Jed A. Fuhrman

14 papers Journal 14
YearRankTypeTitle / Venue / Authors
2024 J jnl
DeepLINK-T: deep learning inference for time series data using knockoffs and LSTM.
CoRR
Wenxuan Zuo, Zifan Zhu, Yuxuan Du, Yi-Chun Yeh, Jed A. Fuhrman, Jinchi Lv, Yingying Fan, Fengzhu Sun
2022 J jnl
Normalizing Metagenomic Hi-C Data and Detecting Spurious Contacts Using Zero-Inflated Negative Binomial Regression.
J. Comput. Biol.
Yuxuan Du, Sarah M. Laperriere, Jed A. Fuhrman, Fengzhu Sun
2022 J jnl
Phage-bacterial contig association prediction with a convolutional neural network.
Bioinform.
Tianqi Tang, Shengwei Hou, Jed A. Fuhrman, Fengzhu Sun
2021 J jnl
Corrigendum to: Assessment of metagenomic assemblers based on hybrid reads of real and simulated metagenomic sequences.
Briefings Bioinform.
Ziye Wang, Ying Wang, Jed A. Fuhrman, Fengzhu Sun, Shanfeng Zhu
2020 J jnl
Assessment of metagenomic assemblers based on hybrid reads of real and simulated metagenomic sequences.
Briefings Bioinform.
Ziye Wang, Ying Wang, Jed A. Fuhrman, Fengzhu Sun, Shanfeng Zhu
2020 J jnl
Identifying viruses from metagenomic data using deep learning.
Quant. Biol.
Jie Ren, Kai Song, Chao Deng, Nathan A. Ahlgren, Jed A. Fuhrman, Yi Li, Xiaohui Xie, Ryan Poplin, Fengzhu Sun
2017 J jnl
CAFE: aCcelerated Alignment-FrEe sequence analysis.
Nucleic Acids Res.
Yang Young Lu, Kujin Tang, Jie Ren, Jed A. Fuhrman, Michael S. Waterman, Fengzhu Sun
2017 J jnl
COCACOLA: binning metagenomic contigs using sequence COmposition, read CoverAge, CO-alignment and paired-end read LinkAge.
Bioinform.
Yang Young Lu, Ting Chen, Jed A. Fuhrman, Fengzhu Sun
2017 J jnl
Prediction of virus-host infectious association by supervised learning methods.
BMC Bioinform.
Mengge Zhang, Lianping Yang, Jie Ren, Nathan A. Ahlgren, Jed A. Fuhrman, Fengzhu Sun
2015 J jnl
Statistical significance approximation in local trend analysis of high-throughput time-series data using the theory of Markov chains.
BMC Bioinform.
Li C. Xia, Dongmei Ai, Jacob A. Cram, Xiaoyi Liang, Jed A. Fuhrman, Fengzhu Sun
2013 J jnl
Efficient statistical significance approximation for local similarity analysis of high-throughput time series data.
Bioinform.
Li C. Xia, Dongmei Ai, Jacob A. Cram, Jed A. Fuhrman, Fengzhu Sun
2011 J jnl
Extended local similarity analysis (eLSA) of microbial community and other time series data with replicates.
BMC Syst. Biol.
Li C. Xia, Joshua A. Steele, Jacob A. Cram, Zoe G. Cardon, Sheri L. Simmons, Joseph J. Vallino, Jed A. Fuhrman, Fengzhu Sun
2006 J jnl
A dynamic programming algorithm for binning microbial community profiles.
Bioinform.
Quansong Ruan, Joshua A. Steele, Michael S. Schwalbach, Jed A. Fuhrman, Fengzhu Sun
2006 J jnl
Local similarity analysis reveals unique associations among marine bacterioplankton species and environmental factors.
Bioinform.
Quansong Ruan, Debojyoti Dutta, Michael S. Schwalbach, Joshua A. Steele, Jed A. Fuhrman, Fengzhu Sun