{"id":"https://openalex.org/W2754256904","doi":"https://doi.org/10.1093/bioinformatics/btx595","title":"CGmapTools improves the precision of heterozygous SNV calls and supports allele-specific methylation detection and visualization in bisulfite-sequencing data","display_name":"CGmapTools improves the precision of heterozygous SNV calls and supports allele-specific methylation detection and visualization in bisulfite-sequencing data","publication_year":2017,"publication_date":"2017-09-15","ids":{"openalex":"https://openalex.org/W2754256904","doi":"https://doi.org/10.1093/bioinformatics/btx595","mag":"2754256904","pmid":"https://pubmed.ncbi.nlm.nih.gov/28968643"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btx595","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx595","pdf_url":null,"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":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5043106360","display_name":"Weilong Guo","orcid":"https://orcid.org/0000-0001-5199-1359"},"institutions":[{"id":"https://openalex.org/I52158045","display_name":"China Agricultural University","ror":"https://ror.org/04v3ywz14","country_code":"CN","type":"education","lineage":["https://openalex.org/I52158045"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Weilong Guo","raw_affiliation_strings":["State Key Laboratory for Agrobiotechnology, Key Laboratory of Crop Heterosis and Utilization, Beijing Key Laboratory of Crop Genetic Improvement, China Agricultural University, Beijing, China"],"raw_orcid":"https://orcid.org/0000-0001-5199-1359","affiliations":[{"raw_affiliation_string":"State Key Laboratory for Agrobiotechnology, Key Laboratory of Crop Heterosis and Utilization, Beijing Key Laboratory of Crop Genetic Improvement, China Agricultural University, Beijing, China","institution_ids":["https://openalex.org/I52158045"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087842032","display_name":"Ping Zhu","orcid":"https://orcid.org/0000-0002-4521-7524"},"institutions":[{"id":"https://openalex.org/I200296433","display_name":"Chinese Academy of Medical Sciences & Peking Union Medical College","ror":"https://ror.org/02drdmm93","country_code":"CN","type":"education","lineage":["https://openalex.org/I200296433"]},{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]},{"id":"https://openalex.org/I4210147887","display_name":"Institute of Hematology & Blood Diseases Hospital","ror":"https://ror.org/04n16t016","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210147887"]},{"id":"https://openalex.org/I4210160507","display_name":"Center for Life Sciences","ror":"https://ror.org/05kje8j93","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570","https://openalex.org/I4210160507","https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ping Zhu","raw_affiliation_strings":["BIOPIC, Peking-Tsinghua Center for Life Sciences, College of Life Sciences, Peking University, Beijing, China","State Key Laboratory of Experimental Hematology, Institute of Hematology and Blood Disease Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College, Tianjin, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"BIOPIC, Peking-Tsinghua Center for Life Sciences, College of Life Sciences, Peking University, Beijing, China","institution_ids":["https://openalex.org/I20231570","https://openalex.org/I4210160507"]},{"raw_affiliation_string":"State Key Laboratory of Experimental Hematology, Institute of Hematology and Blood Disease Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College, Tianjin, China","institution_ids":["https://openalex.org/I200296433","https://openalex.org/I4210147887"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011670317","display_name":"Matteo Pellegrini","orcid":"https://orcid.org/0000-0001-9355-9564"},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Matteo Pellegrini","raw_affiliation_strings":["Department of Molecular, Cell and Developmental Biology, University of California, Los Angeles, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular, Cell and Developmental Biology, University of California, Los Angeles, CA, USA","institution_ids":["https://openalex.org/I161318765"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058814283","display_name":"Michael Q. Zhang","orcid":"https://orcid.org/0000-0002-7022-6115"},"institutions":[{"id":"https://openalex.org/I162577319","display_name":"The University of Texas at Dallas","ror":"https://ror.org/049emcs32","country_code":"US","type":"education","lineage":["https://openalex.org/I162577319"]},{"id":"https://openalex.org/I4210155419","display_name":"Center for Systems Biology","ror":"https://ror.org/05r3dyn47","country_code":"US","type":"facility","lineage":["https://openalex.org/I136199984","https://openalex.org/I4210087915","https://openalex.org/I4210155419","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"Michael Q Zhang","raw_affiliation_strings":["Bioinformatics Division and Center for Synthetic & Systems Biology, TNLIST, Tsinghua University, Beijing, China","Department of Molecular and Cell Biology, Center for Systems Biology, The University of Texas at Dallas, Richardson, TX, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Division and Center for Synthetic & Systems Biology, TNLIST, Tsinghua University, Beijing, China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Department of Molecular and Cell Biology, Center for Systems Biology, The University of Texas at Dallas, Richardson, TX, USA","institution_ids":["https://openalex.org/I162577319","https://openalex.org/I4210155419"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101927067","display_name":"Xiangfeng Wang","orcid":"https://orcid.org/0000-0002-6406-5597"},"institutions":[{"id":"https://openalex.org/I52158045","display_name":"China Agricultural University","ror":"https://ror.org/04v3ywz14","country_code":"CN","type":"education","lineage":["https://openalex.org/I52158045"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiangfeng Wang","raw_affiliation_strings":["Beijing Advanced Innovation Center for Food Nutrition and Human health, China Agricultural University, Beijing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Beijing Advanced Innovation Center for Food Nutrition and Human health, China Agricultural University, Beijing, China","institution_ids":["https://openalex.org/I52158045"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5064079305","display_name":"Zhongfu Ni","orcid":"https://orcid.org/0000-0003-4524-7720"},"institutions":[{"id":"https://openalex.org/I52158045","display_name":"China Agricultural University","ror":"https://ror.org/04v3ywz14","country_code":"CN","type":"education","lineage":["https://openalex.org/I52158045"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhongfu Ni","raw_affiliation_strings":["State Key Laboratory for Agrobiotechnology, Key Laboratory of Crop Heterosis and Utilization, Beijing Key Laboratory of Crop Genetic Improvement, China Agricultural University, Beijing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"State Key Laboratory for Agrobiotechnology, Key Laboratory of Crop Heterosis and Utilization, Beijing Key Laboratory of Crop Genetic Improvement, China Agricultural University, Beijing, China","institution_ids":["https://openalex.org/I52158045"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5043106360"],"corresponding_institution_ids":["https://openalex.org/I52158045"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":4.6469,"has_fulltext":false,"cited_by_count":226,"citation_normalized_percentile":{"value":0.96059062,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"34","issue":"3","first_page":"381","last_page":"387"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10269","display_name":"Epigenetics and DNA Methylation","score":0.5559999942779541,"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/T10269","display_name":"Epigenetics and DNA Methylation","score":0.5559999942779541,"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/T10184","display_name":"Plant Molecular Biology Research","score":0.11159999668598175,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11928","display_name":"Genetic Syndromes and Imprinting","score":0.07680000364780426,"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/bisulfite","display_name":"Bisulfite","score":0.6886076927185059},{"id":"https://openalex.org/keywords/bisulfite-sequencing","display_name":"Bisulfite sequencing","score":0.6790466904640198},{"id":"https://openalex.org/keywords/allele","display_name":"Allele","score":0.5906546711921692},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5732163190841675},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.5552136301994324},{"id":"https://openalex.org/keywords/methylation","display_name":"Methylation","score":0.5395604372024536},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.49553120136260986},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.48749613761901855},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.38156697154045105},{"id":"https://openalex.org/keywords/dna-methylation","display_name":"DNA methylation","score":0.3493731617927551},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.17875364422798157},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.15464147925376892}],"concepts":[{"id":"https://openalex.org/C2775959680","wikidata":"https://www.wikidata.org/wiki/Q2718222","display_name":"Bisulfite","level":5,"score":0.6886076927185059},{"id":"https://openalex.org/C189235521","wikidata":"https://www.wikidata.org/wiki/Q4087270","display_name":"Bisulfite sequencing","level":5,"score":0.6790466904640198},{"id":"https://openalex.org/C180754005","wikidata":"https://www.wikidata.org/wiki/Q80726","display_name":"Allele","level":3,"score":0.5906546711921692},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5732163190841675},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5552136301994324},{"id":"https://openalex.org/C33288867","wikidata":"https://www.wikidata.org/wiki/Q518328","display_name":"Methylation","level":3,"score":0.5395604372024536},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.49553120136260986},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.48749613761901855},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.38156697154045105},{"id":"https://openalex.org/C190727270","wikidata":"https://www.wikidata.org/wiki/Q874745","display_name":"DNA methylation","level":4,"score":0.3493731617927551},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.17875364422798157},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.15464147925376892},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006579","descriptor_name":"Heterozygote","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006579","descriptor_name":"Heterozygote","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006579","descriptor_name":"Heterozygote","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013447","descriptor_name":"Sulfites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013447","descriptor_name":"Sulfites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013447","descriptor_name":"Sulfites","qualifier_ui":null,"qualifier_name":null,"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":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D056890","descriptor_name":"Eukaryota","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D056890","descriptor_name":"Eukaryota","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D056890","descriptor_name":"Eukaryota","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btx595","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx595","pdf_url":null,"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:28968643","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28968643","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:europepmc.org:5442287","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6454434","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"},{"id":"pmh:oai:escholarship.org:ark:/13030/qt81q3t37w","is_oa":false,"landing_page_url":"https://escholarship.org/uc/item/81q3t37w","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, vol 34, iss 3","raw_type":"article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3951590577","display_name":null,"funder_award_id":"R01 GM095656","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G5329929401","display_name":null,"funder_award_id":"31701415 and 91435204","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337367","display_name":"Division of Materials Research","ror":"https://ror.org/01pc7k308"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":53,"referenced_works":["https://openalex.org/W1506411903","https://openalex.org/W1584866165","https://openalex.org/W1707232060","https://openalex.org/W1950444226","https://openalex.org/W1966315727","https://openalex.org/W1979892065","https://openalex.org/W1984891757","https://openalex.org/W1985604190","https://openalex.org/W1987557775","https://openalex.org/W1990021188","https://openalex.org/W1999335116","https://openalex.org/W2000225203","https://openalex.org/W2008420899","https://openalex.org/W2026116032","https://openalex.org/W2026343134","https://openalex.org/W2033243734","https://openalex.org/W2046615642","https://openalex.org/W2049907774","https://openalex.org/W2051465150","https://openalex.org/W2059381824","https://openalex.org/W2074746593","https://openalex.org/W2076154138","https://openalex.org/W2097324844","https://openalex.org/W2098855821","https://openalex.org/W2104111114","https://openalex.org/W2106340111","https://openalex.org/W2106889224","https://openalex.org/W2108234281","https://openalex.org/W2117675660","https://openalex.org/W2118750355","https://openalex.org/W2123032740","https://openalex.org/W2123901533","https://openalex.org/W2131374955","https://openalex.org/W2134075494","https://openalex.org/W2136186510","https://openalex.org/W2141611532","https://openalex.org/W2145931763","https://openalex.org/W2149206894","https://openalex.org/W2150194502","https://openalex.org/W2155471840","https://openalex.org/W2163327652","https://openalex.org/W2194924931","https://openalex.org/W2342210027","https://openalex.org/W2462490406","https://openalex.org/W2503430325","https://openalex.org/W2513690197","https://openalex.org/W2529555647","https://openalex.org/W2540248542","https://openalex.org/W2550429357","https://openalex.org/W2626966859","https://openalex.org/W6637236527","https://openalex.org/W6724763504","https://openalex.org/W6728392739"],"related_works":["https://openalex.org/W2619376220","https://openalex.org/W2064302386","https://openalex.org/W2805216920","https://openalex.org/W2134949149","https://openalex.org/W2035236309","https://openalex.org/W2895945844","https://openalex.org/W1964177829","https://openalex.org/W2075918583","https://openalex.org/W2911544435","https://openalex.org/W1991992597"],"abstract_inverted_index":{"Motivation:":[0],"DNA":[1,76,168],"methylation":[2,77,83],"is":[3,212],"important":[4],"for":[5,74,129,196],"gene":[6],"silencing":[7],"and":[8,13,48,80,114,135,178,187,192,201,204,207],"imprinting":[9],"in":[10,17,111,132,149],"both":[11],"plants":[12],"animals.":[14],"Recent":[15],"advances":[16],"bisulfite":[18],"sequencing":[19],"allow":[20],"detection":[21],"of":[22,55,99,101],"single":[23],"nucleotide":[24],"variations":[25],"(SNVs)":[26],"achieving":[27],"high":[28],"sensitivity,":[29],"but":[30],"accurately":[31],"identifying":[32],"heterozygous":[33,56],"SNVs":[34],"from":[35,59],"partially":[36],"C-to-T":[37],"converted":[38],"sequences":[39],"remains":[40],"challenging.":[41],"Results:":[42],"We":[43],"designed":[44],"two":[45],"methods,":[46],"BayesWC":[47],"BinomWC,":[49],"that":[50,96],"substantially":[51],"improved":[52],"the":[53,82,120,162,175,184],"precision":[54],"SNV":[57,69],"calls":[58],"\u223c80%":[60],"to":[61,90,116,138,145,166,182],"99%":[62],"while":[63],"retaining":[64],"comparable":[65],"recalls.":[66],"With":[67],"these":[68],"calls,":[70],"we":[71,94,157],"provided":[72],"functions":[73],"allele-specific":[75],"(ASM)":[78],"analysis":[79,89,131],"visualizing":[81],"status":[84],"on":[85],"reads.":[86],"Applying":[87],"ASM":[88],"a":[91,152],"previous":[92],"dataset,":[93],"found":[95],"an":[97],"average":[98],"1.5%":[100],"investigated":[102],"regions":[103,142],"showed":[104],"allelic":[105],"methylation,":[106],"which":[107],"were":[108],"significantly":[109],"enriched":[110],"transposon":[112],"elements":[113],"likely":[115],"be":[117,194],"shared":[118],"by":[119],"same":[121],"cell-type.":[122],"A":[123],"dynamic":[124],"fragment":[125],"strategy":[126],"was":[127,136],"utilized":[128],"DMR":[130],"low-coverage":[133],"data":[134,190,222],"able":[137],"find":[139],"differentially":[140],"methylated":[141],"(DMRs)":[143],"related":[144],"key":[146],"genes":[147],"involved":[148],"tumorigenesis":[150],"using":[151],"public":[153],"cancer":[154],"dataset.":[155],"Finally,":[156],"integrated":[158],"40":[159],"applications":[160],"into":[161],"software":[163,211],"package":[164,171],"CGmapTools":[165,210],"analyze":[167],"methylomes.":[169],"This":[170],"uses":[172],"CGmap":[173],"as":[174],"format":[176],"interface,":[177],"designs":[179],"binary":[180],"formats":[181],"reduce":[183],"file":[185],"size":[186],"support":[188],"fast":[189],"retrieval,":[191],"can":[193],"applied":[195],"context-wise,":[197],"gene-wise,":[198],"bin-wise,":[199],"region-wise":[200],"sample-wise":[202],"analyses":[203],"visualizations.":[205],"Availability":[206],"implementation:":[208],"The":[209],"freely":[213],"available":[214,224],"at":[215,225],"https://cgmaptools.github.io/.":[216],"Contact:":[217],"guoweilong@cau.edu.cn.":[218],"Supplementary":[219,221],"information:":[220],"are":[223],"Bioinformatics":[226],"online.":[227]},"counts_by_year":[{"year":2026,"cited_by_count":13},{"year":2025,"cited_by_count":27},{"year":2024,"cited_by_count":43},{"year":2023,"cited_by_count":36},{"year":2022,"cited_by_count":23},{"year":2021,"cited_by_count":37},{"year":2020,"cited_by_count":21},{"year":2019,"cited_by_count":15},{"year":2018,"cited_by_count":10}],"updated_date":"2026-08-18T07:49:30.821534","created_date":"2025-10-10T00:00:00"}