{"id":"https://openalex.org/W2606004665","doi":"https://doi.org/10.1093/bioinformatics/btx186","title":"StrandScript: evaluation of Illumina genotyping array design and strand correction","display_name":"StrandScript: evaluation of Illumina genotyping array design and strand correction","publication_year":2017,"publication_date":"2017-04-05","ids":{"openalex":"https://openalex.org/W2606004665","doi":"https://doi.org/10.1093/bioinformatics/btx186","mag":"2606004665","pmid":"https://pubmed.ncbi.nlm.nih.gov/28402386"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btx186","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx186","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/15/2399/25157900/btx186.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/33/15/2399/25157900/btx186.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100695635","display_name":"Jing Wang","orcid":"https://orcid.org/0000-0003-0040-9060"},"institutions":[{"id":"https://openalex.org/I901861585","display_name":"Vanderbilt University Medical Center","ror":"https://ror.org/05dq2gs74","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210162197","https://openalex.org/I901861585"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jing Wang","raw_affiliation_strings":["Department of Biomedical Informatics, Vanderbilt University Medical Center, Nashville TN, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics, Vanderbilt University Medical Center, Nashville TN, USA","institution_ids":["https://openalex.org/I901861585"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009870321","display_name":"David C. Samuels","orcid":"https://orcid.org/0000-0003-3529-7791"},"institutions":[{"id":"https://openalex.org/I200719446","display_name":"Vanderbilt University","ror":"https://ror.org/02vm5rt34","country_code":"US","type":"education","lineage":["https://openalex.org/I200719446"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David C Samuels","raw_affiliation_strings":["Department of Molecular Physiology and Biophysics, Vanderbilt University, Nashville TN, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Physiology and Biophysics, Vanderbilt University, Nashville TN, USA","institution_ids":["https://openalex.org/I200719446"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062656698","display_name":"Yu Shyr","orcid":"https://orcid.org/0000-0003-2086-9670"},"institutions":[{"id":"https://openalex.org/I901861585","display_name":"Vanderbilt University Medical Center","ror":"https://ror.org/05dq2gs74","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210162197","https://openalex.org/I901861585"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yu Shyr","raw_affiliation_strings":["Department of Biostatistics, Vanderbilt University Medical Center, Nashville TN, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, Vanderbilt University Medical Center, Nashville TN, USA","institution_ids":["https://openalex.org/I901861585"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056796466","display_name":"Yan Guo","orcid":"https://orcid.org/0000-0001-5252-3960"},"institutions":[{"id":"https://openalex.org/I901861585","display_name":"Vanderbilt University Medical Center","ror":"https://ror.org/05dq2gs74","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210162197","https://openalex.org/I901861585"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yan Guo","raw_affiliation_strings":["Department of Biomedical Informatics, Vanderbilt University Medical Center, Nashville TN, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics, Vanderbilt University Medical Center, Nashville TN, USA","institution_ids":["https://openalex.org/I901861585"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5056796466"],"corresponding_institution_ids":["https://openalex.org/I901861585"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.6338,"has_fulltext":false,"cited_by_count":13,"citation_normalized_percentile":{"value":0.7414661,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"33","issue":"15","first_page":"2399","last_page":"2401"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.30820000171661377,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10261","display_name":"Genetic Associations and Epidemiology","score":0.30820000171661377,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10724","display_name":"Ion Transport and Channel Regulation","score":0.019600000232458115,"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/T11319","display_name":"Curcumin's Biomedical Applications","score":0.01940000057220459,"subfield":{"id":"https://openalex.org/subfields/1313","display_name":"Molecular Medicine"},"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/genotyping","display_name":"Genotyping","score":0.7963155508041382},{"id":"https://openalex.org/keywords/illumina-dye-sequencing","display_name":"Illumina dye sequencing","score":0.5816950798034668},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5081214904785156},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.45296621322631836},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3727027177810669},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.32947999238967896},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.31790149211883545},{"id":"https://openalex.org/keywords/genotype","display_name":"Genotype","score":0.16098326444625854},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.10231643915176392}],"concepts":[{"id":"https://openalex.org/C31467283","wikidata":"https://www.wikidata.org/wiki/Q912147","display_name":"Genotyping","level":4,"score":0.7963155508041382},{"id":"https://openalex.org/C106337198","wikidata":"https://www.wikidata.org/wiki/Q13564012","display_name":"Illumina dye sequencing","level":4,"score":0.5816950798034668},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5081214904785156},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.45296621322631836},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3727027177810669},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.32947999238967896},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.31790149211883545},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.16098326444625854},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10231643915176392}],"mesh":[{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060005","descriptor_name":"Genotyping Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D060005","descriptor_name":"Genotyping Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D060005","descriptor_name":"Genotyping Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btx186","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx186","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/15/2399/25157900/btx186.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:28402386","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28402386","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":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btx186","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx186","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/15/2399/25157900/btx186.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.6200000047683716,"id":"https://metadata.un.org/sdg/14","display_name":"Life below water"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":9,"referenced_works":["https://openalex.org/W1997775525","https://openalex.org/W2011413837","https://openalex.org/W2053250360","https://openalex.org/W2058401000","https://openalex.org/W2079847480","https://openalex.org/W2096791516","https://openalex.org/W2129359631","https://openalex.org/W2589287792","https://openalex.org/W6734111357"],"related_works":["https://openalex.org/W3210858261","https://openalex.org/W2921468924","https://openalex.org/W875172540","https://openalex.org/W4240065208","https://openalex.org/W2406306560","https://openalex.org/W4293481482","https://openalex.org/W3154810354","https://openalex.org/W2469594221","https://openalex.org/W4295088062","https://openalex.org/W1565499409"],"abstract_inverted_index":{"SUMMARY:":[0],"After":[1],"the":[2,25,37,45,61,76,90,117,125],"introduction":[3],"of":[4,24,39,55,78,84,124],"high-throughput":[5],"sequencing,":[6],"genotyping":[7,27,41,109,114,144,179],"arrays":[8,115],"continue":[9],"to":[10,100,116],"be":[11],"a":[12,72,103],"viable":[13],"source":[14],"for":[15,133],"conducting":[16],"large-scale":[17],"genetic":[18],"studies.":[19],"Currently,":[20],"Illumina":[21,40,50,113,126,135,143],"is":[22,44,58,130],"one":[23],"largest":[26],"array":[28,42,127,136,145],"manufacturers.":[29],"One":[30],"technical":[31],"issue":[32,69,92],"that":[33,105],"has":[34,70,93],"always":[35],"plagued":[36],"post-processing":[38],"data":[43,110,190],"strand":[46,91],"definition.":[47,67],"Against":[48],"convention,":[49],"uses":[51],"their":[52],"own":[53],"definition":[54],"strand,":[56],"which":[57],"inconsistent":[59],"with":[60,156,162],"standard":[62],"reference":[63,118],"forward":[64,119],"and":[65,81,129,148,160,171,173],"reverse":[66],"This":[68],"been":[71,95],"major":[73],"obstacle":[74],"in":[75],"consistency":[77],"reporting,":[79],"meta-analysis":[80],"correct":[82],"interpretation":[83],"phenotype":[85],"association":[86],"results.":[87],"To":[88],"date,":[89],"not":[94],"adequately":[96],"addressed,":[97],"prompting":[98],"us":[99],"develop":[101],"StrandScript,":[102],"tool":[104],"can":[106,140,149],"convert":[107],"all":[108,151],"generated":[111],"from":[112],"strand.":[120],"StrandScript":[121,139],"works":[122],"independently":[123],"version":[128],"future":[131],"proof":[132],"newer":[134],"designs.":[137],"Furthermore,":[138],"examine":[141],"an":[142],"manifest":[146],"file":[147],"detect":[150],"problematic":[152],"SNPs,":[153],"including":[154],"SNPs":[155,161],"wrong":[157],"RS":[158],"ID":[159],"mismatched":[163],"probe":[164],"sequences.":[165],"Here,":[166],"we":[167],"introduce":[168],"StrandScript's":[169],"design":[170],"development,":[172],"demonstrate":[174],"its":[175],"effectiveness":[176],"using":[177],"real":[178],"data.":[180],"AVAILABILITY":[181],"AND":[182],"IMPLEMENTATION:":[183],"https://github.com/seasky002002/Strandscript.":[184],"CONTACT:":[185],"yan.guo.1@vanderbilt.edu.":[186],"SUPPLEMENTARY":[187],"INFORMATION:":[188],"Supplementary":[189],"are":[191],"available":[192],"at":[193],"Bioinformatics":[194],"online.":[195]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":3}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}