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The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution

Orit Rozenblatt-Rosen,Aviv Regev,Philipp Oberdoerffer,Tal Nawy,Anna Hupalowska,Jennifer Rood,Orr Ashenberg,Ethan Cerami,Robert J. Coffey,Emek Demir,Ding Li,Edward D. Esplin,James M. Ford,Jeremy Goecks,Sharmistha Ghosh,Joe W. Gray,Justin Guinney,Sean E. Hanlon,Shannon Hughes,E. Shelley Hwang,Christine A. Iacobuzio‐Donahue,Judit Jané‐Valbuena,Bruce E. Johnson,Ken S. Lau,Tracy Lively,Sarah A. Mazzilli,Dana Pe’er,Sandro Santagata,Alex K. Shalek,Denis Schapiro,M Snyder,Peter K. Sorger,Avrum Spira,Sudhir Srivastava,Kai Tan,Robert B. West,Liz Williams,Denise R. Aberle,Samuel Achilefu,Foluso O. Ademuyiwa,Andrew Adey,Rebecca Aft,Rachana Agarwal,Ruben A. Aguilar,Fatemeh Alikarami,Viola Allaj,Christopher I. Amos,Robert A. Anders,Michael Angelo,Kristen Anton,Orr Ashenberg,Jon C. Aster,Özgün Babur,Amir Bahmani,Akshay Balsubramani,David A. Barrett,Jennifer Beane,Diane Bender,Kathrin M. Bernt,Lynne D. Berry,Courtney B. Betts,Julie Bletz,Katie E. Blise,Adrienne Boire,Genevieve M. Boland,Alexander T. Borowsky,Kristopher R. Bosse,Matthew Bott,Ed Boyden,James D. Brooks,Raphael Bueno,Erik A. Burlingame,Qiuyin Cai,Joshua D. Campbell,Wagma Caravan,Ethan Cerami,Hassan Chaı̈b,Joseph M. Chan,Young Hwan Chang,Deyali Chatterjee,Ojasvi Chaudhary,Alyce A. Chen,Bob Chen,Changya Chen,Chia‐Hui Chen,Feng Chen,Yuan Chen,Milan G. Chheda,Koei Chin,Roxanne Chiu,Shih‐Kai Chu,Rodrigo F. Chuaqui,Jaeyoung Chun,Luis Cisneros,Robert J. Coffey,Graham A. Colditz,Kristina A. Cole,Natalie B. Collins,Kévin Contrepois,Lisa M. Coussens,Allison Creason,Daniel J. Crichton,Christina Curtis,Tanja M. Davidsen,Sherri R. Davies,Ino de Bruijn,Laura DelloStritto,Angelo De Marzo,Emek Demir,David G. DeNardo,Dinh Diep,Ding Li,Sharon J. Diskin,Xengie Doan,Julia L. Drewes,S. Dubinett,Michael A. Dyer,Jacklynn V. Egger,Jennifer Eng,Barbara E. Engelhardt,Graham S. Erwin,Edward D. Esplin,Laura Esserman,Alex Felmeister,Heidi S. Feiler,Ryan C. Fields,Stephen Fisher,Keith T. Flaherty,Jennifer Flournoy,James M. Ford,Angelo Fortunato,Allison Frangieh,Jennifer L. Frye,Robert S. Fulton,Danielle Galipeau,Siting Gan,Jianjiong Gao,Long Gao,Peng Gao,Vianne R. Gao,Tim Geiger,Ajit George,Gad Getz,Sharmistha Ghosh,Marios Giannakis,David L. Gibbs,William E. Gillanders,Jeremy Goecks,S. Peter Goedegebuure,Alanna Gould,Kate H.C. Gowers,Joe W. Gray,William J. Greenleaf,Jeremy S. Gresham,Jennifer L. Guerriero,Tuhin Kumar Guha,Alexander R. Guimarães,Justin Guinney,David Gutman,Nir Hacohen,Sean E. Hanlon,Casey R. Hansen,Olivier Harismendy,Kathleen A. Harris,Aaron N. Hata,Akimasa Hayashi,Cody N. Heiser,Karla Helvie,John M. Herndon,Gilliam Hirst,F. Stephen Hodi,Travis J. Hollmann,Aaron M. Horning,James J. Hsieh,Shannon Hughes,Won Jae Huh,Stephen P. Hunger,Shelley Hwang,Christine A. Iacobuzio‐Donahue,Heba Ijaz,Benjamin Izar,Connor A. Jacobson,Sam M. Janes,Judit Jané‐Valbuena,Reyka G. Jayasinghe,Lihua Jiang,Brett Johnson,Bruce E. Johnson,Tao Ju,Humam Kadara,Klaus H. Kaestner,Jacob Kagan,Lukas Kalinke,Robert L. Keith,Aziz Khan,Warren A. Kibbe,Albert H. Kim,Erika Kim,Junhyong Kim,Annette Kolodzie,Mateusz Kopytra,Eran Kotler,Robert F. Krueger,Kostyantyn Krysan,Anshul Kundaje,Uri Ladabaum,Blue B. Lake,Huy Lam,Rozelle Laquindanum,Ken S. Lau,Ashley M. Laughney,Hayan Lee,Marc E. Lenburg,Carina A. Leonard,Ignaty Leshchiner,Rochelle Levy,Jerry Li,Christine G. Lian,Kian-Huat Lim,Jia-Ren Lin,Yiyun Lin,Qi Liu,Ruiyang Liu,Tracy Lively,William J.R. Longabaugh,Teri A. Longacre,X. Cynthia,Mary Catherine Macedonia,Madison Tyler,Christopher A. Maher,Anirban Maitra,Netta Mäkinen,Danika Makowski,Carlo C. Maley,Zoltan Maliga,Diego Mallo,John M. Maris,Nick Markham,Jeffrey R. Marks,Daniel Martı́nez,R. Jay Mashl,Ignas Masilionais,Jennifer Mason,Joan Massagué,Pierre P. Massion,Marissa S. Mattar,Richard Mazurchuk,Linas Mažutis,Sarah A. Mazzilli,Eliot T. McKinley,Joshua F. McMichael,Daniel T. Merrick,Matthew Meyerson,Julia R. Miessner,Gordon B. Mills,Meredith Mills,Suman B. Mondal,Motomi Mori,Yuriko Mori,Elizabeth Moses,Yaël P. Mossé,Jeremy Muhlich,Gëorge F. Murphy,Nicholas Navin,Tal Nawy,Michel Nederlof,Reid M. Ness,Stephanie Nevins,Milen Nikolov,Ajit J. Nirmal,Garry P. Nolan,Edward Novikov,Philipp Oberdoerffer,Brendan O’Connell,Michael Offin,Stephen T. Oh,Anastasiya Olson,Alex Ooms,Miguel Ossandon,Kouros Owzar,Swapnil Parmar,Tasleema Patel,Gary J. Patti,Dana Pe’er,Itsik Pe’er,Tao Peng,Daniel Persson,Marvin Petty,Hanspeter Pfister,Kornélia Polyák,Kamyar Esmaeili Pourfarhangi,Sidharth V. Puram,Qi Qiu,Àlvaro Quintanal-Villalonga,Arjun Raj,Marisol Ramirez‐Solano,Rumana Rashid,Ashley N. Reeb,Aviv Regev,Mary E. Reid,Adam Resnick,Sheila M. Reynolds,Jessica L. Riesterer,Scott J. Rodig,Joseph T. Roland,Sonia M. Rosenfield,Asaf Rotem,Sudipta Roy,Orit Rozenblatt-Rosen,Charles M. Rudin,Marc D. Ryser,Sandro Santagata,Maria Santi-Vicini,Kazuhito Sato,Denis Schapiro,Deborah Schrag,Nikolaus Schultz,Cynthia L. Sears,Rosalie C. Sears,Subrata Sen,Triparna Sen,Alex K. Shalek,Jeff Sheng,Quanhu Sheng,Kooresh I. Shoghi,Martha J. Shrubsole,Yu Shyr,Alexander B. Sibley,Kiara Siex,Alan J. Simmons,Dinah S. Singer,Shamilene Sivagnanam,Michal Slyper,M Snyder,Artem Sokolov,Sheng-Kwei Song,Peter K. Sorger,Austin N. Southard-Smith,Avrum Spira,Sudhir Srivastava,Janet M. Stein,Phillip B. Storm,Elizabeth H. Stover,Siri H. Strand,Timothy Su,Damir Sudar,Ryan J. Sullivan,Lea F. Surrey,Mario L. Suvà,Kai Tan,Nadezhda V. Terekhanova,Luke Ternes,Lisa Thammavong,Guillaume Thibault,George V. Thomas,Vésteinn Thórsson,Ellen Todres,Linh M. Tran,Madison Tyler,Yasin Uzun,Anil Vachani,Eliezer Van Allen,Simon Vandekar,Deborah J. Veis,Sébastien Vigneau,Arastoo Vossough,Angela J. Waanders,Nikhil Wagle,Liang-Bo Wang,Michael C. Wendl,Robert B. West,Liz Williams,Chi-Yun Wu,Hao Wu,Hung‐Yi Wu,Matthew A. Wyczalkowski,Yubin Xie,Xiaolu Yang,Clarence Yapp,Wenbao Yu,Yinyin Yuan,Dadong Zhang,Kun Zhang,Mianlei Zhang,Nancy Zhang,Yantian Zhang,Yanyan Zhao,Daniel Cui Zhou,Zilu Zhou,Houxiang Zhu,Qin Zhu,Xiangzhu Zhu,Yuankun Zhu,Xiaowei Zhuang

Biology

Computational biology

Cancer

2020

Crucial transitions in cancer-including tumor initiation, local expansion, metastasis, and therapeutic resistance-involve complex interactions between cells within the dynamic tumor ecosystem. Transformative single-cell genomics technologies and spatial multiplex in situ methods now provide an opportunity to interrogate this complexity at unprecedented resolution. The Human Tumor Atlas Network (HTAN), part of the National Cancer Institute (NCI) Cancer Moonshot Initiative, will establish a clinical, experimental, computational, and organizational framework to generate informative and accessible three-dimensional atlases of cancer transitions for a diverse set of tumor types. This effort complements both ongoing efforts to map healthy organs and previous large-scale cancer genomics approaches focused on bulk sequencing at a single point in time. Generating single-cell, multiparametric, longitudinal atlases and integrating them with clinical outcomes should help identify novel predictive biomarkers and features as well as therapeutically relevant cell types, cell states, and cellular interactions across transitions. The resulting tumor atlases should have a profound impact on our understanding of cancer biology and have the potential to improve cancer detection, prevention, and therapeutic discovery for better precision-medicine treatments of cancer patients and those at risk for cancer.

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“The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution” is a paper by Orit Rozenblatt-Rosen Aviv Regev Philipp Oberdoerffer Tal Nawy Anna Hupalowska Jennifer Rood Orr Ashenberg Ethan Cerami Robert J. Coffey Emek Demir Ding Li Edward D. Esplin James M. Ford Jeremy Goecks Sharmistha Ghosh Joe W. Gray Justin Guinney Sean E. Hanlon Shannon Hughes E. Shelley Hwang Christine A. Iacobuzio‐Donahue Judit Jané‐Valbuena Bruce E. Johnson Ken S. Lau Tracy Lively Sarah A. Mazzilli Dana Pe’er Sandro Santagata Alex K. Shalek Denis Schapiro M Snyder Peter K. Sorger Avrum Spira Sudhir Srivastava Kai Tan Robert B. West Liz Williams Denise R. Aberle Samuel Achilefu Foluso O. Ademuyiwa Andrew Adey Rebecca Aft Rachana Agarwal Ruben A. Aguilar Fatemeh Alikarami Viola Allaj Christopher I. Amos Robert A. Anders Michael Angelo Kristen Anton Orr Ashenberg Jon C. Aster Özgün Babur Amir Bahmani Akshay Balsubramani David A. Barrett Jennifer Beane Diane Bender Kathrin M. Bernt Lynne D. Berry Courtney B. Betts Julie Bletz Katie E. Blise Adrienne Boire Genevieve M. Boland Alexander T. Borowsky Kristopher R. Bosse Matthew Bott Ed Boyden James D. Brooks Raphael Bueno Erik A. Burlingame Qiuyin Cai Joshua D. Campbell Wagma Caravan Ethan Cerami Hassan Chaı̈b Joseph M. Chan Young Hwan Chang Deyali Chatterjee Ojasvi Chaudhary Alyce A. Chen Bob Chen Changya Chen Chia‐Hui Chen Feng Chen Yuan Chen Milan G. Chheda Koei Chin Roxanne Chiu Shih‐Kai Chu Rodrigo F. Chuaqui Jaeyoung Chun Luis Cisneros Robert J. Coffey Graham A. Colditz Kristina A. Cole Natalie B. Collins Kévin Contrepois Lisa M. Coussens Allison Creason Daniel J. Crichton Christina Curtis Tanja M. Davidsen Sherri R. Davies Ino de Bruijn Laura DelloStritto Angelo De Marzo Emek Demir David G. DeNardo Dinh Diep Ding Li Sharon J. Diskin Xengie Doan Julia L. Drewes S. Dubinett Michael A. Dyer Jacklynn V. Egger Jennifer Eng Barbara E. Engelhardt Graham S. Erwin Edward D. Esplin Laura Esserman Alex Felmeister Heidi S. Feiler Ryan C. Fields Stephen Fisher Keith T. Flaherty Jennifer Flournoy James M. Ford Angelo Fortunato Allison Frangieh Jennifer L. Frye Robert S. Fulton Danielle Galipeau Siting Gan Jianjiong Gao Long Gao Peng Gao Vianne R. Gao Tim Geiger Ajit George Gad Getz Sharmistha Ghosh Marios Giannakis David L. Gibbs William E. Gillanders Jeremy Goecks S. Peter Goedegebuure Alanna Gould Kate H.C. Gowers Joe W. Gray William J. Greenleaf Jeremy S. Gresham Jennifer L. Guerriero Tuhin Kumar Guha Alexander R. Guimarães Justin Guinney David Gutman Nir Hacohen Sean E. Hanlon Casey R. Hansen Olivier Harismendy Kathleen A. Harris Aaron N. Hata Akimasa Hayashi Cody N. Heiser Karla Helvie John M. Herndon Gilliam Hirst F. Stephen Hodi Travis J. Hollmann Aaron M. Horning James J. Hsieh Shannon Hughes Won Jae Huh Stephen P. Hunger Shelley Hwang Christine A. Iacobuzio‐Donahue Heba Ijaz Benjamin Izar Connor A. Jacobson Sam M. Janes Judit Jané‐Valbuena Reyka G. Jayasinghe Lihua Jiang Brett Johnson Bruce E. Johnson Tao Ju Humam Kadara Klaus H. Kaestner Jacob Kagan Lukas Kalinke Robert L. Keith Aziz Khan Warren A. Kibbe Albert H. Kim Erika Kim Junhyong Kim Annette Kolodzie Mateusz Kopytra Eran Kotler Robert F. Krueger Kostyantyn Krysan Anshul Kundaje Uri Ladabaum Blue B. Lake Huy Lam Rozelle Laquindanum Ken S. Lau Ashley M. Laughney Hayan Lee Marc E. Lenburg Carina A. Leonard Ignaty Leshchiner Rochelle Levy Jerry Li Christine G. Lian Kian-Huat Lim Jia-Ren Lin Yiyun Lin Qi Liu Ruiyang Liu Tracy Lively William J.R. Longabaugh Teri A. Longacre X. Cynthia Mary Catherine Macedonia Madison Tyler Christopher A. Maher Anirban Maitra Netta Mäkinen Danika Makowski Carlo C. Maley Zoltan Maliga Diego Mallo John M. Maris Nick Markham Jeffrey R. Marks Daniel Martı́nez R. Jay Mashl Ignas Masilionais Jennifer Mason Joan Massagué Pierre P. Massion Marissa S. Mattar Richard Mazurchuk Linas Mažutis Sarah A. Mazzilli Eliot T. McKinley Joshua F. McMichael Daniel T. Merrick Matthew Meyerson Julia R. Miessner Gordon B. Mills Meredith Mills Suman B. Mondal Motomi Mori Yuriko Mori Elizabeth Moses Yaël P. Mossé Jeremy Muhlich Gëorge F. Murphy Nicholas Navin Tal Nawy Michel Nederlof Reid M. Ness Stephanie Nevins Milen Nikolov Ajit J. Nirmal Garry P. Nolan Edward Novikov Philipp Oberdoerffer Brendan O’Connell Michael Offin Stephen T. Oh Anastasiya Olson Alex Ooms Miguel Ossandon Kouros Owzar Swapnil Parmar Tasleema Patel Gary J. Patti Dana Pe’er Itsik Pe’er Tao Peng Daniel Persson Marvin Petty Hanspeter Pfister Kornélia Polyák Kamyar Esmaeili Pourfarhangi Sidharth V. Puram Qi Qiu Àlvaro Quintanal-Villalonga Arjun Raj Marisol Ramirez‐Solano Rumana Rashid Ashley N. Reeb Aviv Regev Mary E. Reid Adam Resnick Sheila M. Reynolds Jessica L. Riesterer Scott J. Rodig Joseph T. Roland Sonia M. Rosenfield Asaf Rotem Sudipta Roy Orit Rozenblatt-Rosen Charles M. Rudin Marc D. Ryser Sandro Santagata Maria Santi-Vicini Kazuhito Sato Denis Schapiro Deborah Schrag Nikolaus Schultz Cynthia L. Sears Rosalie C. Sears Subrata Sen Triparna Sen Alex K. Shalek Jeff Sheng Quanhu Sheng Kooresh I. Shoghi Martha J. Shrubsole Yu Shyr Alexander B. Sibley Kiara Siex Alan J. Simmons Dinah S. Singer Shamilene Sivagnanam Michal Slyper M Snyder Artem Sokolov Sheng-Kwei Song Peter K. Sorger Austin N. Southard-Smith Avrum Spira Sudhir Srivastava Janet M. Stein Phillip B. Storm Elizabeth H. Stover Siri H. Strand Timothy Su Damir Sudar Ryan J. Sullivan Lea F. Surrey Mario L. Suvà Kai Tan Nadezhda V. Terekhanova Luke Ternes Lisa Thammavong Guillaume Thibault George V. Thomas Vésteinn Thórsson Ellen Todres Linh M. Tran Madison Tyler Yasin Uzun Anil Vachani Eliezer Van Allen Simon Vandekar Deborah J. Veis Sébastien Vigneau Arastoo Vossough Angela J. Waanders Nikhil Wagle Liang-Bo Wang Michael C. Wendl Robert B. West Liz Williams Chi-Yun Wu Hao Wu Hung‐Yi Wu Matthew A. Wyczalkowski Yubin Xie Xiaolu Yang Clarence Yapp Wenbao Yu Yinyin Yuan Dadong Zhang Kun Zhang Mianlei Zhang Nancy Zhang Yantian Zhang Yanyan Zhao Daniel Cui Zhou Zilu Zhou Houxiang Zhu Qin Zhu Xiangzhu Zhu Yuankun Zhu Xiaowei Zhuang published in 2020. It has an Open Access status of “hybrid”. You can read and download a PDF Full Text of this paper here.