Ken Chen

29 papers A 3Misc 1Journal 19Unranked 6
YearRankTypeTitle / Venue / Authors
2024 J jnl
Forecasting acute kidney injury and resource utilization in ICU patients using longitudinal, multimodal models.
J. Biomed. Informatics
Yukun Tan, Merve Dede, Vakul Mohanty, Jinzhuang Dou, Holly Hill, Elmer V. Bernstam, Ken Chen
2024 — conf
KCLab at Chemotimelines 2024: End-to-end system for chemotherapy timeline extraction - Subtask2.
ClinicalNLP@NAACL
Yukun Tan, Merve Dede, Ken Chen
2022 J jnl
Sensei: how many samples to tell a change in cell type abundance?
BMC Bioinform.
Shaoheng Liang, Jason Willis, Jinzhuang Dou, Vakul Mohanty, Yuefan Huang, Eduardo Vilar, Ken Chen
2021 J jnl
Publisher Correction: Single-cell manifold-preserving feature selection for detecting rare cell populations.
Nat. Comput. Sci.
Shaoheng Liang, Vakul Mohanty, Jinzhuang Dou, Qi Miao, Yuefan Huang, Muharrem Müftüoglu, Li Ding, Weiyi Peng, Ken Chen
2021 J jnl
Single-cell manifold-preserving feature selection for detecting rare cell populations.
Nat. Comput. Sci.
Shaoheng Liang, Vakul Mohanty, Jinzhuang Dou, Qi Miao, Yuefan Huang, Muharrem Müftüoglu, Li Ding, Weiyi Peng, Ken Chen
2021 J jnl
Stratified Test Accurately Identifies Differentially Expressed Genes Under Batch Effects in Single-Cell Data.
IEEE ACM Trans. Comput. Biol. Bioinform.
Shaoheng Liang, Qingnan Liang, Rui Chen, Ken Chen
2020 — conf
Stratified Test Alleviates Batch Effects in Single-Cell Data.
AlCoB
Shaoheng Liang, Qingnan Liang, Rui Chen, Ken Chen
2019 J jnl
SCMarker: Ab initio marker selection for single cell transcriptome profiling.
PLoS Comput. Biol.
Fang Wang, Shaoheng Liang, Tapsi Kumar, Nicholas Navin, Ken Chen
2017 J jnl
BreakPoint Surveyor: a pipeline for structural variant visualization.
Bioinform.
Matthew A. Wyczalkowski, Kristine M. Wylie, Song Cao, Michael D. McLellan, Jennifer Flynn, Mo Huang, Kai Ye, Xian Fan, Ken Chen, Michael C. Wendl, Li Ding
2015 J jnl
Genome Modeling System: A Knowledge Management Platform for Genomics.
PLoS Comput. Biol.
Malachi Griffith, Obi L. Griffith, Scott M. Smith, Avinash Ramu, Matthew B. Callaway, Anthony M. Brummett, Michael J. Kiwala, Adam C. Coffman, Allison A. Regier, Benjamin J. Oberkfell, Gabriel E. Sanderson, Thomas P. Mooney, Nathaniel G. Nutter, Edward A. Belter, Feiyu Du, Robert L. Long, Travis E. Abbott, Ian T. Ferguson, David L. Morton, Mark M. Burnett, James V. Weible, Joshua B. Peck, Adam Dukes, Joshua F. McMichael, Justin T. Lolofie, Brian R. Derickson, Jasreet Hundal, Zachary L. Skidmore, Benjamin J. Ainscough, Nathan D. Dees, William S. Schierding, Cyriac Kandoth, Kyung H. Kim, Charles Lu, Christopher C. Harris, Nicole Maher, Christopher A. Maher, Vincent J. Magrini, Benjamin S. Abbott, Ken Chen, Eric Clark, Indraniel Das, Xian Fan, Amy E. Hawkins, Todd G. Hepler, Todd N. Wylie, Shawn M. Leonard, William E. Schroeder, Xiaoqi Shi, Lynn K. Carmichael, Matthew R. Weil, Richard W. Wohlstadter, Gary Stiehr, Michael D. McLellan, Craig S. Pohl, Christopher A. Miller, Daniel C. Koboldt, Jason R. Walker, James M. Eldred, David E. Larson, David J. Dooling, Li Ding, Elaine R. Mardis, Richard K. Wilson
2015 — conf
Research on Collaborative Visualization Application of Dynamic Monitoring Figure Spot.
Smart Graphics
Ken Chen, Ping Liao, Fang Wang, Yuchuan Wang, Pengfei Xiao
2014 J jnl
Bias from removing read duplication in ultra-deep sequencing experiments.
Bioinform.
Wanding Zhou, Tenghui Chen, Hao Zhao, Agda Karina Eterovic, Funda Meric-Bernstam, Gordon B. Mills, Ken Chen
2014 J jnl
Towards accurate characterization of clonal heterogeneity based on structural variation.
BMC Bioinform.
Xian Fan, Wanding Zhou, Zechen Chong, Luay Nakhleh, Ken Chen
2013 Misc conf
Informatics Infrastructure for Routine Personalized Medicine.
AMIA
Elmer V. Bernstam, Ken Chen, Hua Xu, Funda Meric-Bernstam
2013 — conf
Integrated genotyping of structural variation.
GlobalSIP
Xian Fan, Luay Nakhleh, Ken Chen
2012 J jnl
BreakFusion: targeted assembly-based identification of gene fusions in whole transcriptome paired-end sequencing data.
Bioinform.
Ken Chen, John W. Wallis, Cyriac Kandoth, Joelle M. Kalicki-Veizer, Karen L. Mungall, Andrew J. Mungall, Steven J. M. Jones, Marco A. Marra, Timothy J. Ley, Elaine R. Mardis, Richard K. Wilson, John N. Weinstein, Li Ding
2012 J jnl
SomaticSniper: identification of somatic point mutations in whole genome sequencing data.
Bioinform.
David E. Larson, Christopher C. Harris, Ken Chen, Daniel C. Koboldt, Travis E. Abbott, David J. Dooling, Timothy J. Ley, Elaine R. Mardis, Richard K. Wilson, Li Ding
2010 J jnl
CMDS: a population-based method for identifying recurrent DNA copy number aberrations in cancer from high-resolution data.
Bioinform.
Qunyuan Zhang, Li Ding, David E. Larson, Daniel C. Koboldt, Michael D. McLellan, Ken Chen, Xiaoqi Shi, Aldi T. Kraja, Elaine R. Mardis, Richard K. Wilson, Ingrid B. Borecki, Michael A. Province
2009 J jnl
VarScan: variant detection in massively parallel sequencing of individual and pooled samples.
Bioinform.
Daniel C. Koboldt, Ken Chen, Todd Wylie, David E. Larson, Michael D. McLellan, Elaine R. Mardis, George M. Weinstock, Richard K. Wilson, Li Ding
2007 J jnl
On the detection of functionally coherent groups of protein domains with an extension to protein annotation.
BMC Bioinform.
William A. McLaughlin, Ken Chen, Tingjun Hou, Wei Wang
2006 J jnl
Computational Analysis and Prediction of the Binding Motif and Protein Interacting Partners of the Abl SH3 Domain.
PLoS Comput. Biol.
Tingjun Hou, Ken Chen, William A. McLaughlin, Benzhuo Lu, Wei Wang
2006 J jnl
Prosody dependent speech recognition on radio news corpus of American English.
IEEE Trans. Speech Audio Process.
Ken Chen, Mark Hasegawa-Johnson, Aaron Cohen, Sarah Borys, Sung-Suk Kim, Jennifer Cole, Jeung-Yoon Choi
2005 — conf
Landmark-Based Speech Recognition: Report of the 2004 Johns Hopkins Summer Workshop.
ICASSP (1)
Mark Hasegawa-Johnson, James Baker, Sarah Borys, Ken Chen, Emily Coogan, Steven Greenberg, Amit Juneja, Katrin Kirchhoff, Karen Livescu, Srividya Mohan, Jennifer Muller, M. Kemal Sönmez, Tianyu Wang
2005 J jnl
Simultaneous recognition of words and prosody in the Boston University Radio Speech Corpus.
Speech Commun.
Mark Hasegawa-Johnson, Ken Chen, Jennifer Cole, Sarah Borys, Sung-Suk Kim, Aaron Cohen, Tong Zhang, Jeung-Yoon Choi, Heejin Kim, Taejin Yoon
2004 — conf
An automatic prosody labeling system using ANN-based syntactic-prosodic model and GMM-based acoustic-prosodic model.
ICASSP (1)
Ken Chen, Mark Hasegawa-Johnson, Aaron Cohen
2004 J jnl
Automatic recognition of pitch movements using multilayer perceptron and time-Delay Recursive neural network.
IEEE Signal Process. Lett.
Sung-Suk Kim, Mark Hasegawa-Johnson, Ken Chen
2004 A conf
Modeling pronunciation variation using artificial neural networks for English spontaneous speech.
INTERSPEECH
Ken Chen, Mark Hasegawa-Johnson
2003 A conf
Prosody dependent speech recognition with explicit duration modelling at intonational phrase boundaries.
INTERSPEECH
Ken Chen, Sarah Borys, Mark Hasegawa-Johnson, Jennifer Cole
2002 A conf
An evaluation of using mutual information for selection of acoustic-features representation of phonemes for speech recognition.
INTERSPEECH
Mohamed Kamal Omar, Ken Chen, Mark Hasegawa-Johnson, Yigal Brandman