{"id":"https://openalex.org/W2991039337","doi":"https://doi.org/10.1093/bioinformatics/btz888","title":"Organoid model of mammographic density displays a higher frequency of aberrant colony formations with radiation exposure","display_name":"Organoid model of mammographic density displays a higher frequency of aberrant colony formations with radiation exposure","publication_year":2019,"publication_date":"2019-11-26","ids":{"openalex":"https://openalex.org/W2991039337","doi":"https://doi.org/10.1093/bioinformatics/btz888","mag":"2991039337","pmid":"https://pubmed.ncbi.nlm.nih.gov/31778145"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz888","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz888","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/7/1989/33027442/btz888.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/36/7/1989/33027442/btz888.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5055507176","display_name":"Qingsu Cheng","orcid":"https://orcid.org/0000-0001-6127-4046"},"institutions":[{"id":"https://openalex.org/I134113660","display_name":"University of Nevada, Reno","ror":"https://ror.org/01keh0577","country_code":"US","type":"education","lineage":["https://openalex.org/I134113660"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Qingsu Cheng","raw_affiliation_strings":["Department of Electrical and Biomedical Engineering, University of Nevada , Reno, NV 89557-0260, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical and Biomedical Engineering, University of Nevada , Reno, NV 89557-0260, USA","institution_ids":["https://openalex.org/I134113660"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5103044353","display_name":"Bahram Parvin","orcid":null},"institutions":[{"id":"https://openalex.org/I134113660","display_name":"University of Nevada, Reno","ror":"https://ror.org/01keh0577","country_code":"US","type":"education","lineage":["https://openalex.org/I134113660"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Bahram Parvin","raw_affiliation_strings":["Department of Electrical and Biomedical Engineering, University of Nevada , Reno, NV 89557-0260, USA"],"raw_orcid":"https://orcid.org/0000-0002-2732-1643","affiliations":[{"raw_affiliation_string":"Department of Electrical and Biomedical Engineering, University of Nevada , Reno, NV 89557-0260, USA","institution_ids":["https://openalex.org/I134113660"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5103044353"],"corresponding_institution_ids":["https://openalex.org/I134113660"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.1545,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.48353329,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"36","issue":"7","first_page":"1989","last_page":"1993"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10183","display_name":"Breast Cancer Treatment Studies","score":0.2296999990940094,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10183","display_name":"Breast Cancer Treatment Studies","score":0.2296999990940094,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T11359","display_name":"Effects of Radiation Exposure","score":0.21940000355243683,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11361","display_name":"Digital Radiography and Breast Imaging","score":0.2013999968767166,"subfield":{"id":"https://openalex.org/subfields/2740","display_name":"Pulmonary and Respiratory Medicine"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/mammographic-density","display_name":"MAMMOGRAPHIC DENSITY","score":0.5919913649559021},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.47461047768592834},{"id":"https://openalex.org/keywords/radiation-exposure","display_name":"Radiation exposure","score":0.4301459491252899},{"id":"https://openalex.org/keywords/organoid","display_name":"Organoid","score":0.428283154964447},{"id":"https://openalex.org/keywords/dysplasia","display_name":"Dysplasia","score":0.4106789529323578},{"id":"https://openalex.org/keywords/cancer-research","display_name":"Cancer research","score":0.37402522563934326},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.33105725049972534},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.24658137559890747},{"id":"https://openalex.org/keywords/mammography","display_name":"Mammography","score":0.21870017051696777},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.21695280075073242},{"id":"https://openalex.org/keywords/breast-cancer","display_name":"Breast cancer","score":0.1977965235710144},{"id":"https://openalex.org/keywords/nuclear-medicine","display_name":"Nuclear medicine","score":0.11788463592529297},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.10927265882492065}],"concepts":[{"id":"https://openalex.org/C2909213482","wikidata":"https://www.wikidata.org/wiki/Q17011492","display_name":"MAMMOGRAPHIC DENSITY","level":5,"score":0.5919913649559021},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.47461047768592834},{"id":"https://openalex.org/C2779925993","wikidata":"https://www.wikidata.org/wiki/Q336938","display_name":"Radiation exposure","level":2,"score":0.4301459491252899},{"id":"https://openalex.org/C31695470","wikidata":"https://www.wikidata.org/wiki/Q11293125","display_name":"Organoid","level":2,"score":0.428283154964447},{"id":"https://openalex.org/C2775894508","wikidata":"https://www.wikidata.org/wiki/Q1128996","display_name":"Dysplasia","level":2,"score":0.4106789529323578},{"id":"https://openalex.org/C502942594","wikidata":"https://www.wikidata.org/wiki/Q3421914","display_name":"Cancer research","level":1,"score":0.37402522563934326},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.33105725049972534},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.24658137559890747},{"id":"https://openalex.org/C2780472235","wikidata":"https://www.wikidata.org/wiki/Q324634","display_name":"Mammography","level":4,"score":0.21870017051696777},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.21695280075073242},{"id":"https://openalex.org/C530470458","wikidata":"https://www.wikidata.org/wiki/Q128581","display_name":"Breast cancer","level":3,"score":0.1977965235710144},{"id":"https://openalex.org/C2989005","wikidata":"https://www.wikidata.org/wiki/Q214963","display_name":"Nuclear medicine","level":1,"score":0.11788463592529297},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.10927265882492065}],"mesh":[{"descriptor_ui":"D000069079","descriptor_name":"Radiation Exposure","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069079","descriptor_name":"Radiation Exposure","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069079","descriptor_name":"Radiation Exposure","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069079","descriptor_name":"Radiation Exposure","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000071060","descriptor_name":"Breast Density","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000071060","descriptor_name":"Breast Density","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000071060","descriptor_name":"Breast Density","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000071060","descriptor_name":"Breast Density","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004847","descriptor_name":"Epithelial Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004847","descriptor_name":"Epithelial Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004847","descriptor_name":"Epithelial Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004847","descriptor_name":"Epithelial Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","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":"D009940","descriptor_name":"Organoids","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009940","descriptor_name":"Organoids","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009940","descriptor_name":"Organoids","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009940","descriptor_name":"Organoids","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btz888","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz888","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/7/1989/33027442/btz888.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:31778145","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31778145","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:pubmedcentral.nih.gov:7141857","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7141857","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btz888","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz888","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/7/1989/33027442/btz888.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":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.75}],"awards":[{"id":"https://openalex.org/G143136426","display_name":null,"funder_award_id":"80NSSC18K1464","funder_id":"https://openalex.org/F4320306101","funder_display_name":"National Aeronautics and Space Administration"},{"id":"https://openalex.org/G5503348322","display_name":null,"funder_award_id":"R15CA235430","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320306101","display_name":"National Aeronautics and Space Administration","ror":"https://ror.org/027ka1x80"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":21,"referenced_works":["https://openalex.org/W177854970","https://openalex.org/W1548779692","https://openalex.org/W1760351431","https://openalex.org/W1967293289","https://openalex.org/W1967332273","https://openalex.org/W1995388182","https://openalex.org/W2007040134","https://openalex.org/W2054922344","https://openalex.org/W2058512035","https://openalex.org/W2075124887","https://openalex.org/W2097968887","https://openalex.org/W2103861086","https://openalex.org/W2111053959","https://openalex.org/W2127362646","https://openalex.org/W2137839901","https://openalex.org/W2146017443","https://openalex.org/W2146037965","https://openalex.org/W2151266081","https://openalex.org/W2307244832","https://openalex.org/W2330411228","https://openalex.org/W2470164261"],"related_works":["https://openalex.org/W4386439204","https://openalex.org/W3033121461","https://openalex.org/W3094248195","https://openalex.org/W2811397904","https://openalex.org/W3047600752","https://openalex.org/W3047590429","https://openalex.org/W4307092668","https://openalex.org/W3048825385","https://openalex.org/W4388777186","https://openalex.org/W4281715121"],"abstract_inverted_index":{"MOTIVATION:":[0],"Aberrant":[1],"three-dimensional":[2],"(3D)":[3],"colony":[4,70,110,136,229],"organization":[5],"of":[6,15,18,28,43,68,76,82,108,119,134,150,163,189,195,213,227],"premalignant":[7],"human":[8],"mammary":[9],"epithelial":[10],"cells":[11],"(HMECs)":[12],"is":[13,85,153,166],"one":[14],"the":[16,26,29,48,66,73,83,93,117,132,147,190,225],"indices":[17],"dysplasia.":[19],"An":[20],"experiment":[21],"has":[22,34],"been":[23,35],"designed":[24],"where":[25],"stiffness":[27,77,140,188],"microenvironment,":[30],"in":[31,171,224],"3D":[32,109],"culture,":[33],"set":[36],"at":[37,237],"either":[38],"low":[39],"or":[40],"high":[41,100,114,120,175],"level":[42],"mammographic":[44],"density":[45],"(MD)":[46],"and":[47,78,122,141,210],"organoid":[49],"models":[50],"are":[51,144,235],"exposed":[52,102],"to":[53,64,86,103,168,219],"50":[54],"cGy":[55],"X-ray":[56,79,104,123,142],"radiation.":[57,105],"This":[58],"study":[59,199],"utilizes":[60],"published":[61],"bioinformatics":[62],"tools":[63],"quantify":[65],"frequency":[67,133,226],"aberrant":[69,135,228],"formations":[71,111],"by":[72,157],"combined":[74],"stressors":[75,152],"exposure.":[80],"One":[81],"goals":[84],"develop":[87],"a":[88,174,205],"quantitative":[89],"assay":[90],"for":[91],"evaluating":[92],"risk":[94],"factors":[95],"associated":[96],"with":[97,99,173],"women":[98],"MD":[101,176],"RESULTS:":[106],"Analysis":[107],"indicate":[112],"that":[113,186],"stiffness,":[115],"within":[116],"range":[118],"MD,":[121],"radiation":[124,143],"have":[125],"an":[126],"approximately":[127],"additive":[128,148],"effect":[129,149],"on":[130],"increasing":[131],"formations.":[137],"Since":[138],"both":[139],"DNA-damaging":[145],"stressors,":[146],"these":[151],"also":[154,192],"independently":[155],"validated":[156],"profiling":[158],"activin":[159,164],"A-secreted":[160],"protein.":[161],"Secretion":[162],"A":[165],"known":[167],"be":[169],"higher":[170],"tissues":[172],"as":[177,179],"well":[178],"tumor":[180],"cells.":[181],"In":[182],"addition,":[183],"we":[184],"show":[185],"increased":[187],"microenvironment":[191],"induces":[193],"phosphorylation":[194],"\u03b3H2AX-positive":[196],"foci.":[197],"The":[198],"uses":[200],"two":[201],"HMECs":[202],"derived":[203],"from":[204],"diseased":[206],"tissue":[207,216],"(e.g.":[208,217],"MCF10A)":[209],"reduction":[211],"mammoplasty":[212],"normal":[214],"breast":[215],"184A1)":[218],"further":[220],"demonstrate":[221],"similar":[222],"traits":[223],"organization.":[230],"SUPPLEMENTARY":[231],"INFORMATION:":[232],"Supplementary":[233],"data":[234],"available":[236],"Bioinformatics":[238],"online.":[239]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
