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ORCIDErnest Fraenkel
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2020 – today
- 2023
[c13]Carla Agurto, Guillermo A. Cecchi, Bo Wen, Ernest Fraenkel, James D. Berry, Indu Navar, Raquel Norel:
Remote Inference of Cognitive Scores in ALS Patients Using a Picture Description. ICDH 2023: 50-56- [c12]Michael Murphy, Stefanie Jegelka, Ernest Fraenkel, Tobias Kind, David Healey, Thomas Butler:
Efficiently predicting high resolution mass spectra with graph neural networks. ICML 2023: 25549-25562 - [c11]Soukayna Mouatadid, Paulo Orenstein, Genevieve Flaspohler, Miruna Oprescu, Judah Cohen, Franklyn Wang, Sean Knight, Maria Geogdzhayeva, Sam Levang, Ernest Fraenkel, Lester Mackey:
SubseasonalClimateUSA: A Dataset for Subseasonal Forecasting and Benchmarking. NeurIPS 2023 - [i7]Michael Murphy, Stefanie Jegelka, Ernest Fraenkel
, Tobias Kind, David Healey, Thomas Butler:
Efficiently predicting high resolution mass spectra with graph neural networks. CoRR abs/2301.11419 (2023) - [i6]Carla Agurto, Guillermo A. Cecchi, Bo Wen, Ernest Fraenkel, James D. Berry, Indu Navar, Raquel Norel:
Remote Inference of Cognitive Scores in ALS Patients Using a Picture Description. CoRR abs/2309.06989 (2023) - 2022
- [j14]Divya Ramamoorthy, Kristen Severson, Soumya Ghosh, Karen Sachs, Emily G. Baxi, Alyssa N. Coyne, Elizabeth Mosmiller, Lindsey Hayes, Aianna Cerezo, Omar Ahmad, Promit Roy, Steven Zeiler, John W. Krakauer, Jonathan Li, Aneesh Donde, Nhan Huynh, Miriam Adam, Brook T. Wassie, Alexander LeNail, Natasha Leanna Patel-Murray, Yogindra Raghav, Velina Kozareva, Stanislav Tsitkov, Tobias Ehrenberger, Julia A. Kaye, Leandro Lima, Stacia K. Wyman, Edward Vertudes, Naufa Amirani, Krishna Raja, Reuben Thomas, Ryan G. Lim, Ricardo Miramontes, Jie Wu, Vineet Vaibhav, Andrea Matlock, Vidya Venkatraman, Ronald Holewenski, Niveda Sundararaman, Rakhi Pandey, Danica-Mae Manalo, Aaron Frank, Loren Ornelas, Lindsey Panther, Emilda Gomez, Erick Galvez, Daniel Pérez, Imara Meepe, Susan Lei, Louis Pinedo, Chunyan Liu, Ruby Moran, Dhruv Sareen, Barry Landin, Carla Agurto, Guillermo A. Cecchi, Raquel Norel, Sara Thrower, Sarah Luppino, Alanna Farrar, Lindsay Pothier, Hong Yu, Ervin Sinani, Prasha Vigneswaran, Alexander V. Sherman, S. Michelle Farr, Berhan Mandefro, Hannah Trost, Maria G. Banuelos, Veronica Garcia, Michael Workman, Richie Ho, Robert Baloh, Jennifer Roggenbuck, Matthew B. Harms, Carolyn Prina, Sarah Heintzman, Stephen Kolb, Jennifer Stocksdale, Keona Wang, Todd Morgan, Daragh Heitzman, Arish Jamil, Jennifer Jockel-Balsarotti, Elizabeth Karanja, Jesse Markway, Molly McCallum, Tim Miller, Ben Joslin, Deniz Alibazoglu, Senda Ajroud-Driss, Jay C. Beavers, Mary Bellard, Elizabeth Bruce, Nicholas J. Maragakis, Merit E. Cudkowicz, James D. Berry, Terri Thompson, Steven Finkbeiner, Leslie M. Thompson, Jennifer E. Van Eyk, Clive N. Svendsen, Jeffrey D. Rothstein, Jonathan D. Glass, Christina N. Fournier, Alexander Sherman, Christian Lunetta, David Walk, Ghazala Hayat, James Wymer, Kelly Gwathmey, Nicholas Olney, Terry Heiman-Patterson, Ximena Arcila-Londono, Kenneth Faulconer, Ervin Sanani, Alex Berger, Julia Mirochnick, Todd M. Herrington, Kenney Ng, Ernest Fraenkel:
Identifying patterns in amyotrophic lateral sclerosis progression from sparse longitudinal data. Nat. Comput. Sci. 2(9): 605-616 (2022) - [c10]Aria Anvar, James D. Berry, Ernest Fraenkel, Indu Navar, Guillermo A. Cecchi, Raquel Norel:
ALS community pressing issues: lessons from a survey. AMIA 2022 - [i5]Soukayna Mouatadid, Paulo Orenstein, Genevieve Flaspohler, Judah Cohen, Miruna Oprescu, Ernest Fraenkel, Lester Mackey:
Adaptive Bias Correction for Improved Subseasonal Forecasting. CoRR abs/2209.10666 (2022) - 2021
- [c9]Michael Neumann, Oliver Roesler, Jackson Liscombe, Hardik Kothare, David Suendermann-Oeft, David Pautler, Indu Navar, Aria Anvar, Jochen Kumm, Raquel Norel, Ernest Fraenkel, Alexander V. Sherman, James D. Berry, Gary L. Pattee, Jun Wang, Jordan R. Green, Vikram Ramanarayanan:
Investigating the Utility of Multimodal Conversational Technology and Audiovisual Analytic Measures for the Assessment and Monitoring of Amyotrophic Lateral Sclerosis at Scale. Interspeech 2021: 4783-4787 - [i4]Michael Neumann, Oliver Roesler, Jackson Liscombe, Hardik Kothare, David Suendermann-Oeft, David Pautler, Indu Navar, Aria Anvar, Jochen Kumm, Raquel Norel, Ernest Fraenkel, Alexander V. Sherman, James D. Berry, Gary L. Pattee, Jun Wang, Jordan R. Green, Vikram Ramanarayanan:
Investigating the Utility of Multimodal Conversational Technology and Audiovisual Analytic Measures for the Assessment and Monitoring of Amyotrophic Lateral Sclerosis at Scale. CoRR abs/2104.07310 (2021) - [i3]Soukayna Mouatadid, Paulo Orenstein, Genevieve Flaspohler, Miruna Oprescu, Judah Cohen, Franklyn Wang, Sean Knight, Maria Geogdzhayeva, Sam Levang, Ernest Fraenkel, Lester Mackey:
Learned Benchmarks for Subseasonal Forecasting. CoRR abs/2109.10399 (2021) - 2020
- [c8]Carla Agurto, Guillermo A. Cecchi, Mary Pietrowicz, Divya Ramamoorthy, Lorin Wilde, Elizabeth Mosmiller, Emily G. Baxi, Nicholas J. Maragakis, James D. Berry, Ernest Fraenkel, Jeffrey D. Rothstein, Raquel Norel:
Evaluating the utility of a picture description task for monitoring progression of ALS at home. AMIA 2020
2010 – 2019
- 2019
- [c7]Maxwell P. Gold, Alexander LeNail, Ernest Fraenkel:
Shallow Sparsely-Connected Autoencoders for Gene Set Projection. PSB 2019: 374-385 - 2017
- [j13]Murodzhon Akhmedov, Amanda J. Kedaigle, Renan Escalante Chong, Roberto Montemanni, Francesco Bertoni, Ernest Fraenkel, Ivo Kwee:
PCSF: An R-package for network-based interpretation of high-throughput data. PLoS Comput. Biol. 13(7) (2017) - [c6]Murodzhon Akhmedov, Alexander LeNail, Francesco Bertoni, Ivo Kwee, Ernest Fraenkel, Roberto Montemanni:
A Fast Prize-Collecting Steiner Forest Algorithm for Functional Analyses in Biological Networks. CPAIOR 2017: 263-276 - [i2]Alexander LeNail, Ludwig Schmidt, Johnathan Li, Tobias Ehrenberger, Karen Sachs, Stefanie Jegelka, Ernest Fraenkel:
Graph-Sparse Logistic Regression. CoRR abs/1712.05510 (2017) - 2016
- [j12]Nurcan Tuncbag, Sara J. C. Gosline, Amanda J. Kedaigle, Anthony R. Soltis, Anthony Gitter, Ernest Fraenkel:
Network-Based Interpretation of Diverse High-Throughput Datasets through the Omics Integrator Software Package. PLoS Comput. Biol. 12(4) (2016) - [i1]Anthony Gitter, Furong Huang, Ragupathyraj Valluvan, Ernest Fraenkel, Animashree Anandkumar:
Unsupervised learning of transcriptional regulatory networks via latent tree graphical models. CoRR abs/1609.06335 (2016) - 2015
- [j11]Sara J. C. Gosline, Coyin Oh, Ernest Fraenkel:
SAMNetWeb: identifying condition-specific networks linking signaling and transcription. Bioinform. 31(7): 1124-1126 (2015) - 2014
- [c5]Anthony Gitter, Alfredo Braunstein, Andrea Pagnani, Carlo Baldassi, Christian Borgs, Jennifer T. Chayes, Riccardo Zecchina, Ernest Fraenkel:
Sharing Information to Reconstruct Patient-Specific Pathways in Heterogeneous Diseases. Pacific Symposium on Biocomputing 2014: 39-50 - 2013
- [j10]Nurcan Tuncbag, Alfredo Braunstein, Andrea Pagnani, Shao-Shan Carol Huang, Jennifer T. Chayes, Christian Borgs, Riccardo Zecchina, Ernest Fraenkel:
Simultaneous Reconstruction of Multiple Signaling Pathways via the Prize-Collecting Steiner Forest Problem. J. Comput. Biol. 20(2): 124-136 (2013) - [j9]Shao-Shan Carol Huang, David C. Clarke, Sara J. C. Gosline, Adam Labadorf, Candace R. Chouinard, William Gordon, Douglas A. Lauffenburger, Ernest Fraenkel:
Linking Proteomic and Transcriptional Data through the Interactome and Epigenome Reveals a Map of Oncogene-induced Signaling. PLoS Comput. Biol. 9(2) (2013) - 2012
- [j8]Nurcan Tuncbag, Scott McCallum, Shao-Shan Carol Huang, Ernest Fraenkel:
SteinerNet: a web server for integrating 'omic' data to discover hidden components of response pathways. Nucleic Acids Res. 40(Web-Server-Issue): 505-509 (2012) - [c4]Nurcan Tuncbag, Alfredo Braunstein, Andrea Pagnani, Shao-Shan Carol Huang, Jennifer T. Chayes, Christian Borgs, Riccardo Zecchina, Ernest Fraenkel:
Simultaneous Reconstruction of Multiple Signaling Pathways via the Prize-Collecting Steiner Forest Problem. RECOMB 2012: 287-301 - 2011
- [j7]Alex Lan, Ilan Y. Smoly, Guy Rapaport, Susan Lindquist, Ernest Fraenkel, Esti Yeger Lotem:
ResponseNet: revealing signaling and regulatory networks linking genetic and transcriptomic screening data. Nucleic Acids Res. 39(Web-Server-Issue): 424-429 (2011) - 2010
- [j6]Kenzie D. MacIsaac, Kinyui A. Lo, William Gordon, Shmulik Motola, Tali Mazor, Ernest Fraenkel:
A Quantitative Model of Transcriptional Regulation Reveals the Influence of Binding Location on Expression. PLoS Comput. Biol. 6(4) (2010)
2000 – 2009
- 2008
- [c3]Martha L. Bulyk, Ernest Fraenkel, Alexander J. Hartemink, Yael Mandel-Gutfreund:
Session Introduction. Pacific Symposium on Biocomputing 2008: 438-440 - 2007
- [j5]Katherine A. Romer, Guy-Richard Kayombya, Ernest Fraenkel:
WebMOTIFS: automated discovery, filtering and scoring of DNA sequence motifs using multiple programs and Bayesian approaches. Nucleic Acids Res. 35(Web-Server-Issue): 217-220 (2007) - [c2]Martha L. Bulyk, Alexander J. Hartemink, Ernest Fraenkel, Gary D. Stormo:
Session Introduction. Pacific Symposium on Biocomputing 2007: 470-471 - 2006
- [j4]Kenzie D. MacIsaac, D. Benjamin Gordon, Lena Nekludova, Duncan T. Odom, Joerg Schreiber, David K. Gifford, Richard A. Young, Ernest Fraenkel:
A hypothesis-based approach for identifying the binding specificity of regulatory proteins from chromatin immunoprecipitation data. Bioinform. 22(4): 423-429 (2006) - [j3]Kenzie D. MacIsaac, Ting Wang, D. Benjamin Gordon, David K. Gifford, Gary D. Stormo, Ernest Fraenkel:
An improved map of conserved regulatory sites for Saccharomyces cerevisiae. BMC Bioinform. 7: 113 (2006) - [j2]Kenzie D. MacIsaac, Ernest Fraenkel:
Practical Strategies for Discovering Regulatory DNA Sequence Motifs. PLoS Comput. Biol. 2(4) (2006) - 2005
- [j1]D. Benjamin Gordon, Lena Nekludova, Scott McCallum, Ernest Fraenkel:
TAMO: a flexible, object-oriented framework for analyzing transcriptional regulation using DNA-sequence motifs. Bioinform. 21(14): 3164-3165 (2005) - [c1]Susan Lindquist, Ernest Fraenkel, Tiago Outeiro, Aaron Gitler, Julie Su, Anil Cashikar, Smitha Jagadish:
Yeast Cells as a Discovery Platform for Neurodegenerative Disease. RECOMB 2005: 102-102
Coauthor Index
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