PubRank

Christopher B Burge

Author PubWeight™ 521.12‹?›

Top papers

Rank Title Journal Year PubWeight™‹?›
1 Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell 2005 96.87
2 Prediction of mammalian microRNA targets. Cell 2003 53.70
3 Alternative isoform regulation in human tissue transcriptomes. Nature 2008 52.76
4 Most mammalian mRNAs are conserved targets of microRNAs. Genome Res 2008 37.16
5 The widespread impact of mammalian MicroRNAs on mRNA repression and evolution. Science 2005 20.51
6 A uniform system for microRNA annotation. RNA 2003 20.28
7 Prediction of plant microRNA targets. Cell 2002 19.20
8 The microRNAs of Caenorhabditis elegans. Genes Dev 2003 17.70
9 Vertebrate microRNA genes. Science 2003 17.42
10 Predictive identification of exonic splicing enhancers in human genes. Science 2002 16.86
11 c-Myc regulates transcriptional pause release. Cell 2010 11.64
12 Proliferating cells express mRNAs with shortened 3' untranslated regions and fewer microRNA target sites. Science 2008 11.33
13 Analysis and design of RNA sequencing experiments for identifying isoform regulation. Nat Methods 2010 10.13
14 Maximum entropy modeling of short sequence motifs with applications to RNA splicing signals. J Comput Biol 2004 9.00
15 Systematic identification and analysis of exonic splicing silencers. Cell 2004 8.50
16 Transcriptional amplification in tumor cells with elevated c-Myc. Cell 2012 8.24
17 An abundance of ubiquitously expressed genes revealed by tissue transcriptome sequence data. PLoS Comput Biol 2009 7.47
18 Determinants of targeting by endogenous and exogenous microRNAs and siRNAs. RNA 2007 6.44
19 Splicing regulation: from a parts list of regulatory elements to an integrated splicing code. RNA 2008 6.29
20 Variation in alternative splicing across human tissues. Genome Biol 2004 5.70
21 Identification and analysis of alternative splicing events conserved in human and mouse. Proc Natl Acad Sci U S A 2005 5.26
22 Dynamic regulation of miRNA expression in ordered stages of cellular development. Genes Dev 2007 4.79
23 Evolutionary dynamics of gene and isoform regulation in Mammalian tissues. Science 2012 4.52
24 General and specific functions of exonic splicing silencers in splicing control. Mol Cell 2006 3.76
25 Biased chromatin signatures around polyadenylation sites and exons. Mol Cell 2009 3.74
26 RESCUE-ESE identifies candidate exonic splicing enhancers in vertebrate exons. Nucleic Acids Res 2004 3.70
27 Revisiting global gene expression analysis. Cell 2012 3.63
28 Braveheart, a long noncoding RNA required for cardiovascular lineage commitment. Cell 2013 3.35
29 Variation in sequence and organization of splicing regulatory elements in vertebrate genes. Proc Natl Acad Sci U S A 2004 3.34
30 A postnatal switch of CELF and MBNL proteins reprograms alternative splicing in the developing heart. Proc Natl Acad Sci U S A 2008 3.33
31 Transcriptome-wide regulation of pre-mRNA splicing and mRNA localization by muscleblind proteins. Cell 2012 3.20
32 An EMT-driven alternative splicing program occurs in human breast cancer and modulates cellular phenotype. PLoS Genet 2011 2.99
33 Widespread selection for local RNA secondary structure in coding regions of bacterial genes. Genome Res 2003 2.81
34 Single nucleotide polymorphism-based validation of exonic splicing enhancers. PLoS Biol 2004 2.77
35 Promoter directionality is controlled by U1 snRNP and polyadenylation signals. Nature 2013 2.63
36 Direct measurement of DNA affinity landscapes on a high-throughput sequencing instrument. Nat Biotechnol 2011 2.60
37 Identification of let-7-regulated oncofetal genes. Cancer Res 2008 2.56
38 MBNL proteins repress ES-cell-specific alternative splicing and reprogramming. Nature 2013 2.49
39 A combinatorial code for splicing silencing: UAGG and GGGG motifs. PLoS Biol 2005 2.48
40 Patterns of flanking sequence conservation and a characteristic upstream motif for microRNA gene identification. RNA 2004 2.17
41 Splice site strength-dependent activity and genetic buffering by poly-G runs. Nat Struct Mol Biol 2009 1.99
42 SR proteins collaborate with 7SK and promoter-associated nascent RNA to release paused polymerase. Cell 2013 1.97
43 Widespread regulation of translation by elongation pausing in heat shock. Mol Cell 2013 1.85
44 Recognition of unknown conserved alternatively spliced exons. PLoS Comput Biol 2005 1.77
45 DNA sequence evolution with neighbor-dependent mutation. J Comput Biol 2003 1.76
46 Patterns of intron gain and loss in fungi. PLoS Biol 2004 1.72
47 Alternative splicing of RNA triplets is often regulated and accelerates proteome evolution. PLoS Biol 2012 1.71
48 Inference of splicing regulatory activities by sequence neighborhood analysis. PLoS Genet 2006 1.71
49 HOLLYWOOD: a comparative relational database of alternative splicing. Nucleic Acids Res 2006 1.66
50 Coevolutionary networks of splicing cis-regulatory elements. Proc Natl Acad Sci U S A 2007 1.54
51 A transcriptional response to replication status mediated by the conserved bacterial replication protein DnaA. Proc Natl Acad Sci U S A 2005 1.54
52 Global regulation of alternative splicing during myogenic differentiation. Nucleic Acids Res 2010 1.39
53 Global analyses of UPF1 binding and function reveal expanded scope of nonsense-mediated mRNA decay. Genome Res 2013 1.39
54 A latent pro-survival function for the mir-290-295 cluster in mouse embryonic stem cells. PLoS Genet 2011 1.31
55 A complex network of factors with overlapping affinities represses splicing through intronic elements. Nat Struct Mol Biol 2012 1.26
56 Hepatitis C virus infection and hepatic stellate cell activation downregulate miR-29: miR-29 overexpression reduces hepatitis C viral abundance in culture. J Infect Dis 2011 1.20
57 3' UTR-isoform choice has limited influence on the stability and translational efficiency of most mRNAs in mouse fibroblasts. Genome Res 2013 1.10
58 Detection of broadly expressed neuronal genes in C. elegans. Dev Biol 2006 1.03
59 Linking C5 deficiency to an exonic splicing enhancer mutation. J Immunol 2005 1.03
60 The cardiotonic steroid digitoxin regulates alternative splicing through depletion of the splicing factors SRSF3 and TRA2B. RNA 2012 1.00
61 Weak definition of IKBKAP exon 20 leads to aberrant splicing in familial dysautonomia. Hum Mutat 2007 0.93
62 Genome-wide impact of a recently expanded microRNA cluster in mouse. Proc Natl Acad Sci U S A 2011 0.92
63 Reduced expression of ribosomal proteins relieves microRNA-mediated repression. Mol Cell 2012 0.88
64 Ab initio identification of functionally interacting pairs of cis-regulatory elements. Genome Res 2008 0.88
65 MicroRNA target finding by comparative genomics. Methods Mol Biol 2014 0.80
66 Gene structure prediction using an orthologous gene of known exon-intron structure. Appl Bioinformatics 2004 0.77
67 Genomic analysis of RNA localization. RNA Biol 2014 0.76
68 Untangling influences of hydrophobicity on protein sequences and structures. Proteins 2006 0.75