{"id":"https://openalex.org/W2601546323","doi":"https://doi.org/10.11588/heidok.00014910","title":"Integrative and Comparative Analysis of Retinoblastoma and Osteosarcoma","display_name":"Integrative and Comparative Analysis of Retinoblastoma and Osteosarcoma","publication_year":2013,"publication_date":"2013-01-01","ids":{"openalex":"https://openalex.org/W2601546323","doi":"https://doi.org/10.11588/heidok.00014910","mag":"2601546323"},"language":"en","primary_location":{"id":"pmh:oai:archiv.ub.uni-heidelberg.de:14910","is_oa":true,"landing_page_url":null,"pdf_url":"http://archiv.ub.uni-heidelberg.de/volltextserver/14910/1/Nicolas-Delhomme_Integrative-Analysis-of-Retinoblastoma.pdf","source":{"id":"https://openalex.org/S4306402333","display_name":"heiDOK (Heidelberg University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I223822909","host_organization_name":"Heidelberg University","host_organization_lineage":["https://openalex.org/I223822909"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/doctoralThesis"},"type":"dissertation","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://archiv.ub.uni-heidelberg.de/volltextserver/14910/1/Nicolas-Delhomme_Integrative-Analysis-of-Retinoblastoma.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5041667286","display_name":"Nicolas Delhomme","orcid":"https://orcid.org/0000-0002-3053-0796"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Delhomme, Nicolas","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":["https://openalex.org/A5041667286"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.30058302,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10583","display_name":"Cancer-related Molecular Pathways","score":0.9883999824523926,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T10583","display_name":"Cancer-related Molecular Pathways","score":0.9883999824523926,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9825000166893005,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9781000018119812,"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/encode","display_name":"ENCODE","score":0.7008303999900818},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.664690375328064},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.48162001371383667},{"id":"https://openalex.org/keywords/generalization","display_name":"Generalization","score":0.4620039165019989},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3490901291370392},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.18226245045661926},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.12730705738067627},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.10269930958747864},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.10131010413169861}],"concepts":[{"id":"https://openalex.org/C66746571","wikidata":"https://www.wikidata.org/wiki/Q1134833","display_name":"ENCODE","level":3,"score":0.7008303999900818},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.664690375328064},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.48162001371383667},{"id":"https://openalex.org/C177148314","wikidata":"https://www.wikidata.org/wiki/Q170084","display_name":"Generalization","level":2,"score":0.4620039165019989},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3490901291370392},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.18226245045661926},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.12730705738067627},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10269930958747864},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.10131010413169861},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"pmh:oai:archiv.ub.uni-heidelberg.de:14910","is_oa":true,"landing_page_url":null,"pdf_url":"http://archiv.ub.uni-heidelberg.de/volltextserver/14910/1/Nicolas-Delhomme_Integrative-Analysis-of-Retinoblastoma.pdf","source":{"id":"https://openalex.org/S4306402333","display_name":"heiDOK (Heidelberg University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I223822909","host_organization_name":"Heidelberg University","host_organization_lineage":["https://openalex.org/I223822909"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/doctoralThesis"},{"id":"doi:10.11588/heidok.00014910","is_oa":true,"landing_page_url":"https://doi.org/10.11588/heidok.00014910","pdf_url":null,"source":{"id":"https://openalex.org/S7407051545","display_name":"University Library Heidelberg","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":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"},{"id":"mag:2601546323","is_oa":false,"landing_page_url":"http://archiv.ub.uni-heidelberg.de/volltextserver/14910/index.html","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":null}],"best_oa_location":{"id":"pmh:oai:archiv.ub.uni-heidelberg.de:14910","is_oa":true,"landing_page_url":null,"pdf_url":"http://archiv.ub.uni-heidelberg.de/volltextserver/14910/1/Nicolas-Delhomme_Integrative-Analysis-of-Retinoblastoma.pdf","source":{"id":"https://openalex.org/S4306402333","display_name":"heiDOK (Heidelberg University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I223822909","host_organization_name":"Heidelberg University","host_organization_lineage":["https://openalex.org/I223822909"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/doctoralThesis"},"sustainable_development_goals":[{"display_name":"Partnerships for the goals","id":"https://metadata.un.org/sdg/17","score":0.4300000071525574}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2601546323.pdf"},"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2808743742","https://openalex.org/W116750450","https://openalex.org/W261235626","https://openalex.org/W2000685050","https://openalex.org/W2397984754","https://openalex.org/W2147307155","https://openalex.org/W2187547488","https://openalex.org/W2073755222","https://openalex.org/W23456425","https://openalex.org/W3203953182","https://openalex.org/W1980216321","https://openalex.org/W2100857059","https://openalex.org/W2965181327","https://openalex.org/W2120974705","https://openalex.org/W2773435160","https://openalex.org/W2793237620","https://openalex.org/W2184155158","https://openalex.org/W3039490610","https://openalex.org/W2120147434","https://openalex.org/W2008348568"],"abstract_inverted_index":{"In":[0,136,231],"the":[1,8,20,29,33,42,51,56,68,92,99,143,153,156,164,188,221,248,259,269,290,295,307,313,321,364,378,394,419,422,435,442,449,453,462,488,528,532,536,543,590,629],"last":[2],"one":[3,174],"and":[4,59,179,210,219,223,275,304,326,347,351,410,429,433,496,504,516,538,557,570,576,583],"a":[5,74,133,149,244,279,298,310,384,412,458,598],"half":[6],"decades,":[7],"generalization":[9],"of":[10,22,25,32,41,53,145,155,163,176,226,229,253,262,300,312,366,398,416,452,461,490,494,499,512,535,549,553,563,601,631],"high":[11,168,450,533],"throughput":[12,169],"methods":[13,121,212,303,338,578],"in":[14,55,67,132,258,320,391,476,502,521,568,572],"molecular":[15],"biology":[16,147],"has":[17],"led":[18,139],"to":[19,101,105,141,151,186,207,238,246,281,288,354,387,405,446,473,478,560,589,614,621,635],"generation":[21],"vast":[23],"amounts":[24],"datasets":[26,350,397],"that":[27,122,127,213,380,465,469,547,604],"unraveled":[28],"unfathomed":[30],"complexity":[31,72,154],"cell":[34,76,157],"regulatory":[35,158,177,491],"mechanisms.":[36],"The":[37,335,524],"recently":[38],"published":[39,165],"results":[40,257],"ENCODE":[43],"project":[44],"(ENCODE
\\nProject":[45],"Consortium":[46],"et":[47],"al.,":[48],"2012)":[49],"demonstrated":[50,483,580,628],"extend":[52],"these":[54,266,400,407],"human":[57,93,272],"genome":[58,273],"certainly":[60],"more":[61],"regulation":[62,518],"mechanisms":[63],"will":[64],"be":[65,89,130,182,619],"discovered":[66],"future.":[69],"Already,":[70],"this":[71,240,522],"within":[73,198,418],"single":[75],"-":[77,87],"without":[78],"taking":[79],"into":[80],"account":[81],"cell-cell":[82],"interaction":[83],"or":[84,108],"micro-environment":[85,556],"influences":[86],"cannot":[88,181],"abstracted":[90],"by":[91,377,585],"mind.":[94],"However,":[95],"understanding":[96],"it":[97,138,482],"is":[98,112,201],"key":[100],"devise":[102],"adapted":[103],"treatments":[104],"genetic":[106],"diseases":[107],"disorders,":[109],"among":[110],"which":[111,285],"cancer.
\\nIn":[113],"mathematics,":[114],"such":[115,185,199],"complex":[116],"problems":[117],"are":[118,471,611],"addressed":[119],"using":[120,167,360],"reduce":[123],"their":[124,426,554,581],"complexity,":[125],"so":[126],"they":[128,596,610,627],"can":[129,618],"modeled":[131],"solvable":[134],"manner.":[135],"biology,":[137],"researchers":[140],"develop":[142,208,388],"concept":[144],"systems":[146],"as":[148,184,265,508,510,609],"mean":[150],"abstract":[152],"network.":[159],"To":[160],"date,":[161],"most":[162],"studies":[166,200],"technologies":[170],"only":[171],"focus":[172],"on":[173,332,343,371,468,527],"kind":[175],"mechanism":[178],"hence":[180],"used":[183,353],"investigate":[187],"interactions":[189],"between":[190],"these.":[191],"Moreover,":[192,595],"distinguishing":[193],"causative":[194],"from":[195,268],"confounding":[196,216],"factors":[197,217],"difficult.
\\n
\\nThese":[202],"were":[203,236,318,329,340,402,431,519],"my":[204],"original":[205],"motivations":[206],"analytical":[209,337],"statistical":[211,302,577],"control":[214],"for":[215,294,306,437],"effects":[218],"allow":[220],"integrative":[222,296,314,443],"comparative":[224,308,525],"analysis":[225,315,444,526,616],"different":[227,234,564],"kinds":[228],"datasets.":[230,334],"fine,":[232],"three":[233],"tools":[235,328,575],"developed":[237,291,336,423,574],"achieve":[239],"goal.":[241],"First,":[242,359],"\"customCDF\":":[243],"tool":[245,280],"redefine":[247],"Custom":[249],"Definition":[250],"File":[251],"(CDF)":[252],"Affymetrix":[254],"GeneChips.":[255],"It":[256],"increased":[260],"sensitivity":[261,428],"downstream":[263],"analyses":[264],"bene
\\nfit":[267],"constantly":[270],"evolving":[271],"reference":[274],"annotations.":[276],"Second,":[277],"\"aSim\":":[278],"simulate":[282],"microarray":[283,480,615],"data,":[284,626],"was":[286,373],"required":[287],"benchmark":[289],"algorithms.":[292],"Third,":[293],"analysis,":[297,309],"set":[299,434],"combined":[301],"finally":[305],"modification":[311],"approach.":[316],"These":[317],"bundled":[319],"\"crossChip\"":[322],"R":[323],"package.
\\nThe":[324],"\"customCDF\"":[325],"\"aSim\"":[327,344],"first":[330,341],"validated":[331,342],"independant":[333],"(\"crossChip\")":[339],"simulated":[345],"data":[346],"publicly":[348],"available":[349],"then":[352],"answer":[355],"two":[356,361,591],"biological":[357,592],"questions.":[358],"retinoblastoma":[362,381,447,537,569],"datasets,":[363,421],"effect":[365],"genomic":[367],"copy":[368],"number":[369,415,600],"variations":[370],"gene-expression":[372],"investigated.":[374],"Then,":[375],"motivated":[376],"fact":[379],"patients":[382],"have":[383,579],"higher":[385,427],"chance":[386],"osteosarcoma":[389,539],"later":[390,459],"life":[392],"than":[393],"average":[395],"population,":[396],"both":[399],"tumors":[401,408],"comparatively":[403],"analyzed":[404],"assess":[406],"similarities":[409],"differences.
\\n
\\nDespite":[411],"rather":[413],"limited":[414,613],"samples":[417],"selected":[420],"approaches":[424,634],"with":[425],"sensibility":[430],"successful":[432],"ground":[436],"larger":[438],"scale":[439],"analyses.":[440],"Indeed,":[441],"applied":[445,620],"revealed":[448,531],"importance":[451],"chromosome":[454,470],"6":[455],"gain":[456],"at":[457,486,542],"stage":[460],"disease,":[463],"indicating":[464],"many":[466],"genes":[467],"beneficial":[472],"cancerogenesis.":[474],"
\\nMoreover,":[475],"comparison":[477],"standard":[479],"analyses,":[481],"its":[484],"efficacy":[485],"detecting":[487],"interplay":[489],"mechanisms:":[492],"examples":[493,511],"positive":[495],"negative":[497],"compensation":[498],"gene":[500],"expression":[501],"lost":[503],"gained":[505],"regions,":[506],"respectively,":[507],"well":[509],"antisense":[513],"transcription,":[514],"pseudogene":[515],"snRNAs":[517],"identified":[520],"dataset.":[523],"other":[529],"hand":[530],"similarity":[534],"tumors,":[540],"while":[541],"same":[544],"time":[545],"showing":[546],"either":[548],"them":[550],"take":[551],"advantage":[552],"distinct":[555],"consequently":[558],"appear":[559],"make":[561],"use":[562],"signaling":[565],"pathways,":[566],"PKC/calmodulin":[567],"GPCR/RAS":[571],"osteosarcoma.
\\nThe":[573],"validity":[582],"utility":[584],"giving":[586],"sensible":[587],"answers":[588],"questions":[593],"addressed.":[594],"generated":[597,625],"large":[599],"interesting":[602],"hypotheses":[603],"need":[605],"further":[606],"investigations.":[607],"And":[608],"not":[612],"but":[617],"analyze":[622],"any":[623],"high-throughput":[624],"usefulness":[630],"\"systems":[632],"biology\"":[633],"study":[636],"cancerogenesis.
\\n":[637]},"counts_by_year":[],"updated_date":"2025-11-06T06:51:31.235846","created_date":"2025-10-10T00:00:00"}