Organoid cultures derived from patients with advanced prostate cancer
Dong Gao,Ian Vela,Andrea Sboner,Phillip J. Iaquinta,Wouter R. Karthaus,Anuradha Gopalan,Catherine Dowling,Jackline Wanjala,Eva Undvall,Vivek K. Arora,John Wongvipat,Myriam Kossai,Sinan Ramazanoglu,Luendreo P Barboza,Wei Di,Zhen Cao,Qi Fan Zhang,Inna Sirota,Leili Ran,Theresa Y MacDonald,Himisha Beltran,Juan Miguel Mosquera,Karim Touijer,Peter T. Scardino,Vincent P. Laudone,Kristen Rebecca Curtis,Dana E. Rathkopf,Michael J. Morris,Michael J. Morris,Daniel C. Danila,Daniel C. Danila,Susan F. Slovin,Susan F. Slovin,Stephen B. Solomon,James A. Eastham,Ping Chi,Brett S. Carver,Mark A. Rubin,Howard I. Scher,Howard I. Scher,Hans Clevers,Charles L. Sawyers,Charles L. Sawyers,Yu Chen,Yu Chen +44 more
TLDR
Using a 3D organoid system, this paper reported success in long-term culture of prostate cancer from biopsy specimens and circulating tumor cells, including TMPRSS2-ERG fusion, SPOP mutation, SPINK1 overexpression, and CHD1 loss.About:
This article is published in Cell.The article was published on 2014-09-25 and is currently open access. It has received 1101 citations till now. The article focuses on the topics: Chromoplexy & Prostate cancer.read more
Citations
More filters
Journal ArticleDOI
Integrative clinical genomics of advanced prostate cancer
Dan R. Robinson,Eliezer M. Van Allen,Eliezer M. Van Allen,Yi-Mi Wu,Nikolaus Schultz,Robert J. Lonigro,Juan Miguel Mosquera,Bruce Montgomery,Mary-Ellen Taplin,Colin C. Pritchard,Gerhardt Attard,Gerhardt Attard,Himisha Beltran,Wassim Abida,Robert K. Bradley,Jake Vinson,Xuhong Cao,Pankaj Vats,Lakshmi P. Kunju,Maha Hussain,Felix Y. Feng,Scott A. Tomlins,Kathleen A. Cooney,David Smith,Christine Brennan,Javed Siddiqui,Rohit Mehra,Yu Chen,Yu Chen,Dana E. Rathkopf,Dana E. Rathkopf,Michael J. Morris,Michael J. Morris,Stephen B. Solomon,Jeremy C. Durack,Victor E. Reuter,Anuradha Gopalan,Jianjiong Gao,Massimo Loda,Rosina T. Lis,Michaela Bowden,Michaela Bowden,Stephen P. Balk,Glenn C. Gaviola,Carrie Sougnez,Manaswi Gupta,Evan Y. Yu,Elahe A. Mostaghel,Heather H. Cheng,Hyojeong Mulcahy,Lawrence D. True,Stephen R. Plymate,Heidi Dvinge,Roberta Ferraldeschi,Roberta Ferraldeschi,Penny Flohr,Penny Flohr,Susana Miranda,Susana Miranda,Zafeiris Zafeiriou,Zafeiris Zafeiriou,Nina Tunariu,Nina Tunariu,Joaquin Mateo,Joaquin Mateo,Raquel Perez-Lopez,Raquel Perez-Lopez,Francesca Demichelis,Francesca Demichelis,Brian D. Robinson,Marc H. Schiffman,David M. Nanus,Scott T. Tagawa,Alexandros Sigaras,Kenneth Eng,Olivier Elemento,Andrea Sboner,Elisabeth I. Heath,Howard I. Scher,Howard I. Scher,Kenneth J. Pienta,Philip W. Kantoff,Johann S. de Bono,Johann S. de Bono,Mark A. Rubin,Peter S. Nelson,Levi A. Garraway,Levi A. Garraway,Charles L. Sawyers,Arul M. Chinnaiyan +89 more
TL;DR: This cohort study provides clinically actionable information that could impact treatment decisions for affected individuals and identified new genomic alterations in PIK3CA/B, R-spondin, BRAF/RAF1, APC, β-catenin, and ZBTB16/PLZF.
Journal ArticleDOI
Modeling Development and Disease with Organoids
TL;DR: 3D culture technology allow embryonic and adult mammalian stem cells to exhibit their remarkable self-organizing properties, and the resulting organoids reflect key structural and functional properties of organs such as kidney, lung, gut, brain and retina, and hold promise to predict drug response in a personalized fashion.
Journal ArticleDOI
Organoid Models of Human and Mouse Ductal Pancreatic Cancer
Sylvia F. Boj,Chang-Il Hwang,Chang-Il Hwang,Lindsey A. Baker,Lindsey A. Baker,Iok In Christine Chio,Iok In Christine Chio,Dannielle D. Engle,Dannielle D. Engle,Vincenzo Corbo,Vincenzo Corbo,Myrthe Jager,Mariano Ponz-Sarvise,Mariano Ponz-Sarvise,Hervé Tiriac,Hervé Tiriac,Mona S. Spector,Mona S. Spector,Ana Gracanin,Tobiloba E. Oni,Tobiloba E. Oni,Tobiloba E. Oni,Kenneth H. Yu,Ruben van Boxtel,Meritxell Huch,Keith Rivera,John P. Wilson,Michael E. Feigin,Michael E. Feigin,Daniel Öhlund,Daniel Öhlund,Abram Handly-Santana,Abram Handly-Santana,Christine M. Ardito-Abraham,Christine M. Ardito-Abraham,Michael Ludwig,Michael Ludwig,Ela Elyada,Ela Elyada,Brinda Alagesan,Brinda Alagesan,Brinda Alagesan,Giulia Biffi,Giulia Biffi,Georgi N. Yordanov,Georgi N. Yordanov,Bethany Delcuze,Bethany Delcuze,Brianna Creighton,Brianna Creighton,Kevin Wright,Kevin Wright,Young-Kyu Park,Young-Kyu Park,Folkert H.M. Morsink,I. Quintus Molenaar,Inne H.M. Borel Rinkes,Edwin Cuppen,Yuan Hao,Ying Jin,Isaac J. Nijman,Christine A. Iacobuzio-Donahue,Steven D. Leach,Darryl J. Pappin,Molly Hammell,David S. Klimstra,Olca Basturk,Ralph H. Hruban,G. J. A. Offerhaus,Robert G.J. Vries,Hans Clevers,David A. Tuveson,David A. Tuveson,David A. Tuveson +73 more
TL;DR: Comprehensive transcriptional and proteomic analyses of murine pancreatic organoids revealed genes and pathways altered during disease progression that demonstrate that organoids are a facile model system to discover characteristics of this deadly malignancy.
Journal ArticleDOI
Integrating liquid biopsies into the management of cancer
TL;DR: How different forms of liquid biopsies can be exploited to guide patient care and should ultimately be integrated into clinical practice is examined, focusing on liquid biopsy of ctDNA — arguably the most clinically advanced approach.
Journal ArticleDOI
A Living Biobank of Breast Cancer Organoids Captures Disease Heterogeneity
Norman Sachs,Joep de Ligt,Oded Kopper,Ewa Gogola,Gergana Bounova,Fleur Weeber,Anjali Vanita Balgobind,Karin Wind,Ana Gracanin,Harry Begthel,Jeroen Korving,Ruben van Boxtel,Alexandra A. Duarte,Daphne Lelieveld,Arne Van Hoeck,Robert F Ernst,Francis Blokzijl,Isaac J. Nijman,Marlous Hoogstraat,Marieke van der Ven,David A. Egan,Vittoria Zinzalla,Jürgen Moll,Sylvia F. Boj,Emile E. Voest,Lodewyk F. A. Wessels,Lodewyk F. A. Wessels,Paul J. van Diest,Sven Rottenberg,Sven Rottenberg,Robert G.J. Vries,Edwin Cuppen,Hans Clevers +32 more
TL;DR: This study describes a representative collection of well-characterized BC organoids available for cancer research and drug development, as well as a strategy to assess in vitro drug response in a personalized fashion.
References
More filters
Journal ArticleDOI
Fast and accurate short read alignment with Burrows–Wheeler transform
Heng Li,Richard Durbin +1 more
TL;DR: Burrows-Wheeler Alignment tool (BWA) is implemented, a new read alignment package that is based on backward search with Burrows–Wheeler Transform (BWT), to efficiently align short sequencing reads against a large reference sequence such as the human genome, allowing mismatches and gaps.
Journal ArticleDOI
STAR: ultrafast universal RNA-seq aligner
Alexander Dobin,Carrie A. Davis,Felix Schlesinger,Jorg Drenkow,Chris Zaleski,Sonali Jha,Philippe Batut,Mark Chaisson,Thomas R. Gingeras +8 more
TL;DR: The Spliced Transcripts Alignment to a Reference (STAR) software based on a previously undescribed RNA-seq alignment algorithm that uses sequential maximum mappable seed search in uncompressed suffix arrays followed by seed clustering and stitching procedure outperforms other aligners by a factor of >50 in mapping speed.
Journal ArticleDOI
The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
Aaron McKenna,Matthew Hanna,Eric Banks,Andrey Sivachenko,Kristian Cibulskis,Andrew Kernytsky,Kiran V. Garimella,David Altshuler,Stacey Gabriel,Mark J. Daly,Mark A. DePristo +10 more
TL;DR: The GATK programming framework enables developers and analysts to quickly and easily write efficient and robust NGS tools, many of which have already been incorporated into large-scale sequencing projects like the 1000 Genomes Project and The Cancer Genome Atlas.
Journal ArticleDOI
The cBio Cancer Genomics Portal: An Open Platform for Exploring Multidimensional Cancer Genomics Data
Ethan Cerami,Jianjiong Gao,Ugur Dogrusoz,Benjamin Gross,Selcuk Onur Sumer,Bulent Arman Aksoy,Anders Jacobsen,Caitlin Byrne,Michael Heuer,Erik G. Larsson,Yevgeniy Antipin,Boris Reva,Arthur P. Goldberg,Chris Sander,Nikolaus Schultz +14 more
TL;DR: The cBio Cancer Genomics Portal significantly lowers the barriers between complex genomic data and cancer researchers who want rapid, intuitive, and high-quality access to molecular profiles and clinical attributes from large-scale cancer genomics projects and empowers researchers to translate these rich data sets into biologic insights and clinical applications.
Journal ArticleDOI
The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity
Jordi Barretina,Giordano Caponigro,Nicolas Stransky,Kavitha Venkatesan,Adam A. Margolin,Adam A. Margolin,Sungjoon Kim,Christine D. Wilson,Joseph Lehar,Gregory V. Kryukov,Dmitriy Sonkin,Anupama Reddy,Manway Liu,Lauren Murray,Michael F. Berger,Michael F. Berger,John Monahan,Paula Morais,Jodi Meltzer,Adam Korejwa,Judit Jané-Valbuena,Judit Jané-Valbuena,Felipa A. Mapa,Joseph Thibault,Eva Bric-Furlong,Pichai Raman,Aaron Shipway,Ingo H. Engels,Jill Cheng,Guoying K. Yu,Jianjun Yu,Peter Aspesi,Melanie de Silva,Kalpana Jagtap,Michael D. Jones,Li Wang,Charlie Hatton,Emanuele Palescandolo,Supriya Gupta,Scott Mahan,Carrie Sougnez,Robert C. Onofrio,Ted Liefeld,Laura E. MacConaill,Wendy Winckler,Michael R. Reich,Nanxin Li,Jill P. Mesirov,Stacey Gabriel,Gad Getz,Kristin G. Ardlie,Vivien W. Chan,Vic E. Myer,Barbara L. Weber,Jeffrey A. Porter,Markus Warmuth,Peter Finan,Jennifer L. Harris,Matthew Meyerson,Matthew Meyerson,Todd R. Golub,Michael Morrissey,William R. Sellers,Robert Schlegel,Levi A. Garraway,Levi A. Garraway +65 more
TL;DR: The results indicate that large, annotated cell-line collections may help to enable preclinical stratification schemata for anticancer agents and the generation of genetic predictions of drug response in the preclinical setting and their incorporation into cancer clinical trial design could speed the emergence of ‘personalized’ therapeutic regimens.
Related Papers (5)
Prospective Derivation of a Living Organoid Biobank of Colorectal Cancer Patients
Marc van de Wetering,Hayley E. Francies,Joshua M. Francis,Joshua M. Francis,Gergana Bounova,Francesco Iorio,Apollo Pronk,Winan J. van Houdt,Joost van Gorp,Amaro Taylor-Weiner,Lennart Kester,Anne McLaren-Douglas,Joyce Blokker,Sridevi Jaksani,Sina Bartfeld,Richard Volckman,Peter van Sluis,Vivian S. W. Li,Sara Seepo,Chandra Sekhar Pedamallu,Chandra Sekhar Pedamallu,Kristian Cibulskis,Scott L. Carter,Scott L. Carter,Aaron McKenna,Michael S. Lawrence,Lee Lichtenstein,Chip Stewart,Jan Koster,Rogier Versteeg,Alexander van Oudenaarden,Julio Saez-Rodriguez,Robert G.J. Vries,Gad Getz,Gad Getz,Lodewyk F. A. Wessels,Michael R. Stratton,Ultan McDermott,Matthew Meyerson,Matthew Meyerson,Mathew J. Garnett,Hans Clevers +41 more
Organoid Models of Human and Mouse Ductal Pancreatic Cancer
Sylvia F. Boj,Chang-Il Hwang,Chang-Il Hwang,Lindsey A. Baker,Lindsey A. Baker,Iok In Christine Chio,Iok In Christine Chio,Dannielle D. Engle,Dannielle D. Engle,Vincenzo Corbo,Vincenzo Corbo,Myrthe Jager,Mariano Ponz-Sarvise,Mariano Ponz-Sarvise,Hervé Tiriac,Hervé Tiriac,Mona S. Spector,Mona S. Spector,Ana Gracanin,Tobiloba E. Oni,Tobiloba E. Oni,Tobiloba E. Oni,Kenneth H. Yu,Ruben van Boxtel,Meritxell Huch,Keith Rivera,John P. Wilson,Michael E. Feigin,Michael E. Feigin,Daniel Öhlund,Daniel Öhlund,Abram Handly-Santana,Abram Handly-Santana,Christine M. Ardito-Abraham,Christine M. Ardito-Abraham,Michael Ludwig,Michael Ludwig,Ela Elyada,Ela Elyada,Brinda Alagesan,Brinda Alagesan,Brinda Alagesan,Giulia Biffi,Giulia Biffi,Georgi N. Yordanov,Georgi N. Yordanov,Bethany Delcuze,Bethany Delcuze,Brianna Creighton,Brianna Creighton,Kevin Wright,Kevin Wright,Young-Kyu Park,Young-Kyu Park,Folkert H.M. Morsink,I. Quintus Molenaar,Inne H.M. Borel Rinkes,Edwin Cuppen,Yuan Hao,Ying Jin,Isaac J. Nijman,Christine A. Iacobuzio-Donahue,Steven D. Leach,Darryl J. Pappin,Molly Hammell,David S. Klimstra,Olca Basturk,Ralph H. Hruban,G. J. A. Offerhaus,Robert G.J. Vries,Hans Clevers,David A. Tuveson,David A. Tuveson,David A. Tuveson +73 more
Patient-derived organoids model treatment response of metastatic gastrointestinal cancers
Georgios Vlachogiannis,Somaieh Hedayat,Alexandra Vatsiou,Yann Jamin,Javier Fernández-Mateos,Khurum Khan,Khurum Khan,Andrea Lampis,Katherine Eason,Ian Said Huntingford,Rosemary Burke,Mihaela Rata,Dow-Mu Koh,Dow-Mu Koh,Nina Tunariu,Nina Tunariu,David J. Collins,Sanna Hulkki-Wilson,Chanthirika Ragulan,Inmaculada Spiteri,Sing Yu Moorcraft,Ian Chau,Sheela Rao,David Watkins,Nicos Fotiadis,Maria Antonietta Bali,Maria Antonietta Bali,Mahnaz Darvish-Damavandi,Hazel Lote,Hazel Lote,Zakaria Eltahir,Elizabeth C Smyth,Ruwaida Begum,Paul A. Clarke,Jens C. Hahne,Mitchell Dowsett,Johann S. de Bono,Paul Workman,Anguraj Sadanandam,Matteo Fassan,Owen J. Sansom,Suzanne A. Eccles,Naureen Starling,Chiara Braconi,Chiara Braconi,Andrea Sottoriva,Simon P. Robinson,David Cunningham,Nicola Valeri,Nicola Valeri +49 more