{"id":"https://openalex.org/W2100374693","doi":"https://doi.org/10.1093/bioinformatics/bth362","title":"The CRASSS plug-in for integrating annotation data with hierarchical clustering results","display_name":"The CRASSS plug-in for integrating annotation data with hierarchical clustering results","publication_year":2004,"publication_date":"2004-06-17","ids":{"openalex":"https://openalex.org/W2100374693","doi":"https://doi.org/10.1093/bioinformatics/bth362","mag":"2100374693","pmid":"https://pubmed.ncbi.nlm.nih.gov/15201188"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bth362","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth362","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/20/17/3266/456239/bth362.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/20/17/3266/456239/bth362.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5028712703","display_name":"Eugen Buehler","orcid":"https://orcid.org/0000-0001-7167-676X"},"institutions":[{"id":"https://openalex.org/I1285764155","display_name":"Merck & Co., Inc., Rahway, NJ, USA (United States)","ror":"https://ror.org/02891sr49","country_code":"US","type":"company","lineage":["https://openalex.org/I1285764155"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Eugen C. Buehler","raw_affiliation_strings":["Applied Computer Science and Mathematics, Merck Research Laboratories, P.O. Box 2000 RY84-202, Rahway, NJ 07065 0900, USA. eugen_buehler@merck.com","Applied Computer Science and Mathematics, Merck Research Laboratories, P.O. Box 2000 RY84-202, Rahway, NJ 07065 0900, USA"],"affiliations":[{"raw_affiliation_string":"Applied Computer Science and Mathematics, Merck Research Laboratories, P.O. Box 2000 RY84-202, Rahway, NJ 07065 0900, USA. eugen_buehler@merck.com","institution_ids":["https://openalex.org/I1285764155"]},{"raw_affiliation_string":"Applied Computer Science and Mathematics, Merck Research Laboratories, P.O. Box 2000 RY84-202, Rahway, NJ 07065 0900, USA","institution_ids":["https://openalex.org/I1285764155"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021432816","display_name":"Jeffrey R. Sachs","orcid":"https://orcid.org/0000-0001-5725-558X"},"institutions":[{"id":"https://openalex.org/I1285764155","display_name":"Merck & Co., Inc., Rahway, NJ, USA (United States)","ror":"https://ror.org/02891sr49","country_code":"US","type":"company","lineage":["https://openalex.org/I1285764155"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jeffrey R. Sachs","raw_affiliation_strings":["Applied Computer Science and Mathematics, Merck Research Laboratories, P.O. Box 2000 RY84-202, Rahway, NJ 07065 0900, USA"],"affiliations":[{"raw_affiliation_string":"Applied Computer Science and Mathematics, Merck Research Laboratories, P.O. Box 2000 RY84-202, Rahway, NJ 07065 0900, USA","institution_ids":["https://openalex.org/I1285764155"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038923515","display_name":"Kui Shao","orcid":null},"institutions":[{"id":"https://openalex.org/I1285764155","display_name":"Merck & Co., Inc., Rahway, NJ, USA (United States)","ror":"https://ror.org/02891sr49","country_code":"US","type":"company","lineage":["https://openalex.org/I1285764155"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kui Shao","raw_affiliation_strings":["Applied Computer Science and Mathematics, Merck Research Laboratories, P.O. Box 2000 RY84-202, Rahway, NJ 07065 0900, USA"],"affiliations":[{"raw_affiliation_string":"Applied Computer Science and Mathematics, Merck Research Laboratories, P.O. Box 2000 RY84-202, Rahway, NJ 07065 0900, USA","institution_ids":["https://openalex.org/I1285764155"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103809543","display_name":"Ansuman Bagchi","orcid":null},"institutions":[{"id":"https://openalex.org/I1285764155","display_name":"Merck & Co., Inc., Rahway, NJ, USA (United States)","ror":"https://ror.org/02891sr49","country_code":"US","type":"company","lineage":["https://openalex.org/I1285764155"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ansuman Bagchi","raw_affiliation_strings":["Applied Computer Science and Mathematics, Merck Research Laboratories, P.O. Box 2000 RY84-202, Rahway, NJ 07065 0900, USA"],"affiliations":[{"raw_affiliation_string":"Applied Computer Science and Mathematics, Merck Research Laboratories, P.O. Box 2000 RY84-202, Rahway, NJ 07065 0900, USA","institution_ids":["https://openalex.org/I1285764155"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5044944954","display_name":"Lyle Ungar","orcid":"https://orcid.org/0000-0003-2047-1443"},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lyle H. Ungar","raw_affiliation_strings":["Department of Computer & Information Science, University of Pennsylvania, 200 South 33rd Street, Philadelphia, PA 19104 6389, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer & Information Science, University of Pennsylvania, 200 South 33rd Street, Philadelphia, PA 19104 6389, USA","institution_ids":["https://openalex.org/I79576946"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5028712703"],"corresponding_institution_ids":["https://openalex.org/I1285764155"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.4678,"has_fulltext":false,"cited_by_count":12,"citation_normalized_percentile":{"value":0.61395217,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"20","issue":"17","first_page":"3266","last_page":"3269"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9998999834060669,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9998999834060669,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9976999759674072,"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":0.9765999913215637,"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/plug-in","display_name":"Plug-in","score":0.8499165773391724},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7010849118232727},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.7005537748336792},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.5954700112342834},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5394090414047241},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5080649852752686},{"id":"https://openalex.org/keywords/hierarchical-clustering","display_name":"Hierarchical clustering","score":0.4966304898262024},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4543917775154114},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.4343961477279663},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.366701602935791},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.34633487462997437},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.12471872568130493}],"concepts":[{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.8499165773391724},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7010849118232727},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.7005537748336792},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.5954700112342834},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5394090414047241},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5080649852752686},{"id":"https://openalex.org/C92835128","wikidata":"https://www.wikidata.org/wiki/Q1277447","display_name":"Hierarchical clustering","level":3,"score":0.4966304898262024},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4543917775154114},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.4343961477279663},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.366701602935791},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.34633487462997437},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.12471872568130493}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","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":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","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":true},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","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":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/bth362","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth362","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/20/17/3266/456239/bth362.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:15201188","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15201188","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/bth362","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth362","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/20/17/3266/456239/bth362.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":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320309151","display_name":"Vanderbilt University","ror":"https://ror.org/02vm5rt34"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W2100374693.pdf"},"referenced_works_count":16,"referenced_works":["https://openalex.org/W1517816201","https://openalex.org/W1533133806","https://openalex.org/W1535641839","https://openalex.org/W1981156688","https://openalex.org/W1987572677","https://openalex.org/W2038482344","https://openalex.org/W2050035105","https://openalex.org/W2087684630","https://openalex.org/W2100555004","https://openalex.org/W2130494035","https://openalex.org/W2135000328","https://openalex.org/W2135445066","https://openalex.org/W2150926065","https://openalex.org/W2157795344","https://openalex.org/W2167395325","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W2981957539","https://openalex.org/W4287378204","https://openalex.org/W47352601","https://openalex.org/W2545422590","https://openalex.org/W4240705470","https://openalex.org/W2945311252","https://openalex.org/W2361861616","https://openalex.org/W631546281","https://openalex.org/W2263699433","https://openalex.org/W2924735795"],"abstract_inverted_index":{"We":[0],"describe":[1],"an":[2],"algorithm":[3],"for":[4,39],"finding":[5],"the":[6],"most":[7],"statistically":[8],"significant":[9],"non-overlapping":[10],"subtrees":[11],"of":[12,16,25],"a":[13,23,36,40],"hierarchical":[14],"clustering":[15],"gene":[17,42],"expression":[18,43],"data":[19,27],"with":[20],"respect":[21],"to":[22],"set":[24],"secondary":[26],"labels":[28],"on":[29],"genes.":[30],"The":[31],"method":[32],"is":[33],"implemented":[34],"as":[35],"Java":[37],"plug-in":[38],"commercial":[41],"analysis":[44],"program":[45],"(GeneSpring).":[46]},"counts_by_year":[{"year":2022,"cited_by_count":2},{"year":2014,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-01-15T23:16:33.117629","created_date":"2025-10-10T00:00:00"}