{"id":"https://openalex.org/W2066775373","doi":"https://doi.org/10.1093/nar/gkp379","title":"iCODEHOP: a new interactive program for designing COnsensus-DEgenerate Hybrid Oligonucleotide Primers from multiply aligned protein sequences","display_name":"iCODEHOP: a new interactive program for designing COnsensus-DEgenerate Hybrid Oligonucleotide Primers from multiply aligned protein sequences","publication_year":2009,"publication_date":"2009-05-14","ids":{"openalex":"https://openalex.org/W2066775373","doi":"https://doi.org/10.1093/nar/gkp379","mag":"2066775373","pmid":"https://pubmed.ncbi.nlm.nih.gov/19443442"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkp379","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp379","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W222/3941910/gkp379.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W222/3941910/gkp379.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5102921689","display_name":"Richard D. Boyce","orcid":"https://orcid.org/0000-0002-2993-2085"},"institutions":[{"id":"https://openalex.org/I4210128526","display_name":"UPMC Hillman Cancer Center","ror":"https://ror.org/03bw34a45","country_code":"US","type":"facility","lineage":["https://openalex.org/I170201317","https://openalex.org/I4210128526"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"R. Boyce","raw_affiliation_strings":["Department of Biomedical Informatics, University of Pittsburgh, UPMC Cancer Pavilion, Suite 301, Pittsburgh, PA 15232, USA. rdb20@pitt.edu","Department of Biomedical Informatics, University of Pittsburgh, UPMC Cancer Pavilion, Suite 301, Pittsburgh, PA 15232, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics, University of Pittsburgh, UPMC Cancer Pavilion, Suite 301, Pittsburgh, PA 15232, USA. rdb20@pitt.edu","institution_ids":["https://openalex.org/I4210128526"]},{"raw_affiliation_string":"Department of Biomedical Informatics, University of Pittsburgh, UPMC Cancer Pavilion, Suite 301, Pittsburgh, PA 15232, USA","institution_ids":["https://openalex.org/I4210128526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068802251","display_name":"Poonam Chilana","orcid":null},"institutions":[{"id":"https://openalex.org/I1295499534","display_name":"Seattle Children's Hospital","ror":"https://ror.org/01njes783","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1295499534"]},{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]},{"id":"https://openalex.org/I58610484","display_name":"Seattle University","ror":"https://ror.org/02jqc0m91","country_code":"US","type":"education","lineage":["https://openalex.org/I58610484"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"P. Chilana","raw_affiliation_strings":["Information School, University of Washington,","Seattle Children's Hospital, Seattle, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Information School, University of Washington,","institution_ids":["https://openalex.org/I201448701"]},{"raw_affiliation_string":"Seattle Children's Hospital, Seattle, United States","institution_ids":["https://openalex.org/I1295499534","https://openalex.org/I58610484"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5060027930","display_name":"Timothy M. Rose","orcid":"https://orcid.org/0000-0001-7646-0028"},"institutions":[{"id":"https://openalex.org/I1295499534","display_name":"Seattle Children's Hospital","ror":"https://ror.org/01njes783","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1295499534"]},{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]},{"id":"https://openalex.org/I58610484","display_name":"Seattle University","ror":"https://ror.org/02jqc0m91","country_code":"US","type":"education","lineage":["https://openalex.org/I58610484"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"T. M. Rose","raw_affiliation_strings":["Department of Pediatrics, University of Washington, Seattle, WA, USA","Seattle Children's Research Institute and","Seattle Children's Hospital, Seattle, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, University of Washington, Seattle, WA, USA","institution_ids":["https://openalex.org/I201448701"]},{"raw_affiliation_string":"Seattle Children's Research Institute and","institution_ids":[]},{"raw_affiliation_string":"Seattle Children's Hospital, Seattle, United States","institution_ids":["https://openalex.org/I1295499534","https://openalex.org/I58610484"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":3.2403,"has_fulltext":true,"cited_by_count":86,"citation_normalized_percentile":{"value":0.92373408,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"37","issue":"Web Server","first_page":"W222","last_page":"W228"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9997000098228455,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9997000098228455,"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/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9937999844551086,"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"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9926999807357788,"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/biology","display_name":"Biology","score":0.7932342290878296},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5609238147735596},{"id":"https://openalex.org/keywords/primer","display_name":"Primer (cosmetics)","score":0.556885838508606},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.499037504196167},{"id":"https://openalex.org/keywords/amplicon","display_name":"Amplicon","score":0.4892141819000244},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.4852476119995117},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4702310264110565},{"id":"https://openalex.org/keywords/upload","display_name":"Upload","score":0.454550176858902},{"id":"https://openalex.org/keywords/oligonucleotide","display_name":"Oligonucleotide","score":0.43485453724861145},{"id":"https://openalex.org/keywords/multiple-sequence-alignment","display_name":"Multiple sequence alignment","score":0.42918357253074646},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.4175335466861725},{"id":"https://openalex.org/keywords/clade","display_name":"Clade","score":0.4135955572128296},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.35106489062309265},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.35070517659187317},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3124556541442871},{"id":"https://openalex.org/keywords/polymerase-chain-reaction","display_name":"Polymerase chain reaction","score":0.20794039964675903},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.13103574514389038},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.10608610510826111}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7932342290878296},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5609238147735596},{"id":"https://openalex.org/C2777563447","wikidata":"https://www.wikidata.org/wiki/Q7243397","display_name":"Primer (cosmetics)","level":2,"score":0.556885838508606},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.499037504196167},{"id":"https://openalex.org/C8185291","wikidata":"https://www.wikidata.org/wiki/Q2844457","display_name":"Amplicon","level":4,"score":0.4892141819000244},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.4852476119995117},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4702310264110565},{"id":"https://openalex.org/C71901391","wikidata":"https://www.wikidata.org/wiki/Q7126699","display_name":"Upload","level":2,"score":0.454550176858902},{"id":"https://openalex.org/C129312508","wikidata":"https://www.wikidata.org/wiki/Q133686","display_name":"Oligonucleotide","level":3,"score":0.43485453724861145},{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.42918357253074646},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4175335466861725},{"id":"https://openalex.org/C44465124","wikidata":"https://www.wikidata.org/wiki/Q713623","display_name":"Clade","level":4,"score":0.4135955572128296},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.35106489062309265},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.35070517659187317},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3124556541442871},{"id":"https://openalex.org/C49105822","wikidata":"https://www.wikidata.org/wiki/Q176996","display_name":"Polymerase chain reaction","level":3,"score":0.20794039964675903},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.13103574514389038},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.10608610510826111},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016133","descriptor_name":"Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016133","descriptor_name":"Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016133","descriptor_name":"Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016384","descriptor_name":"Consensus Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016384","descriptor_name":"Consensus Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016384","descriptor_name":"Consensus Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017931","descriptor_name":"DNA Primers","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D017931","descriptor_name":"DNA Primers","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D017931","descriptor_name":"DNA Primers","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/nar/gkp379","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp379","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W222/3941910/gkp379.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:19443442","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19443442","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:2703993","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2703993","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkp379","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp379","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W222/3941910/gkp379.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1965677825","display_name":null,"funder_award_id":"R24 RR021346","funder_id":"https://openalex.org/F4320337375","funder_display_name":"National Center for Research Resources"},{"id":"https://openalex.org/G3323441475","display_name":null,"funder_award_id":"1R24RR021346","funder_id":"https://openalex.org/F4320337375","funder_display_name":"National Center for Research Resources"}],"funders":[{"id":"https://openalex.org/F4320310094","display_name":"University of Washington","ror":"https://ror.org/00cvxb145"},{"id":"https://openalex.org/F4320313288","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337375","display_name":"National Center for Research Resources","ror":"https://ror.org/04pw6fb54"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2066775373.pdf","grobid_xml":"https://content.openalex.org/works/W2066775373.grobid-xml"},"referenced_works_count":24,"referenced_works":["https://openalex.org/W1799197103","https://openalex.org/W1970999032","https://openalex.org/W2004610394","https://openalex.org/W2047755806","https://openalex.org/W2056473717","https://openalex.org/W2085823590","https://openalex.org/W2095724872","https://openalex.org/W2096525273","https://openalex.org/W2112333437","https://openalex.org/W2116714101","https://openalex.org/W2117427088","https://openalex.org/W2121501983","https://openalex.org/W2125811524","https://openalex.org/W2127039496","https://openalex.org/W2136323702","https://openalex.org/W2146351150","https://openalex.org/W2147231162","https://openalex.org/W2149895172","https://openalex.org/W2158113082","https://openalex.org/W2158767261","https://openalex.org/W2163261777","https://openalex.org/W2342091124","https://openalex.org/W4230903726","https://openalex.org/W4250729237"],"related_works":["https://openalex.org/W2051969447","https://openalex.org/W2111937814","https://openalex.org/W2162923930","https://openalex.org/W1482324242","https://openalex.org/W2133116680","https://openalex.org/W2091678889","https://openalex.org/W2029514038","https://openalex.org/W2149492307","https://openalex.org/W1985408726","https://openalex.org/W2141411672"],"abstract_inverted_index":{"PCR":[0],"amplification":[1],"using":[2,133],"COnsensus":[3],"DEgenerate":[4],"Hybrid":[5],"Oligonucleotide":[6],"Primers":[7],"(CODEHOPs)":[8],"has":[9],"proven":[10],"to":[11,85,109,123,127,140],"be":[12],"highly":[13],"effective":[14],"for":[15,94,102],"identifying":[16],"unknown":[17],"pathogens":[18],"and":[19,37,64,90,105],"characterizing":[20],"novel":[21],"genes.":[22],"We":[23],"describe":[24],"iCODEHOP;":[25],"a":[26,59],"new":[27,112],"interactive":[28],"web":[29],"application":[30],"that":[31],"simplifies":[32],"the":[33,47,50,83,107,121],"process":[34,54],"of":[35,78],"designing":[36],"selecting":[38],"CODEHOPs":[39,63],"from":[40,114],"multiply-aligned":[41],"protein":[42],"sequences.":[43],"iCODEHOP":[44,136],"intelligently":[45],"guides":[46],"user":[48,70,108,122],"through":[49],"degenerate":[51,79],"primer":[52,125],"design":[53,111,126],"including":[55],"uploading":[56],"sequences,":[57],"creating":[58],"multiple":[60],"alignment,":[61],"deriving":[62],"calculating":[65],"their":[66,87],"annealing":[67],"temperatures.":[68],"The":[69,97],"can":[71],"quickly":[72],"scan":[73],"over":[74],"an":[75],"entire":[76],"set":[77],"primers":[80,93,113],"designed":[81],"by":[82],"program":[84,98],"assess":[86],"relative":[88],"quality":[89],"select":[91],"individual":[92],"further":[95],"analysis.":[96],"displays":[99],"phylogenetic":[100],"information":[101],"input":[103],"sequences":[104,132],"allows":[106,120],"easily":[110],"selected":[115],"sequence":[116,134],"sub-clades.":[117],"It":[118],"also":[119],"bias":[124],"favor":[128],"specific":[129],"clades":[130],"or":[131],"weights.":[135],"is":[137],"freely":[138],"available":[139],"all":[141],"interested":[142],"researchers":[143],"at":[144],"https://icodehop.cphi.washington.edu/i-codehop-context/Welcome.":[145]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":8},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":5},{"year":2015,"cited_by_count":11},{"year":2014,"cited_by_count":6},{"year":2013,"cited_by_count":11},{"year":2012,"cited_by_count":12}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2025-10-10T00:00:00"}
