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Amrita Pati
Amrita Pati
Verified email at amgen.com
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Year
A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea
D Wu, P Hugenholtz, K Mavromatis, R Pukall, E Dalin, NN Ivanova, ...
Nature 462 (7276), 1056-1060, 2009
10742009
Insights into secondary metabolism from a global analysis of prokaryotic biosynthetic gene clusters
P Cimermancic, MH Medema, J Claesen, K Kurita, LCW Brown, ...
Cell 158 (2), 412-421, 2014
9392014
Minimum information about a biosynthetic gene cluster
MH Medema, R Kottmann, P Yilmaz, M Cummings, JB Biggins, K Blin, ...
Nature chemical biology 11 (9), 625-631, 2015
8402015
A catalog of reference genomes from the human microbiome
Human Microbiome Jumpstart Reference Strains Consortium, KE Nelson, ...
Science 328 (5981), 994-999, 2010
8352010
Microbial species delineation using whole genome sequences
NJ Varghese, S Mukherjee, N Ivanova, KT Konstantinidis, K Mavrommatis, ...
Nucleic acids research 43 (14), 6761-6771, 2015
6792015
IMG 4 version of the integrated microbial genomes comparative analysis system
VM Markowitz, IMA Chen, K Palaniappan, K Chu, E Szeto, M Pillay, ...
Nucleic acids research 42 (D1), D560-D567, 2014
5922014
GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes
A Pati, NN Ivanova, N Mikhailova, G Ovchinnikova, SD Hooper, A Lykidis, ...
Nature methods 7 (6), 455-457, 2010
5792010
Complete genome sequence of DSM 30083T, the type strain (U5/41T) of Escherichia coli, and a proposal for delineating subspecies in microbial taxonomy
JP Meier-Kolthoff, RL Hahnke, J Petersen, C Scheuner, V Michael, ...
Standards in genomic sciences 9, 1-19, 2014
4682014
The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v. 4)
M Huntemann, NN Ivanova, K Mavromatis, HJ Tripp, D Paez-Espino, ...
Standards in genomic sciences 10, 1-6, 2015
4072015
IMG/M 4 version of the integrated metagenome comparative analysis system
VM Markowitz, IMA Chen, K Chu, E Szeto, K Palaniappan, M Pillay, ...
Nucleic acids research 42 (D1), D568-D573, 2014
3152014
The complete genome sequence of the algal symbiont Dinoroseobacter shibae: a hitchhiker's guide to life in the sea
I Wagner-Döbler, B Ballhausen, M Berger, T Brinkhoff, I Buchholz, B Bunk, ...
The ISME journal 4 (1), 61-77, 2010
2892010
IMG/M: the integrated metagenome data management and comparative analysis system
VM Markowitz, IMA Chen, K Chu, E Szeto, K Palaniappan, Y Grechkin, ...
Nucleic acids research 40 (D1), D123-D129, 2012
2872012
1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life
S Mukherjee, R Seshadri, NJ Varghese, EA Eloe-Fadrosh, ...
Nature biotechnology 35 (7), 676-683, 2017
2442017
Genome-wide selective sweeps and gene-specific sweeps in natural bacterial populations
ML Bendall, SLR Stevens, LK Chan, S Malfatti, P Schwientek, J Tremblay, ...
The ISME journal 10 (7), 1589-1601, 2016
2322016
Large-scale contamination of microbial isolate genomes by Illumina PhiX control
S Mukherjee, M Huntemann, N Ivanova, NC Kyrpides, A Pati
Standards in genomic sciences 10, 1-4, 2015
1602015
Global metagenomic survey reveals a new bacterial candidate phylum in geothermal springs
EA Eloe-Fadrosh, D Paez-Espino, J Jarett, PF Dunfield, BP Hedlund, ...
Nature communications 7 (1), 10476, 2016
1592016
Stop codon reassignments in the wild
NN Ivanova, P Schwientek, HJ Tripp, C Rinke, A Pati, M Huntemann, ...
Science 344 (6186), 909-913, 2014
1422014
Genomic potential of Marinobacter aquaeolei, a biogeochemical “opportunitroph”
E Singer, EA Webb, WC Nelson, JF Heidelberg, N Ivanova, A Pati, ...
Applied and environmental microbiology 77 (8), 2763-2771, 2011
1382011
Complete genome sequence of Kytococcus sedentarius type strain (541T)
D Sims, T Brettin, JC Detter, C Han, A Lapidus, A Copeland, TG Del Rio, ...
Standards in Genomic Sciences 1, 12-21, 2009
1252009
Genome sequence of “Candidatus Frankia datiscae” Dg1, the uncultured microsymbiont from nitrogen-fixing root nodules of the dicot Datisca glomerata
T Persson, DR Benson, P Normand, B Vanden Heuvel, P Pujic, ...
Journal of Bacteriology 193 (24), 7017-7018, 2011
1192011
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