PubRank

Paul Pavlidis

Author PubWeight™ 101.43‹?›

Top papers

Rank Title Journal Year PubWeight™‹?›
1 Coexpression analysis of human genes across many microarray data sets. Genome Res 2004 9.38
2 ErmineJ: tool for functional analysis of gene expression data sets. BMC Bioinformatics 2005 4.98
3 Experimental comparison and cross-validation of the Affymetrix and Illumina gene expression analysis platforms. Nucleic Acids Res 2005 4.41
4 Altered brain microRNA biogenesis contributes to phenotypic deficits in a 22q11-deletion mouse model. Nat Genet 2008 3.76
5 Zac1 regulates an imprinted gene network critically involved in the control of embryonic growth. Dev Cell 2006 3.67
6 Hierarchical model of gene regulation by transforming growth factor beta. Proc Natl Acad Sci U S A 2003 2.37
7 Classification of clear-cell sarcoma as a subtype of melanoma by genomic profiling. J Clin Oncol 2003 2.18
8 Gene Ontology term overlap as a measure of gene functional similarity. BMC Bioinformatics 2008 2.10
9 Histone deacetylase inhibition elicits an evolutionarily conserved self-renewal program in embryonic stem cells. Cell Stem Cell 2009 2.09
10 Molecular aging in human prefrontal cortex is selective and continuous throughout adult life. Biol Psychiatry 2005 2.06
11 Classification and subtype prediction of adult soft tissue sarcoma by functional genomics. Am J Pathol 2003 1.94
12 Transcriptional and behavioral interaction between 22q11.2 orthologs modulates schizophrenia-related phenotypes in mice. Nat Neurosci 2005 1.91
13 Activation of MAPK pathways links LMNA mutations to cardiomyopathy in Emery-Dreifuss muscular dystrophy. J Clin Invest 2007 1.87
14 Inducible enhancement of memory storage and synaptic plasticity in transgenic mice expressing an inhibitor of ATF4 (CREB-2) and C/EBP proteins. Neuron 2003 1.80
15 The impact of multifunctional genes on "guilt by association" analysis. PLoS One 2011 1.69
16 Subtype-specific peripheral blood gene expression profiles in recent-onset juvenile idiopathic arthritis. Arthritis Rheum 2009 1.56
17 Sharing and reusing gene expression profiling data in neuroscience. Neuroinformatics 2007 1.50
18 Relationships between gene expression and brain wiring in the adult rodent brain. PLoS Comput Biol 2011 1.47
19 "Guilt by association" is the exception rather than the rule in gene networks. PLoS Comput Biol 2012 1.45
20 Akt1 deficiency affects neuronal morphology and predisposes to abnormalities in prefrontal cortex functioning. Proc Natl Acad Sci U S A 2006 1.44
21 Altered hippocampal transcript profile accompanies an age-related spatial memory deficit in mice. Learn Mem 2004 1.43
22 beta-catenin/TCF/Lef controls a differentiation-associated transcriptional program in renal epithelial progenitors. Development 2007 1.42
23 Activation of MAPK in hearts of EMD null mice: similarities between mouse models of X-linked and autosomal dominant Emery Dreifuss muscular dystrophy. Hum Mol Genet 2007 1.38
24 Sex genes for genomic analysis in human brain: internal controls for comparison of probe level data extraction. BMC Bioinformatics 2003 1.36
25 Cutting edge: STAT6 serves as a positive and negative regulator of gene expression in IL-4-stimulated B lymphocytes. J Immunol 2002 1.35
26 Gene expression profiling of depression and suicide in human prefrontal cortex. Neuropsychopharmacology 2004 1.33
27 Transcriptomes in healthy and diseased gingival tissues. J Periodontol 2008 1.30
28 Diverse epigenetic strategies interact to control epidermal differentiation. Nat Cell Biol 2012 1.29
29 Gemma: a resource for the reuse, sharing and meta-analysis of expression profiling data. Bioinformatics 2012 1.28
30 Gene function analysis in complex data sets using ErmineJ. Nat Protoc 2010 1.16
31 Gene expression signatures in polyarticular juvenile idiopathic arthritis demonstrate disease heterogeneity and offer a molecular classification of disease subsets. Arthritis Rheum 2009 1.15
32 Transcriptional changes in Huntington disease identified using genome-wide expression profiling and cross-platform analysis. Hum Mol Genet 2010 1.14
33 A Mendelian locus on chromosome 16 determines susceptibility to doxorubicin nephropathy in the mouse. Proc Natl Acad Sci U S A 2005 1.11
34 Understanding the impact of 1q21.1 copy number variant. Orphanet J Rare Dis 2011 1.11
35 The role of indirect connections in gene networks in predicting function. Bioinformatics 2011 1.10
36 Genomic signatures predict migration and spawning failure in wild Canadian salmon. Science 2011 1.10
37 Subgingival bacterial colonization profiles correlate with gingival tissue gene expression. BMC Microbiol 2009 1.07
38 Neurocarta: aggregating and sharing disease-gene relations for the neurosciences. BMC Genomics 2013 1.06
39 Assessing identity, redundancy and confounds in Gene Ontology annotations over time. Bioinformatics 2013 1.01
40 Automated recognition of brain region mentions in neuroscience literature. Front Neuroinform 2009 1.00
41 Informatics in neuroscience. Brief Bioinform 2007 0.98
42 An ancestral haplotype defines susceptibility to doxorubicin nephropathy in the laboratory mouse. J Am Soc Nephrol 2006 0.97
43 A methodology for the analysis of differential coexpression across the human lifespan. BMC Bioinformatics 2009 0.96
44 Using text mining to link journal articles to neuroanatomical databases. J Comp Neurol 2012 0.95
45 Pitfalls in the application of gene-set analysis to genetics studies. Trends Genet 2014 0.95
46 Periodontal therapy alters gene expression of peripheral blood monocytes. J Clin Periodontol 2007 0.93
47 Large-Scale Analysis of Gene Expression and Connectivity in the Rodent Brain: Insights through Data Integration. Front Neuroinform 2011 0.93
48 Meta-analysis of gene coexpression networks in the post-mortem prefrontal cortex of patients with schizophrenia and unaffected controls. BMC Neurosci 2013 0.90
49 Differential amplification of gene expression in lens cell lines conditioned to survive peroxide stress. Invest Ophthalmol Vis Sci 2002 0.90
50 Gene expression signatures in chronic and aggressive periodontitis: a pilot study. Eur J Oral Sci 2004 0.89
51 Application and evaluation of automated semantic annotation of gene expression experiments. Bioinformatics 2009 0.89
52 Characterizing the state of the art in the computational assignment of gene function: lessons from the first critical assessment of functional annotation (CAFA). BMC Bioinformatics 2013 0.88
53 Application and evaluation of automated methods to extract neuroanatomical connectivity statements from free text. Bioinformatics 2012 0.88
54 Prenatal alcohol exposure alters steady-state and activated gene expression in the adult rat brain. Alcohol Clin Exp Res 2015 0.87
55 Decoding unattended fearful faces with whole-brain correlations: an approach to identify condition-dependent large-scale functional connectivity. PLoS Comput Biol 2012 0.87
56 Consequences of high temperatures and premature mortality on the transcriptome and blood physiology of wild adult sockeye salmon (Oncorhynchus nerka). Ecol Evol 2012 0.84
57 Neuron-Enriched Gene Expression Patterns are Regionally Anti-Correlated with Oligodendrocyte-Enriched Patterns in the Adult Mouse and Human Brain. Front Neurosci 2013 0.84
58 Meta-analysis of kindling-induced gene expression changes in the rat hippocampus. Front Neurosci 2009 0.84
59 Copy number variants (CNVs) analysis in a deeply phenotyped cohort of individuals with intellectual disability (ID). BMC Med Genet 2014 0.84
60 FTO, obesity and the adolescent brain. Hum Mol Genet 2012 0.83
61 KCTD8 gene and brain growth in adverse intrauterine environment: a genome-wide association study. Cereb Cortex 2011 0.82
62 Cortical functional connectivity decodes subconscious, task-irrelevant threat-related emotion processing. Neuroimage 2012 0.82
63 miRNA and miRNA target genes in copy number variations occurring in individuals with intellectual disability. BMC Genomics 2013 0.82
64 Bioinformatics techniques in microarray research: applied microarray data analysis using R and SAS software. Methods Mol Biol 2010 0.80
65 Microarray analysis of gene expression following the formalin test in the infant rat. Pain 2005 0.78
66 The NeuroDevNet Neuroinformatics Core. Semin Pediatr Neurol 2011 0.77
67 Cluster analysis of genes with significant change in expression in cells conditioned to survive TBOOH. Exp Eye Res 2004 0.77
68 Integration of Neuroimaging and Microarray Datasets through Mapping and Model-Theoretic Semantic Decomposition of Unstructured Phenotypes. Cancer Inform 2009 0.77
69 Expansion of the QARS deficiency phenotype with report of a family with isolated supratentorial brain abnormalities. Neurogenetics 2014 0.77
70 Integration of Neuroimaging and Microarray Datasets through Mapping and Model-Theoretic Semantic Decomposition of Unstructured Phenotypes. Summit on Translat Bioinforma 2009 0.75