{"id":"https://openalex.org/W2150923679","doi":"https://doi.org/10.1093/bioinformatics/bts451","title":"Quantifying uniformity of mapped reads","display_name":"Quantifying uniformity of mapped reads","publication_year":2012,"publication_date":"2012-07-18","ids":{"openalex":"https://openalex.org/W2150923679","doi":"https://doi.org/10.1093/bioinformatics/bts451","mag":"2150923679","pmid":"https://pubmed.ncbi.nlm.nih.gov/22815359"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bts451","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts451","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/20/2680/16906338/bts451.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/28/20/2680/16906338/bts451.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5006063841","display_name":"Valerie Hower","orcid":null},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]},{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Valerie Hower","raw_affiliation_strings":["1 Department of Mathematics, University of Miami, Coral Gables, FL 33146, 2Department of Environmental Science, 3Department of Electrical Engineering and Computer Science, 4Department of Mathematics and 5Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Mathematics, University of Miami, Coral Gables, FL 33146, 2Department of Environmental Science, 3Department of Electrical Engineering and Computer Science, 4Department of Mathematics and 5Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, USA","institution_ids":["https://openalex.org/I145608581","https://openalex.org/I95457486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030026735","display_name":"Richard Starfield","orcid":null},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]},{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Richard Starfield","raw_affiliation_strings":["1 Department of Mathematics, University of Miami, Coral Gables, FL 33146, 2Department of Environmental Science, 3Department of Electrical Engineering and Computer Science, 4Department of Mathematics and 5Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Mathematics, University of Miami, Coral Gables, FL 33146, 2Department of Environmental Science, 3Department of Electrical Engineering and Computer Science, 4Department of Mathematics and 5Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, USA","institution_ids":["https://openalex.org/I145608581","https://openalex.org/I95457486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042650280","display_name":"Adam Roberts","orcid":"https://orcid.org/0000-0003-3539-804X"},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]},{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Adam Roberts","raw_affiliation_strings":["1 Department of Mathematics, University of Miami, Coral Gables, FL 33146, 2Department of Environmental Science, 3Department of Electrical Engineering and Computer Science, 4Department of Mathematics and 5Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Mathematics, University of Miami, Coral Gables, FL 33146, 2Department of Environmental Science, 3Department of Electrical Engineering and Computer Science, 4Department of Mathematics and 5Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, USA","institution_ids":["https://openalex.org/I145608581","https://openalex.org/I95457486"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5020008219","display_name":"Lior Pachter","orcid":"https://orcid.org/0000-0002-9164-6231"},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]},{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Lior Pachter","raw_affiliation_strings":["1 Department of Mathematics, University of Miami, Coral Gables, FL 33146, 2Department of Environmental Science, 3Department of Electrical Engineering and Computer Science, 4Department of Mathematics and 5Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Mathematics, University of Miami, Coral Gables, FL 33146, 2Department of Environmental Science, 3Department of Electrical Engineering and Computer Science, 4Department of Mathematics and 5Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, USA","institution_ids":["https://openalex.org/I145608581","https://openalex.org/I95457486"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5020008219"],"corresponding_institution_ids":["https://openalex.org/I145608581","https://openalex.org/I95457486"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.2684,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.59233934,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"28","issue":"20","first_page":"2680","last_page":"2682"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9995999932289124,"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":0.9995999932289124,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9975000023841858,"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/T11482","display_name":"RNA modifications and cancer","score":0.9957000017166138,"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/computer-science","display_name":"Computer science","score":0.5696298480033875}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5696298480033875}],"mesh":[{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011786","descriptor_name":"Quality Control","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011786","descriptor_name":"Quality Control","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011786","descriptor_name":"Quality Control","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","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":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/bts451","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts451","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/20/2680/16906338/bts451.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:22815359","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22815359","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},{"id":"pmh:oai:authors.library.caltech.edu:74748","is_oa":false,"landing_page_url":"https://resolver.caltech.edu/CaltechAUTHORS:20170303-164056261","pdf_url":null,"source":{"id":"https://openalex.org/S4306402161","display_name":"CaltechAUTHORS (California Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I122411786","host_organization_name":"California Institute of Technology","host_organization_lineage":["https://openalex.org/I122411786"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:europepmc.org:2787188","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3467739","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bts451","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts451","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/20/2680/16906338/bts451.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":[{"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4","score":0.7400000095367432}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2150923679.pdf","grobid_xml":"https://content.openalex.org/works/W2150923679.grobid-xml"},"referenced_works_count":4,"referenced_works":["https://openalex.org/W1966711026","https://openalex.org/W2056507677","https://openalex.org/W2124985265","https://openalex.org/W2152045787"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2350741829","https://openalex.org/W2530322880","https://openalex.org/W1596801655","https://openalex.org/W2359140296"],"abstract_inverted_index":{"We":[0],"provide":[1],"a":[2],"freely":[3],"available":[4],"and":[5],"open":[6],"source":[7],"python":[8],"script":[9],"that":[10],"can":[11],"be":[12],"used":[13],"to":[14,22],"analyze":[15],"raw":[16],"read":[17],"data":[18],"or":[19],"reads":[20],"mapped":[21],"transcripts":[23],"in":[24],"BAM":[25],"format":[26],"at":[27],"http://www.math.miami.edu/~vhower/ReadSpy.html.":[28]},"counts_by_year":[{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2014,"cited_by_count":2}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}