{"id":"https://openalex.org/W2149613456","doi":"https://doi.org/10.1186/1471-2105-8-359","title":"Differential analysis for high density tiling microarray data","display_name":"Differential analysis for high density tiling microarray data","publication_year":2007,"publication_date":"2007-09-24","ids":{"openalex":"https://openalex.org/W2149613456","doi":"https://doi.org/10.1186/1471-2105-8-359","mag":"2149613456","pmid":"https://pubmed.ncbi.nlm.nih.gov/17892592"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-8-359","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-8-359","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-8-359","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"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":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-8-359","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5001432540","display_name":"Srinka Ghosh","orcid":null},"institutions":[{"id":"https://openalex.org/I4210151439","display_name":"Affymax (United States)","ror":"https://ror.org/0505r1x13","country_code":"US","type":"company","lineage":["https://openalex.org/I4210151439"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Srinka Ghosh","raw_affiliation_strings":["Affymetrix Inc,, Santa Clara, CA 95051, USA. srinka_ghosh@affymetrix.com","Affymetrix Inc., Santa Clara, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Affymetrix Inc,, Santa Clara, CA 95051, USA. srinka_ghosh@affymetrix.com","institution_ids":["https://openalex.org/I4210151439"]},{"raw_affiliation_string":"Affymetrix Inc., Santa Clara, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102917455","display_name":"Heather A. Hirsch","orcid":"https://orcid.org/0000-0002-6535-9204"},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Heather A Hirsch","raw_affiliation_strings":["Dept. Biological Chemistry & Molecular Pharmacology, Harvard Medical School, Boston, MA, 02115, USA","Dept. Biological Chemistry & Molecular Pharmacology, Harvard Medical School, Boston, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dept. Biological Chemistry & Molecular Pharmacology, Harvard Medical School, Boston, MA, 02115, USA","institution_ids":["https://openalex.org/I136199984"]},{"raw_affiliation_string":"Dept. Biological Chemistry & Molecular Pharmacology, Harvard Medical School, Boston, USA","institution_ids":["https://openalex.org/I111088046","https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053336160","display_name":"Edward A. Sekinger","orcid":null},"institutions":[{"id":"https://openalex.org/I4210091803","display_name":"Asuragen (United States)","ror":"https://ror.org/00g6vqe09","country_code":"US","type":"company","lineage":["https://openalex.org/I4210091803"]},{"id":"https://openalex.org/I869375964","display_name":"Woodward (United States)","ror":"https://ror.org/01y24f494","country_code":"US","type":"company","lineage":["https://openalex.org/I869375964"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Edward A Sekinger","raw_affiliation_strings":["Asuragen, Inc., 2150 Woodward, Austin, TX, 78744, USA","Asuragen, Inc., Austin, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Asuragen, Inc., 2150 Woodward, Austin, TX, 78744, USA","institution_ids":["https://openalex.org/I4210091803","https://openalex.org/I869375964"]},{"raw_affiliation_string":"Asuragen, Inc., Austin, USA","institution_ids":["https://openalex.org/I4210091803"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008738173","display_name":"Philipp Kapranov","orcid":"https://orcid.org/0000-0003-2647-4856"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Philipp Kapranov","raw_affiliation_strings":["Affymetrix Inc., Santa Clara, CA, 95051, USA","Affymetrix Inc., Santa Clara, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Affymetrix Inc., Santa Clara, CA, 95051, USA","institution_ids":[]},{"raw_affiliation_string":"Affymetrix Inc., Santa Clara, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083029357","display_name":"Kevin Struhl","orcid":"https://orcid.org/0000-0002-4181-7856"},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kevin Struhl","raw_affiliation_strings":["Dept. Biological Chemistry & Molecular Pharmacology, Harvard Medical School, Boston, MA, 02115, USA","Dept. Biological Chemistry & Molecular Pharmacology, Harvard Medical School, Boston, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dept. Biological Chemistry & Molecular Pharmacology, Harvard Medical School, Boston, MA, 02115, USA","institution_ids":["https://openalex.org/I136199984"]},{"raw_affiliation_string":"Dept. Biological Chemistry & Molecular Pharmacology, Harvard Medical School, Boston, USA","institution_ids":["https://openalex.org/I111088046","https://openalex.org/I136199984"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5067538373","display_name":"T Gingeras","orcid":"https://orcid.org/0000-0001-9106-3573"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Thomas R Gingeras","raw_affiliation_strings":["Affymetrix Inc., Santa Clara, CA, 95051, USA","Affymetrix Inc., Santa Clara, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Affymetrix Inc., Santa Clara, CA, 95051, USA","institution_ids":[]},{"raw_affiliation_string":"Affymetrix Inc., Santa Clara, USA","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5001432540"],"corresponding_institution_ids":["https://openalex.org/I4210151439"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":0.5034,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.64519911,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"8","issue":"1","first_page":"359","last_page":"359"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.6305000185966492,"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":0.6305000185966492,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.3077999949455261,"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/T11213","display_name":"Genomic variations and chromosomal abnormalities","score":0.02070000022649765,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/tiling-array","display_name":"Tiling array","score":0.7398503422737122},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5936914086341858},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.5820948481559753},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5724221467971802},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4684683680534363},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.46622705459594727},{"id":"https://openalex.org/keywords/chromatin","display_name":"Chromatin","score":0.4588509202003479},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.41643646359443665},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.3446943759918213}],"concepts":[{"id":"https://openalex.org/C119401833","wikidata":"https://www.wikidata.org/wiki/Q7802158","display_name":"Tiling array","level":5,"score":0.7398503422737122},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5936914086341858},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.5820948481559753},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5724221467971802},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4684683680534363},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.46622705459594727},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.4588509202003479},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.41643646359443665},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.3446943759918213}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D003662","descriptor_name":"Decision Theory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003662","descriptor_name":"Decision Theory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003662","descriptor_name":"Decision Theory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003662","descriptor_name":"Decision Theory","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":"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":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011237","descriptor_name":"Predictive Value of Tests","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011237","descriptor_name":"Predictive Value of Tests","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011237","descriptor_name":"Predictive Value of Tests","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011237","descriptor_name":"Predictive Value of Tests","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D014212","descriptor_name":"Tretinoin","qualifier_ui":"Q000008","qualifier_name":"administration & dosage","is_major_topic":false},{"descriptor_ui":"D014212","descriptor_name":"Tretinoin","qualifier_ui":"Q000008","qualifier_name":"administration & dosage","is_major_topic":false},{"descriptor_ui":"D014212","descriptor_name":"Tretinoin","qualifier_ui":"Q000008","qualifier_name":"administration & dosage","is_major_topic":false},{"descriptor_ui":"D014212","descriptor_name":"Tretinoin","qualifier_ui":"Q000008","qualifier_name":"administration & dosage","is_major_topic":false},{"descriptor_ui":"D015342","descriptor_name":"DNA Probes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D015342","descriptor_name":"DNA Probes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D015342","descriptor_name":"DNA Probes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D015342","descriptor_name":"DNA Probes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D018922","descriptor_name":"HL-60 Cells","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D018922","descriptor_name":"HL-60 Cells","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D018922","descriptor_name":"HL-60 Cells","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D018922","descriptor_name":"HL-60 Cells","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D018922","descriptor_name":"HL-60 Cells","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D018922","descriptor_name":"HL-60 Cells","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D018922","descriptor_name":"HL-60 Cells","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D018922","descriptor_name":"HL-60 Cells","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","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":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","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":"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":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040461","descriptor_name":"Gene Components","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D040461","descriptor_name":"Gene Components","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D040461","descriptor_name":"Gene Components","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D040461","descriptor_name":"Gene Components","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1186/1471-2105-8-359","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-8-359","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-8-359","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"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":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:17892592","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/17892592","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:repository.cshl.edu:25316","is_oa":false,"landing_page_url":"https://repository.cshl.edu/id/eprint/25316/1/Differential-analysis-for-high-density-tiling-microarray-data.pdf","pdf_url":"https://repository.cshl.edu/id/eprint/25316/1/Differential-analysis-for-high-density-tiling-microarray-data.pdf","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":"Paper"},{"id":"pmh:oai:pubmedcentral.nih.gov:2231405","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2231405","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":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:dash.harvard.edu:1/4853428","is_oa":true,"landing_page_url":"http://nrs.harvard.edu/urn-3:HUL.InstRepos:4853428","pdf_url":null,"source":{"id":"https://openalex.org/S4306401540","display_name":"Digital Access to Scholarship at Harvard (DASH) (Harvard University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I136199984","host_organization_name":"Harvard University","host_organization_lineage":["https://openalex.org/I136199984"],"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":"","raw_type":"Journal Article"},{"id":"pmh:oai:doaj.org/article:a7af3e39bb2a4474bbd07d90388b55ca","is_oa":true,"landing_page_url":"https://doaj.org/article/a7af3e39bb2a4474bbd07d90388b55ca","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 8, Iss 1, p 359 (2007)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-8-359","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-8-359","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-8-359","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"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":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1356092923","display_name":null,"funder_award_id":"N01CO12400","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G1799052500","display_name":null,"funder_award_id":"N01-CO-012400","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G3277247684","display_name":null,"funder_award_id":"N01-CO-12400","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6348223312","display_name":null,"funder_award_id":"U01-HG003147","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2149613456.pdf","grobid_xml":"https://content.openalex.org/works/W2149613456.grobid-xml"},"referenced_works_count":57,"referenced_works":["https://openalex.org/W1530842726","https://openalex.org/W1544729927","https://openalex.org/W1596515083","https://openalex.org/W1596965334","https://openalex.org/W1633265983","https://openalex.org/W1766888123","https://openalex.org/W1819101074","https://openalex.org/W1970100831","https://openalex.org/W1982516880","https://openalex.org/W1992108607","https://openalex.org/W2002124496","https://openalex.org/W2004000066","https://openalex.org/W2007232912","https://openalex.org/W2007447232","https://openalex.org/W2016927884","https://openalex.org/W2020659583","https://openalex.org/W2026882865","https://openalex.org/W2029441111","https://openalex.org/W2034660092","https://openalex.org/W2053833990","https://openalex.org/W2058846847","https://openalex.org/W2067008621","https://openalex.org/W2074089196","https://openalex.org/W2074097004","https://openalex.org/W2096286842","https://openalex.org/W2099468911","https://openalex.org/W2099784902","https://openalex.org/W2102304447","https://openalex.org/W2105381419","https://openalex.org/W2106554405","https://openalex.org/W2110065044","https://openalex.org/W2111748423","https://openalex.org/W2118628540","https://openalex.org/W2120865735","https://openalex.org/W2121044470","https://openalex.org/W2124386744","https://openalex.org/W2126602684","https://openalex.org/W2133036743","https://openalex.org/W2136725005","https://openalex.org/W2141407136","https://openalex.org/W2143079975","https://openalex.org/W2143593381","https://openalex.org/W2146273335","https://openalex.org/W2147278423","https://openalex.org/W2148184912","https://openalex.org/W2148665586","https://openalex.org/W2154074258","https://openalex.org/W2157795344","https://openalex.org/W2159511216","https://openalex.org/W2160933524","https://openalex.org/W2171128358","https://openalex.org/W2187417714","https://openalex.org/W2187461225","https://openalex.org/W2247766769","https://openalex.org/W4248318091","https://openalex.org/W4256170606","https://openalex.org/W4294107304"],"related_works":["https://openalex.org/W106077234","https://openalex.org/W2041374557","https://openalex.org/W2081929287","https://openalex.org/W2132561013","https://openalex.org/W2395975409","https://openalex.org/W2144348650","https://openalex.org/W1994852842","https://openalex.org/W4246178523","https://openalex.org/W2026378828","https://openalex.org/W2586391377"],"abstract_inverted_index":{"BACKGROUND:":[0],"High":[1],"density":[2],"oligonucleotide":[3],"tiling":[4,25],"arrays":[5,26,43],"are":[6,44],"an":[7,93],"effective":[8],"and":[9,29,36,60,77,96,106,147,202,224],"powerful":[10],"platform":[11],"for":[12,150],"conducting":[13],"unbiased":[14],"genome-wide":[15,135],"studies.":[16],"The":[17,88,167,250],"ab":[18],"initio":[19],"probe":[20],"selection":[21],"method":[22],"employed":[23],"in":[24],"is":[27,100,236],"unbiased,":[28],"thus":[30],"ensures":[31],"consistent":[32],"sampling":[33],"across":[34],"coding":[35],"non-coding":[37,148],"regions":[38],"of":[39,53,64,75,85,109,141,173,176,185,210,217,243],"the":[40,50,73,82,97,116,142,152,171,193,240],"genome.":[41],"These":[42],"being":[45],"increasingly":[46],"used":[47,101],"to":[48,102,115,133,182,192],"study":[49],"associated":[51],"processes":[52],"transcription,":[54],"transcription":[55,76],"factor":[56],"binding,":[57],"chromatin":[58],"structure":[59],"their":[61],"association.":[62],"Studies":[63],"differential":[65,113,136,156,187,197,218],"expression":[66,198],"and/or":[67],"regulation":[68,78],"provide":[69],"critical":[70],"insight":[71],"into":[72],"mechanics":[74],"that":[79],"occurs":[80],"during":[81],"developmental":[83,118],"program":[84],"a":[86,124,129,159,179,208,231,246],"cell.":[87],"time-course":[89],"experiment,":[90],"which":[91],"comprises":[92],"in-vivo":[94],"system":[95],"proposed":[98,123],"analyses,":[99],"determine":[103],"if":[104],"annotated":[105],"un-annotated":[107],"portions":[108],"genome":[110],"manifest":[111],"coordinated":[112,186],"response":[114,143,157],"induced":[117],"program.":[119],"RESULTS:":[120],"We":[121],"have":[122,204],"novel":[125],"approach,":[126],"based":[127,144],"on":[128,145],"piece-wise":[130],"function":[131],"-":[132],"analyze":[134],"response.":[137],"This":[138],"enables":[139],"segmentation":[140],"protein-coding":[146],"regions;":[149],"genes":[151],"methodology":[153],"also":[154],"partitions":[155],"with":[158],"5'":[160,241],"versus":[161,163],"3'":[162],"intra-genic":[164],"bias.":[165],"CONCLUSION:":[166],"algorithm":[168],"built":[169],"upon":[170],"framework":[172],"Significance":[174],"Analysis":[175],"Microarrays,":[177],"uses":[178],"generalized":[180],"logic":[181],"define":[183],"regions/patterns":[184],"change.":[188],"By":[189],"not":[190],"adhering":[191],"gene-centric":[194],"paradigm,":[195],"discordant":[196],"patterns":[199],"between":[200,220],"exons":[201],"introns":[203],"been":[205,228,255],"identified":[206],"at":[207,230,239,245],"FDR":[209],"less":[211],"than":[212],"12":[213],"percent.":[214],"A":[215],"co-localization":[216],"binding":[219],"RNA":[221],"Polymerase":[222],"II":[223],"tetra-acetylated":[225],"histone":[226],"has":[227,254],"quantified":[229],"p-value":[232,247],"<":[233,248],"0.003;":[234],"it":[235],"most":[237],"significant":[238],"end":[242],"genes,":[244],"10-13.":[249],"prototype":[251],"R":[252],"code":[253],"made":[256],"available":[257],"as":[258],"supplementary":[259],"material":[260],"[see":[261],"Additional":[262],"file":[263],"1].":[264]},"counts_by_year":[{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-08-14T07:06:38.338062","created_date":"2025-10-10T00:00:00"}