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William J.R. Longabaugh
Researcher at Institute for Systems Biology
Publications - 29
Citations - 1992
William J.R. Longabaugh is an academic researcher from Institute for Systems Biology. The author has contributed to research in topics: Gene regulatory network & Computer science. The author has an hindex of 15, co-authored 23 publications receiving 1628 citations.
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Journal ArticleDOI
A Predictive Model for Transcriptional Control of Physiology in a Free Living Cell
Richard Bonneau,Richard Bonneau,Marc T. Facciotti,David J Reiss,Amy K. Schmid,Min Pan,Amardeep Kaur,Vesteinn Thorsson,Paul Shannon,Michael H. Johnson,J. Christopher Bare,William J.R. Longabaugh,Madhavi Vuthoori,Kenia Whitehead,Aviv Madar,Lena Suzuki,Tetsuya Mori,Dong Eun Chang,Jocelyne DiRuggiero,Carl Hirschie Johnson,Leroy Hood,Nitin S. Baliga,Nitin S. Baliga +22 more
TL;DR: This study supports the claim that the high degree of connectivity within biological and EF networks will enable the construction of similar models for any organism from relatively modest numbers of experiments.
Journal ArticleDOI
Genomic characterization of Gli-activator targets in sonic hedgehog-mediated neural patterning.
Steven A. Vokes,Hongkai Ji,Hongkai Ji,Scott McCuine,Toyoaki Tenzen,Shane Giles,Sheng Zhong,William J.R. Longabaugh,Eric H. Davidson,Wing Hung Wong,Andrew P. McMahon +10 more
TL;DR: Two approaches provide significant new insights into both tissue-specific and general transcriptional targets in a crucial Shh-mediated patterning process.
Journal ArticleDOI
The Human Tumor Atlas Network: Charting Tumor Transitions Across Space and Time at Single-Cell Resolution
Orit Rozenblatt-Rosen,Aviv Regev,Aviv Regev,Aviv Regev,Philipp Oberdoerffer,Tal Nawy,Anna Hupalowska,Jennifer Rood,Orr Ashenberg,Ethan Cerami,Robert J. Coffey,Emek Demir,Li Ding,Edward D. Esplin,James M. Ford,Jeremy Goecks,Sharmistha Ghosh,Joe W. Gray,Justin Guinney,Justin Guinney,Sean E. Hanlon,Shannon K. 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,Sandro Santagata,Alex K. Shalek,Denis Schapiro,Denis Schapiro,Michael Snyder,Peter K. Sorger,Avrum E. Spira,Avrum E. Spira,Sudhir Srivastava,Kai Tan,Kai Tan,Robert West,Elizabeth H. Williams,Elizabeth H. Williams,Denise 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 R. Angelo,Kristen Anton,Jon C. Aster,Özgün Babur,Amir Bahmani,Akshay Balsubramani,David M. Barrett,Jennifer Beane,Diane Bender,Kathrin M. Bernt,Lynne D. Berry,Courtney Betts,Julie Bletz,Katie Blise,Adrienne Boire,Genevieve M. Boland,Alexander D. Borowsky,Kristopher R. Bosse,Matthew J. Bott,Edward S. Boyden,James D. Brooks,Raphael Bueno,Erik A. Burlingame,Qiuyin Cai,Joshua D. Campbell,Wagma Caravan,Hassan Chaib,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 Chuaqui,Jaeyoung Chun,Luis Cisneros,Graham A. Colditz,Kristina A. Cole,Natalie B. Collins,Kévin Contrepois,Lisa M. Coussens,Allison L. Creason,Daniel J. Crichton,Christina Curtis,Tanja M. Davidsen,Sherri R. Davies,Ino de Bruijn,Laura DelloStritto,Angelo M. De Marzo,David G. DeNardo,Dinh Diep,Sharon J. Diskin,Xengie Doan,Julia L. Drewes,Stephen Dubinett,Michael A. Dyer,Jacklynn V. Egger,Jennifer Eng,Barbara E. Engelhardt,Graham Erwin,Laura J. Esserman,Alex Felmeister,Heidi S. Feiler,Ryan C. Fields,Stephen A. Fisher,Keith T. Flaherty,Jennifer Flournoy,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,Marios Giannakis,David L Gibbs,William E. Gillanders,Simon P. Goedegebuure,Alanna Gould,Kate H.C. Gowers,William J. Greenleaf,Jeremy Gresham,Jennifer L. Guerriero,Tuhin Kumar Guha,Alexander R. Guimaraes,David A. 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,Frank Hodi,Travis J. Hollmann,Aaron M. Horning,James J. Hsieh,Shannon Hughes,Won Jae Huh,Stephen P. Hunger,Shelley Hwang,Heba Ijaz,Benjamin Izar,Connor A. Jacobson,Sam M. Janes,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 Krueger,Kostyantyn Krysan,Anshul Kundaje,Uri Ladabaum,Blue B. Lake,Huy Lam,Rozelle Laquindanum,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,William J.R. Longabaugh,Teri A. Longacre,Cynthia X. Ma,Mary Catherine Macedonia,Tyler Madison,Christopher G. Maher,Anirban Maitra,Netta Makinen,Danika Makowski,Carlo C. Maley,Zoltan Maliga,Diego Mallo,John M. Maris,Nick Markham,Jeffrey R. Marks,Daniel Martinez,Robert J. Mashl,Ignas Masilionais,Jennifer Mason,Joan Massagué,Pierre P. Massion,Marissa Mattar,Richard Mazurchuk,Linas Mazutis,Eliot T. McKinley,Joshua F. McMichael,Daniel T. Merrick,Matthew Meyerson,Julia R. Miessner,Gordon B. Mills,Meredith A. Mills,Suman B. Mondal,Motomi Mori,Yuriko Mori,Elizabeth Moses,Yael P. Mosse,Jeremy L. Muhlich,George F. Murphy,Nicholas Navin,Michel Nederlof,Reid M. Ness,Stephanie A. Nevins,Milen Nikolov,Ajit J. Nirmal,Garry P. Nolan,Edward Novikov,Brendan O'Connell,Michael Offin,Stephen T. Oh,Anastasiya Olson,Alex Ooms,Miguel Ossandon,Kouros Owzar,Swapnil Parmar,Tasleema Patel,Gary J. Patti,Itsik Pe'er,Tao Peng,Daniel Persson,Marvin Petty,Hanspeter Pfister,Kornelia Polyak,Kamyar Esmaeili Pourfarhangi,Sidharth V. Puram,Qi Qiu,Álvaro Quintanal-Villalonga,Arjun Raj,Marisol A. Ramirez-Solano,Rumana Rashid,Ashley N. Reeb,Mary E. Reid,Adam C. Resnick,Sheila Reynolds,Jessica L. Riesterer,Scott J. Rodig,Joseph T. Roland,Sonia Rosenfield,Asaf Rotem,Sudipta Roy,Charles M. Rudin,Marc D. Ryser,Maria Santi-Vicini,Kazuhito Sato,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,Artem Sokolov,Sheng-Kwei Song,Austin N. Southard-Smith,Avrum Spira,Janet Stein,Phillip B. Storm,Elizabeth H. Stover,Siri H. Strand,Timothy Su,Damir Sudar,Ryan P. Sullivan,Lea F. Surrey,Mario L. Suvà,Nadezhda V. Terekhanova,Luke Ternes,Lisa Thammavong,Guillaume Thibault,George Thomas,Vesteinn Thorsson,Ellen Todres,Linh M. Tran,Madison Tyler,Yasin Uzun,Anil Vachani,Eliezer M. Van Allen,Simon N. Vandekar,Deborah J. Veis,Sébastien Vigneau,Arastoo Vossough,Angela J. Waanders,Nikhil Wagle,Liang-Bo Wang,Michael C. Wendl,Robert B. West,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,Nan Zhang,Yantian Zhang,Yanyan Zhao,Daniel Cui Zhou,Zilu Zhou,Houxiang Zhu,Qin Zhu,Xiangzhu Zhu,Yuankun Zhu,Xiaowei Zhuang +373 more
TL;DR: The Human Tumor Atlas Network (HTAN), part of the 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.
Journal ArticleDOI
Computational representation of developmental genetic regulatory networks.
TL;DR: It is argued that DNA-centered network modeling, separate descriptions of network organization and network behavior, and support for network documentation and annotation are essential requirements for computational modeling of developmental GRNs.
Journal ArticleDOI
Visualization, documentation, analysis, and communication of large-scale gene regulatory networks.
TL;DR: The ongoing development of BioTapestry, an open source, freely available computational tool designed specifically for building GRN models, is reported on.