PubRank

Nitin S Baliga

Author PubWeight™ 171.71‹?›

Top papers

Rank Title Journal Year PubWeight™‹?›
1 Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res 2003 103.76
2 The Inferelator: an algorithm for learning parsimonious regulatory networks from systems-biology data sets de novo. Genome Biol 2006 5.22
3 CTCF physically links cohesin to chromatin. Proc Natl Acad Sci U S A 2008 4.89
4 Visualization of omics data for systems biology. Nat Methods 2010 4.59
5 The Gaggle: an open-source software system for integrating bioinformatics software and data sources. BMC Bioinformatics 2006 4.05
6 A predictive model for transcriptional control of physiology in a free living cell. Cell 2007 3.35
7 Peroxiredoxins are conserved markers of circadian rhythms. Nature 2012 2.95
8 Integrated biclustering of heterogeneous genome-wide datasets for the inference of global regulatory networks. BMC Bioinformatics 2006 2.57
9 Catabolite control protein A (CcpA) contributes to virulence and regulation of sugar metabolism in Streptococcus pneumoniae. J Bacteriol 2005 2.09
10 Model-based deconvolution of genome-wide DNA binding. Bioinformatics 2007 1.70
11 Prevalence of transcription promoters within archaeal operons and coding sequences. Mol Syst Biol 2009 1.62
12 The Firegoose: two-way integration of diverse data from different bioinformatics web resources with desktop applications. BMC Bioinformatics 2007 1.51
13 General transcription factor specified global gene regulation in archaea. Proc Natl Acad Sci U S A 2007 1.42
14 A miRNA-regulatory network explains how dysregulated miRNAs perturb oncogenic processes across diverse cancers. Genome Res 2012 1.37
15 A systems view of haloarchaeal strategies to withstand stress from transition metals. Genome Res 2006 1.35
16 The anatomy of microbial cell state transitions in response to oxygen. Genome Res 2007 1.26
17 Comprehensive de novo structure prediction in a systems-biology context for the archaea Halobacterium sp. NRC-1. Genome Biol 2004 1.25
18 Proteomic analysis of an extreme halophilic archaeon, Halobacterium sp. NRC-1. Mol Cell Proteomics 2003 1.15
19 Parallel evolution of transcriptome architecture during genome reorganization. Genome Res 2011 1.14
20 Low-pass sequencing for microbial comparative genomics. BMC Genomics 2004 1.11
21 An integrated systems approach for understanding cellular responses to gamma radiation. Mol Syst Biol 2006 1.11
22 metaXCMS: second-order analysis of untargeted metabolomics data. Anal Chem 2010 1.10
23 A single transcription factor regulates evolutionarily diverse but functionally linked metabolic pathways in response to nutrient availability. Mol Syst Biol 2009 1.07
24 miRvestigator: web application to identify miRNAs responsible for co-regulated gene expression patterns discovered through transcriptome profiling. Nucleic Acids Res 2011 1.04
25 Coordination of frontline defense mechanisms under severe oxidative stress. Mol Syst Biol 2010 1.04
26 Halobacterium salinarum NRC-1 PeptideAtlas: toward strategies for targeted proteomics and improved proteome coverage. J Proteome Res 2008 1.03
27 Integration and visualization of systems biology data in context of the genome. BMC Bioinformatics 2010 1.02
28 Mapping and manipulating the Mycobacterium tuberculosis transcriptome using a transcription factor overexpression-derived regulatory network. Genome Biol 2014 0.99
29 Global analysis of mRNA stability in Mycobacterium tuberculosis. Nucleic Acids Res 2012 0.98
30 The role of predictive modelling in rationally re-engineering biological systems. Nat Rev Microbiol 2009 0.96
31 Genome-wide diel growth state transitions in the diatom Thalassiosira pseudonana. Proc Natl Acad Sci U S A 2013 0.95
32 Diurnally entrained anticipatory behavior in archaea. PLoS One 2009 0.94
33 A major role for nonenzymatic antioxidant processes in the radioresistance of Halobacterium salinarum. J Bacteriol 2011 0.93
34 A role for programmed cell death in the microbial loop. PLoS One 2013 0.92
35 Niche adaptation by expansion and reprogramming of general transcription factors. Mol Syst Biol 2011 0.92
36 Two transcription factors are necessary for iron homeostasis in a salt-dwelling archaeon. Nucleic Acids Res 2010 0.90
37 A systems level predictive model for global gene regulation of methanogenesis in a hydrogenotrophic methanogen. Genome Res 2013 0.87
38 Effects of H2 and formate on growth yield and regulation of methanogenesis in Methanococcus maripaludis. J Bacteriol 2013 0.87
39 Molecular mechanisms of system responses to novel stimuli are predictable from public data. Nucleic Acids Res 2013 0.85
40 Large scale physiological readjustment during growth enables rapid, comprehensive and inexpensive systems analysis. BMC Syst Biol 2010 0.84
41 Genome sequence of "Candidatus Microthrix parvicella" Bio17-1, a long-chain-fatty-acid-accumulating filamentous actinobacterium from a biological wastewater treatment plant. J Bacteriol 2012 0.84
42 Adaptation of cells to new environments. Wiley Interdiscip Rev Syst Biol Med 2010 0.82
43 Network portal: a database for storage, analysis and visualization of biological networks. Nucleic Acids Res 2013 0.81
44 Metallochaperones regulate intracellular copper levels. PLoS Comput Biol 2013 0.81
45 Intracytoplasmic copper homeostasis controls cytochrome c oxidase production. MBio 2014 0.80
46 Specificity of anion binding in the substrate pocket of bacteriorhodopsin. Biochemistry 2004 0.80
47 An evolutionarily conserved RNase-based mechanism for repression of transcriptional positive autoregulation. Mol Microbiol 2014 0.80
48 Model organisms retain an "ecological memory" of complex ecologically relevant environmental variation. Appl Environ Microbiol 2014 0.78
49 Modeling the evolution of C4 photosynthesis. Cell 2013 0.76
50 Sense overlapping transcripts in IS1341-type transposase genes are functional non-coding RNAs in archaea. RNA Biol 2015 0.76
51 GTC: A web server for integrating systems biology data with web tools and desktop applications. Source Code Biol Med 2010 0.75
52 Architecture for interoperable software in biology. Brief Bioinform 2012 0.75
53 Reverse engineering systems models of regulation: discovery, prediction and mechanisms. Curr Opin Biotechnol 2011 0.75
54 Harnessing the power of human tumor-derived cell lines for the rational design of cancer therapies. Pigment Cell Melanoma Res 2012 0.75
55 Bicluster Sampled Coherence Metric (BSCM) provides an accurate environmental context for phenotype predictions. BMC Syst Biol 2015 0.75
56 The universe under a microscope. Environ Microbiol Rep 2015 0.75