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Journal Articles
- 2023
[j10]Fatemeh Safari
, Herb Kunze, Jason Ernst, Daniel Gillis:
A Novel Cross-Layer Adaptive Fuzzy-Based Ad Hoc On-Demand Distance Vector Routing Protocol for MANETs. IEEE Access 11: 50805-50822 (2023)- [j9]Ha Vu, Zane Koch, Petko Fiziev, Jason Ernst:
A framework for group-wise summarization and comparison of chromatin state annotations. Bioinform. 39(1) (2023) - 2020
- [j8]Artur Tomasz Jaroszewicz, Jason Ernst:
An integrative approach for fine-mapping chromatin interactions. Bioinform. 36(6): 1704-1711 (2020) - 2016
- [j7]Dat Duong, Jennifer Zou, Farhad Hormozdiari, Jae Hoon Sul, Jason Ernst, Buhm Han, Eleazar Eskin:
Using genomic annotations increases statistical power to detect eGenes. Bioinform. 32(12): 156-163 (2016) - 2015
- [j6]Roadmap Epigenomics Consortium, Anshul Kundaje, Wouter Meuleman, Jason Ernst, Misha Bilenky, Angela Yen, Alireza Heravi Moussavi, Pouya Kheradpour, ZhiZhuo Zhang, Jianrong Wang, Michael J. Ziller, Viren Amin, John W. Whitaker, Matthew D. Schultz, Lucas D. Ward, Abhishek Sarkar, Gerald T. Quon, Richard S. Sandstrom, Matthew L. Eaton, Yi-Chieh Wu, Andreas R. Pfenning, Xinchen Wang, Melina Claussnitzer, Yaping Liu, Cristian Coarfa, R. Alan Harris, Noam Shoresh, Charles B. Epstein, Elizabeta Gjoneska, Danny Leung, Wei Xie, R. David Hawkins, Ryan Lister, Chibo Hong, Philippe Gascard, Andrew J. Mungall, Richard A. Moore, Eric Chuah, Angela Tam, Theresa K. Canfield, R. Scott Hansen, Rajinder Kaul, Peter J. Sabo, Mukul S. Bansal, Annaick Carles, Jesse R. Dixon, Kyle Kai-How Farh, Soheil Feizi, Rosa Karlic, Ah-Ram Kim, Ashwinikumar Kulkarni, Daofeng Li, Rebecca F. Lowdon, GiNell Elliott, Tim R. Mercer, Shane J. Neph, Vitor Onuchic, Paz Polak, Nisha Rajagopal, Pradipta Ray, Richard C. Sallari, Kyle T. Siebenthall, Nicholas A. Sinnott-Armstrong, Michael Stevens, Robert E. Thurman, Jie Wu, Bo Zhang, Xin Zhou, Arthur E. Beaudet, Laurie A. Boyer, Philip L. De Jager, Peggy J. Farnham, Susan J. Fisher, David Haussler, Steven J. M. Jones, Wei Li, Marco A. Marra, Michael T. McManus, Shamil R. Sunyaev, James A. Thomson, Thea D. Tlsty, Li-Huei Tsai, Wei Wang, Robert A. Waterland, Michael Q. Zhang, Lisa H. Chadwick, Bradley E. Bernstein, Joseph F. Costello, Joseph R. Ecker, Martin Hirst, Alexander Meissner, Aleksandar Milosavljevic, Bing Ren, John A. Stamatoyannopoulos, Ting Wang, Manolis Kellis:
Integrative analysis of 111 reference human epigenomes Open. Nat. 518(7539): 317-330 (2015) - 2013
- [j5]Nisha Rajagopal, Wei Xie, Yan Li, Uli Wagner, Wei Wang, John A. Stamatoyannopoulos, Jason Ernst, Manolis Kellis, Bing Ren:
RFECS: A Random-Forest Based Algorithm for Enhancer Identification from Chromatin State. PLoS Comput. Biol. 9(3) (2013) - 2012
- [j4]Marcel H. Schulz, William E. Devanny, Anthony Gitter, Shan Zhong, Jason Ernst, Ziv Bar-Joseph:
DREM 2.0: Improved reconstruction of dynamic regulatory networks from time-series expression data. BMC Syst. Biol. 6: 104 (2012) - 2008
- [j3]Alexei Vazquez, Qasim K. Beg, Marcio A. de Menezes, Jason Ernst, Ziv Bar-Joseph, Albert-László Barabási, László G. Boros, Zoltán N. Oltvai:
Impact of the solvent capacity constraint on E. coli metabolism. BMC Syst. Biol. 2: 7 (2008) - [j2]Jason Ernst, Qasim K. Beg, Krin A. Kay, Gábor Balázsi, Zoltán N. Oltvai, Ziv Bar-Joseph:
A Semi-Supervised Method for Predicting Transcription Factor-Gene Interactions in Escherichia coli. PLoS Comput. Biol. 4(3) (2008) - 2006
- [j1]Jason Ernst, Ziv Bar-Joseph:
STEM: a tool for the analysis of short time series gene expression data. BMC Bioinform. 7: 191 (2006)
Conference and Workshop Papers
- 2023
- [c8]Fatemeh Safari, Izabela Savic, Herb Kunze, Jason Ernst, Daniel Gillis:
A Review of AI-based MANET Routing Protocols. WiMob 2023: 43-50 - 2021
- [c7]Izabela Savic, Marshall Asch, Keefer Rourke, Fatemeh Safari, Patrick Houlding, Jeremie Fraeys de Veubeke, Jason Ernst, Daniel Gillis:
M-ODD: A Standard Protocol for Reporting MANET Related Models, Simulations, and Findings. ADHOCNETS/TRIDENTCOM 2021: 114-129 - [c6]Amnon Catav, Boyang Fu, Yazeed Zoabi, Ahuva Weiss-Meilik, Noam Shomron, Jason Ernst, Sriram Sankararaman, Ran Gilad-Bachrach:
Marginal Contribution Feature Importance - an Axiomatic Approach for Explaining Data. ICML 2021: 1324-1335 - [c5]Nic Durish, Rekkab Gill, Patrick Houlding, Charlie Flowers, Inez Shiwak, Jason Ernst, Daniel Gillis:
Co-designing a community-led Internet assessment tool in Rigolet, Nunatsiavut, Canada. ISTAS 2021: 1-8 - 2011
- [c4]Jason Ernst, Manolis Kellis:
Discovery and Characterization of Chromatin States for Systematic Annotation of the Human Genome. RECOMB 2011: 53 - 2008
- [c3]Hongbing Fan, Christian Hundt, Yu-Liang Wu, Jason Ernst:
Algorithms and Implementation for Interconnection Graph Problem. COCOA 2008: 201-210 - [c2]Hongbing Fan, Jason Ernst, Yu-Liang Wu:
Customized Reconfigurable Interconnection Networks for multiple application SOCS. FPL 2008: 491-494 - 2005
- [c1]Jason Ernst, Gerard J. Nau, Ziv Bar-Joseph:
Clustering short time series gene expression data. ISMB (Supplement of Bioinformatics) 2005: 159-168
Informal and Other Publications
- 2021
- [i2]Brent J. Hecht, Lauren Wilcox, Jeffrey P. Bigham, Johannes Schöning, Ehsan Hoque, Jason Ernst, Yonatan Bisk, Luigi De Russis, Lana Yarosh, Bushra Anjum, Danish Contractor, Cathy Wu:
It's Time to Do Something: Mitigating the Negative Impacts of Computing Through a Change to the Peer Review Process. CoRR abs/2112.09544 (2021) - 2020
- [i1]Amnon Catav, Boyang Fu, Jason Ernst, Sriram Sankararaman, Ran Gilad-Bachrach:
Marginal Contribution Feature Importance - an Axiomatic Approach for The Natural Case. CoRR abs/2010.07910 (2020)
Coauthor Index
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