https://www.wikidata.org/wiki/Q7520643","display_name":"Simple (philosophy)","level":2,"score":0.5811976790428162},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5784672498703003},{"id":"https://openalex.org/C58489278","wikidata":"https://www.wikidata.org/wiki/Q1172284","display_name":"Data set","level":2,"score":0.43241819739341736},{"id":"https://openalex.org/C2776235265","wikidata":"https://www.wikidata.org/wiki/Q18392052","display_name":"Fragment (logic)","level":2,"score":0.4254196882247925},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3964115381240845},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3236883878707886},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.24238666892051697},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.15125414729118347},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.15020671486854553},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1186/1751-0473-3-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1751-0473-3-5","pdf_url":"https://scfbm.biomedcentral.com/counter/pdf/10.1186/1751-0473-3-5","source":{"id":"https://openalex.org/S45786803","display_name":"Source Code for Biology and Medicine","issn_l":"1751-0473","issn":["1751-0473"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Source Code for Biology and Medicine","raw_type":"journal-article"},{"id":"pmid:18423012","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18423012","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Source code for biology and medicine","raw_type":null},{"id":"pmh:oai:doaj.org/article:6b1eea9838064f4f9fb2111909e8d231","is_oa":false,"landing_page_url":"https://doaj.org/article/6b1eea9838064f4f9fb2111909e8d231","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Source Code for Biology and Medicine, Vol 3, Iss 1, p 5 (2008)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2374781","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2374781","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Source Code Biol Med","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1751-0473-3-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1751-0473-3-5","pdf_url":"https://scfbm.biomedcentral.com/counter/pdf/10.1186/1751-0473-3-5","source":{"id":"https://openalex.org/S45786803","display_name":"Source Code for Biology and Medicine","issn_l":"1751-0473","issn":["1751-0473"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Source Code for Biology and Medicine","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.8500000238418579,"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320322679","display_name":"International Atomic Energy Agency","ror":"https://ror.org/02zt1gg83"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2066431283.pdf","grobid_xml":"https://content.openalex.org/works/W2066431283.grobid-xml"},"referenced_works_count":20,"referenced_works":["https://openalex.org/W2014445501","https://openalex.org/W2016974511","https://openalex.org/W2031928161","https://openalex.org/W2042687139","https://openalex.org/W2043714862","https://openalex.org/W2048527505","https://openalex.org/W2066519297","https://openalex.org/W2098979676","https://openalex.org/W2128114769","https://openalex.org/W2132012257","https://openalex.org/W2135196291","https://openalex.org/W2136651963","https://openalex.org/W2138270253","https://openalex.org/W2150629030","https://openalex.org/W2151017710","https://openalex.org/W2154184250","https://openalex.org/W2155845142","https://openalex.org/W2167673155","https://openalex.org/W2171475724","https://openalex.org/W2439071987"],"related_works":["https://openalex.org/W1973480752","https://openalex.org/W4253208712","https://openalex.org/W3132641048","https://openalex.org/W1603677234","https://openalex.org/W2217679042","https://openalex.org/W2525971763","https://openalex.org/W2805502594","https://openalex.org/W2783178962","https://openalex.org/W1896179566","https://openalex.org/W2594414941"],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1,117,186,210],"advent":[2],"of":[3,9,40,60,70,80,89,104,122,127,134,143,152,155,208,212],"pyrophosphate":[4,81,192],"sequencing":[5,10,39,193],"makes":[6],"large":[7,31,77],"volumes":[8],"data":[11,78,138,167,194],"available":[12],"at":[13],"a":[14,41,58,76,85,92,111,191,197,206,225],"lower":[15],"cost":[16],"than":[17],"previously":[18],"possible.":[19],"However,":[20],"the":[21,30,38,44,51,115,137,146,153,156,165],"short":[22,120],"read":[23],"lengths":[24,121],"are":[25,150],"difficult":[26,34,201],"to":[27,35,55,74,109,158,202,205,228],"assemble":[28],"and":[29,106,132,140,174,176,224],"dataset":[32],"is":[33,72,200],"handle.":[36],"During":[37],"virus":[42],"from":[43,136],"tsetse":[45],"fly,":[46],"Glossina":[47],"pallidipes,":[48],"we":[49],"found":[50],"need":[52],"for":[53,62],"tools":[54,71,118,157,214],"search":[56,75],"quickly":[57],"set":[59,69,79,139,195,211],"reads":[61,83,135],"near":[63],"exact":[64],"text":[65],"matches.":[66],"METHODS:":[67],"A":[68],"provided":[73],"sequence":[82],"under":[84],"\"live\"":[86],"CD":[87],"version":[88],"Linux":[90,105,112],"on":[91,114],"standard":[93,226],"PC":[94,227],"that":[95],"can":[96],"be":[97],"used":[98],"by":[99,181],"anyone":[100,219],"without":[101,107],"prior":[102],"knowledge":[103],"having":[108],"install":[110],"setup":[113],"computer.":[116],"permit":[119],"de":[123],"novo":[124],"assembly,":[125],"checking":[126,161],"existing":[128],"assembled":[129],"sequences,":[130],"selection":[131],"display":[133],"gathering":[141],"counts":[142],"sequences":[144],"in":[145,190],"reads.":[147],"RESULTS:":[148],"Demonstrations":[149],"given":[151],"use":[154],"help":[159],"with":[160,220],"an":[162],"assembly":[163,199],"against":[164],"fragment":[166],"set;":[168],"investigating":[169],"homopolymer":[170],"lengths,":[171],"repeat":[172],"regions":[173],"polymorphisms;":[175],"resolving":[177],"inserted":[178],"bases":[179],"caused":[180],"incomplete":[182],"chain":[183],"extension.":[184],"CONCLUSION:":[185],"additional":[187],"information":[188],"contained":[189],"beyond":[196],"basic":[198,221],"access":[203,229],"due":[204],"lack":[207],"tools.":[209],"simple":[213],"presented":[215],"here":[216],"would":[217],"allow":[218],"computer":[222],"skills":[223],"this":[230],"information.":[231]},"counts_by_year":[{"year":2016,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-06-19T15:47:20.252518","created_date":"2025-10-10T00:00:00"}
