Eric J. Alm

15 papers B 1Journal 14
YearRankTypeTitle / Venue / Authors
2022 J jnl
MicrobiomeCensus estimates human population sizes from wastewater samples based on inter-individual variability in gut microbiomes.
PLoS Comput. Biol.
Lin Zhang, Likai Chen, Xiaoqian (annie) Yu, Claire Duvallet, Siavash Isazadeh, Chengzhen Dai, Shinkyu Park, Katya Frois-Moniz, Fabio Duarte, Carlo Ratti, Eric J. Alm, Fangqiong Ling
2020 J jnl
Longitudinal wastewater sampling in buildings reveals temporal dynamics of metabolites.
PLoS Comput. Biol.
Ethan D. Evans, Chengzhen Dai, Siavash Isazadeh, Shinkyu Park, Carlo Ratti, Eric J. Alm
2018 J jnl
Correcting for batch effects in case-control microbiome studies.
PLoS Comput. Biol.
Sean M. Gibbons, Claire Duvallet, Eric J. Alm
2017 J jnl
Two dynamic regimes in the human gut microbiome.
PLoS Comput. Biol.
Sean M. Gibbons, Sean M. Kearney, Chris S. Smillie, Eric J. Alm
2016 J jnl
Mobile genes in the human microbiome are structured from global to individual scales.
Nat.
Ilana L. Brito, Suzan A. Yilmaz, K. Huang, Liyi Xu, Stacy D. Jupiter, Aaron P. Jenkins, Waisea Naisilisili, Manu V. Tamminen, Chris S. Smillie, Jennifer R. Wortman, Bruce W. Birren, Ramnik J. Xavier, Paul C. Blainey, A. K. Singh, Dirk Gevers, Eric J. Alm
2015 J jnl
Improved gene tree error correction in the presence of horizontal gene transfer.
Bioinform.
Mukul S. Bansal, Yi-Chieh Wu, Eric J. Alm, Manolis Kellis
2013 B conf
Reconciliation Revisited: Handling Multiple Optima When Reconciling with Duplication, Transfer, and Loss.
RECOMB
Mukul S. Bansal, Eric J. Alm, Manolis Kellis
2013 J jnl
Reconciliation Revisited: Handling Multiple Optima when Reconciling with Duplication, Transfer, and Loss.
J. Comput. Biol.
Mukul S. Bansal, Eric J. Alm, Manolis Kellis
2012 J jnl
Efficient algorithms for the reconciliation problem with gene duplication, horizontal transfer and loss.
Bioinform.
Mukul S. Bansal, Eric J. Alm, Manolis Kellis
2012 J jnl
Inferring Correlation Networks from Genomic Survey Data.
PLoS Comput. Biol.
Jonathan Friedman, Eric J. Alm
2010 J jnl
Local Gene Regulation Details a Recognition Code within the LacI Transcriptional Factor Family.
PLoS Comput. Biol.
Francisco M. Camas, Eric J. Alm, Juan F. Poyatos
2010 J jnl
MicrobesOnline: an integrated portal for comparative and functional genomics.
Nucleic Acids Res.
Paramvir S. Dehal, Marcin P. Joachimiak, Morgan N. Price, John T. Bates, Jason K. Baumohl, Dylan Chivian, Greg D. Friedland, Katherine H. Huang, Keith Keller, Pavel S. Novichkov, Inna Dubchak, Eric J. Alm, Adam P. Arkin
2006 J jnl
OpWise: Operons aid the identification of differentially expressed genes in bacterial microarray experiments.
BMC Bioinform.
Morgan N. Price, Adam P. Arkin, Eric J. Alm
2006 J jnl
The Evolution of Two-Component Systems in Bacteria Reveals Different Strategies for Niche Adaptation.
PLoS Comput. Biol.
Eric J. Alm, Katherine H. Huang, Adam P. Arkin
2005 J jnl
Dissimilatory Metabolism of Nitrogen Oxides in Bacteria: Comparative Reconstruction of Transcriptional Networks.
PLoS Comput. Biol.
Dmitry A. Rodionov, Inna Dubchak, Adam P. Arkin, Eric J. Alm, Mikhail S. Gelfand