[{"data":1,"prerenderedAt":-1},["ShallowReactive",2],{"detail-sidebar-cat-0-en-105":3,"doc-seo-361628-105":59,"doc-detail-361628-en":131},{"code":4,"msg":5,"data":6},0,"success",[7,13,18,23,28,33,38,43,48,51,55],{"id":8,"doc_module":4,"doc_module_name":9,"category_name":10,"show_sort_weight":11,"slug":12},1,"Document","Story & Novel",90,"story-novel",{"id":14,"doc_module":4,"doc_module_name":9,"category_name":15,"show_sort_weight":16,"slug":17},2,"Literature",80,"literature",{"id":19,"doc_module":4,"doc_module_name":9,"category_name":20,"show_sort_weight":21,"slug":22},4,"Exam",70,"exam",{"id":24,"doc_module":4,"doc_module_name":9,"category_name":25,"show_sort_weight":26,"slug":27},5,"Comic",60,"comic",{"id":29,"doc_module":4,"doc_module_name":9,"category_name":30,"show_sort_weight":31,"slug":32},6,"Technology",50,"technology",{"id":34,"doc_module":4,"doc_module_name":9,"category_name":35,"show_sort_weight":36,"slug":37},7,"Healthcare",40,"healthcare",{"id":39,"doc_module":4,"doc_module_name":9,"category_name":40,"show_sort_weight":41,"slug":42},8,"Research & Report",30,"research-report",{"id":44,"doc_module":4,"doc_module_name":9,"category_name":45,"show_sort_weight":46,"slug":47},9,"Religion & Spirituality",20,"religion-spirituality",{"id":46,"doc_module":4,"doc_module_name":9,"category_name":49,"show_sort_weight":46,"slug":50},"World Cup","world-cup",{"id":52,"doc_module":4,"doc_module_name":9,"category_name":53,"show_sort_weight":52,"slug":54},10,"Lifestyle","lifestyle",{"id":56,"doc_module":4,"doc_module_name":9,"category_name":57,"show_sort_weight":24,"slug":58},19,"General","general",{"code":4,"msg":60,"data":61},"ok",{"site_id":62,"language":63,"slug":64,"title":65,"keywords":66,"description":67,"schema_data":68,"social_meta":124,"head_meta":126,"extra_data":128,"updated_unix":130},105,"en","a-dependency-map-enhanced-with-next-generation-3d-cancer-models-open-access","A dependency map enhanced with next-generation 3D cancer models - Open access","","Despite advances in precision oncology, effective personalized treatments remain limited for many patients. The Cancer Dependency Map (DepMap) accelerates the field by identifying cancer vulnerabilities across diverse preclinical models, but traditional cell lines underrepresent cancer subtypes and are affected by culture conditions. This work performs 147 genome-scale CRISPR screens with multi-omic profiling of next-generation 3D cancer models (organoids and spheroids) across 10 cancer types, expanding DepMap coverage and revealing new biomarker-linked dependencies.",{"@graph":69,"@context":123},[70,84,106],{"@type":71,"itemListElement":72},"BreadcrumbList",[73,77,79,82],{"item":74,"name":75,"@type":76,"position":8},"https://docshare.wps.com","Home","ListItem",{"item":78,"name":9,"@type":76,"position":14},"https://docshare.wps.com/document/",{"item":80,"name":35,"@type":76,"position":81},"https://docshare.wps.com/document/healthcare/",3,{"item":83,"name":65,"@type":76,"position":19},"https://docshare.wps.com/document/a-dependency-map-enhanced-with-next-generation-3d-cancer-models-open-access/361628/",{"url":83,"name":65,"@type":85,"image":86,"author":91,"headline":65,"publisher":94,"fileFormat":97,"inLanguage":63,"description":67,"dateModified":98,"datePublished":99,"encodingFormat":97,"isAccessibleForFree":100,"interactionStatistic":101},"DigitalDocument",{"url":87,"@type":88,"width":89,"height":90},"https://docshare.wps.com/thumbnails/a-dependency-map-enhanced-with-next-generation-3d-cancer-models-open-access/361628.png","ImageObject",300,407,{"name":92,"@type":93},"MrHarris58","Person",{"url":74,"name":95,"@type":96},"DocShare","Organization","application/pdf","2026-10-24","2026-09-23",true,{"@type":102,"interactionType":103,"userInteractionCount":105},"InteractionCounter",{"@type":104},"ViewAction",11,{"@type":107,"mainEntity":108},"FAQPage",[109,115,119],{"name":110,"@type":111,"acceptedAnswer":112},"What limitation in traditional cell lines affects cancer dependency mapping?","Question",{"text":113,"@type":114},"Traditional cell lines insufficiently represent cancer subtypes and are influenced by culture conditions, which can alter perturbation responses.","Answer",{"name":116,"@type":111,"acceptedAnswer":117},"What does this study add to the DepMap resource?",{"text":118,"@type":114},"It expands DepMap using 147 genome-scale CRISPR screens and multi-omic characterizations of next-generation 3D models, enabling coverage of new genomic and molecular subtypes and identification of new biomarker-associated vulnerabilities.",{"name":120,"@type":111,"acceptedAnswer":121},"How were NextGen models validated in this work?",{"text":122,"@type":114},"NextGen models were profiled with WGS and RNA-seq, and WGS confirmed expected recurrent genomic alterations while also capturing additional mutations not represented in traditional models.","https://schema.org",{"og:url":83,"og:type":125,"og:title":65,"og:site_name":95,"og:description":67},"article",{"robots":127,"canonical":83},"index,follow",{"doc_id":129,"site_id":62},361628,1790341047,{"code":4,"msg":5,"data":132},{"doc_id":129,"user_id":133,"nickname":92,"user_avatar":134,"doc_module":4,"category_id":34,"category_name":35,"doc_title":65,"doc_description":67,"doc_content":135,"file_id":136,"file_url":137,"file_type":138,"file_size":139,"view_count":105,"is_deleted":4,"is_public":8,"is_downloadable":8,"audit_status":8,"page_count":140,"language":141,"language_code":63,"site_id":62,"html_lang":63,"table_of_contents":142,"faqs":143,"seo_title":144,"seo_description":67,"update_tm":145,"read_time":146},687212988360,"https://ap-avatar.wpscdn.com/davatar_276721f389ce27ea32af1340a28f341c","Article  \n\n| A dependency map enhanced with next-generation 3Dcancer models |  |  |\n| --- | --- | --- |\n| [https://doi.org/10.1038/s41586-026-10843-7](https://doi.org/10.1038/s41586-026-10843-7)\u003Cbr>Received: 11 February 2025 Accepted: 18 June 2026 Published online: 5 August 2026 Open access\u003Cbr> Check for updates | James V. Neiswender1,21, Samuel Maffa1,21, Lisa Brenan1,21, Dina ElHarouni1,2, Yejie Yun1,\u003Cbr>Isabella Boyle1, Kirsty Wienand1, Haider Inam1, Tate Bertea1, Ashley Anderson1, Megan Wong1, Matias Enriquez1, Evan Lenz1, BeatrizVillafranca1,3, Nora Shanks1, Mary Hager1, Nia Lloyd1, Hannah Shadmany1, Sarah J. Wie1, Harry Liang1, Konnor Yunghans1, Xiaomeng Zhang1, Lauren Golden1, Hannah Harris1, Serena Day1, Philip Montgomery1, Samantha Stokes1,\u003Cbr>Ross M. Giglio2, Cynthia Hajal2,18,19, James R. Whittle2,4,5, Guadalupe Garcia2, Caitlin E. Mills6,7, Mehdi Touat2,8, Kristine Pelton2, Hongyu Li2, Prem Sai Prabhakar2, Sonja Herter2, Zoe Hoffmann Kamrat2, Dan Gui1,9, Julien Dilly1,9,20, Chen Khuan Wong10, Jimmy A. Guo1,9, Sangita Pal1,9, Yossef Baidi1,9, Ryan Johnston1,9, Daniel D. Brown11, Sonam Bhatia2,12,\u003Cbr>Peter S. Winter1, Srivatsan Raghavan1,9,13, Rameen Beroukhim1,9,13, Eva Colas3,\u003Cbr>David L. Spector12, Adam J. Bass1,9,13, Peter K. Sorger6,7, Yu Chen10,14, Sarah J. Hill9,13,\u003Cbr>Steffi Oesterreich15, Adrian V. Lee11,15, Himisha Beltran9,13, Jesse S. Boehm1,16, Yuen-Yi Tseng1, David E. Root1, William C. Hahn1,9,13, Andrew J. Aguirre1,9,13, Catarina D. Campbell1,\u003Cbr>Keith L. Ligon1,2,13,17, Joshua M. Dempster1, Tsukasa Shibue1,22✉ & Francisca Vazquez1,22✉\u003Cbr>Despite advancesin precision oncology, effective personalized treatments are\u003Cbr>still lacking formost patients with cancer1. The Cancer Dependency Map (DepMap) accelerates this field by systematically identifying cancer vulnerabilities in diverse preclinical models. Data from over 1,300 cell lines haveledtothe discovery of new therapeutic strategies across multiple tumour types2. However, mapping cancer vulnerabilities using traditional cell lines has limitations, including insufficient cancer subtype representation and the impact of culture conditions on perturbation responses. Here we perform 147 genome-scale CRISPR screens and multi-omic characterizations of next-generation (NextGen) cancer models (organoidsand spheroids) across 10 cancer types. This strategy enables the expansion of DepMap to cover new genomic and molecular subtypes and to identify new biomarker-associated vulnerabilities. These new models also preserve transcriptional programs that are silenced in traditional cell lines and facilitate the discovery of specific gene dependencies associated with these programs. Comparisons of traditional and NextGen cancer models enable further identification of distinct effects of growth format and culture medium on gene essentiality. The integrated dataset combines data from both model types to offer a valuable, expansive resource for exploring cancer vulnerabilities and is accessible via the DepMap portal. |  |\n| Advances in understanding cancer genomes have led to mutation- |  | complement to conventional cell lines. Their specialized culture con- |\n| tailored therapies that have improved outcomes in cancers such as |  | ditions support the propagation of diverse, underrepresented cancer |\n| chronic myeloid leukaemia and melanoma3. However, despite this |  | subtypes and may better recapitulate key features of the tumour micro- |\n| progress, most patients still lack targeted treatments customized |  | environment that are lost in traditional two-dimensional (2D) cultures7,8. |\n| to the molecular makeup of their tumours. DepMap has accelerated |  | Here we profile NextGen models via genome-scale CRISPR screens, |\n| personalized cancer medicine by identifying therapeutic targets |  | whole-genome sequencing (WGS) and RNA sequencing (RNA-seq), |\n| through genomic profiling and functional screening of cancer mod- |  | and compare and integrate these data with tradi","cbCairSgVmYx7nKb","https://ap.wps.com/l/cbCairSgVmYx7nKb","pdf",34725285,48,"English","# Overview of models and data generation\n## 3D NextGen model collection and sequencing profiles\n## Validation of genomic alterations in NextGen models\n## Capturing mutations beyond traditional models","[{\"question\":\"What limitation in traditional cell lines affects cancer dependency mapping?\",\"answer\":\"Traditional cell lines insufficiently represent cancer subtypes and are influenced by culture conditions, which can alter perturbation responses.\"},{\"question\":\"What does this study add to the DepMap resource?\",\"answer\":\"It expands DepMap using 147 genome-scale CRISPR screens and multi-omic characterizations of next-generation 3D models, enabling coverage of new genomic and molecular subtypes and identification of new biomarker-associated vulnerabilities.\"},{\"question\":\"How were NextGen models validated in this work?\",\"answer\":\"NextGen models were profiled with WGS and RNA-seq, and WGS confirmed expected recurrent genomic alterations while also capturing additional mutations not represented in traditional models.\"}]","A dependency map enhanced with next-generation 3D cancer models - Open access | PDF",1790145102,121]