PubRank

Desmond G Higgins

Author PubWeight™ 140.51‹?›

Top papers

Rank Title Journal Year PubWeight™‹?›
1 Multiple sequence alignment with the Clustal series of programs. Nucleic Acids Res 2003 38.75
2 Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega. Mol Syst Biol 2011 28.61
3 3DCoffee: combining protein sequences and structures within multiple sequence alignments. J Mol Biol 2004 6.01
4 M-Coffee: combining multiple sequence alignment methods with T-Coffee. Nucleic Acids Res 2006 4.53
5 Comparison and evaluation of methods for generating differentially expressed gene lists from microarray data. BMC Bioinformatics 2006 3.31
6 Between-group analysis of microarray data. Bioinformatics 2002 2.71
7 R-Coffee: a method for multiple alignment of non-coding RNA. Nucleic Acids Res 2008 2.69
8 MADE4: an R package for multivariate analysis of gene expression data. Bioinformatics 2005 2.66
9 Analysis and comparison of benchmarks for multiple sequence alignment. In Silico Biol 2006 2.33
10 Sequence embedding for fast construction of guide trees for multiple sequence alignment. Algorithms Mol Biol 2010 2.15
11 Clustal Omega, accurate alignment of very large numbers of sequences. Methods Mol Biol 2014 2.11
12 Multiple sequence alignments. Curr Opin Struct Biol 2005 2.05
13 Cross-platform comparison and visualisation of gene expression data using co-inertia analysis. BMC Bioinformatics 2003 1.93
14 The M-Coffee web server: a meta-method for computing multiple sequence alignments by combining alternative alignment methods. Nucleic Acids Res 2007 1.84
15 Widespread dysregulation of MiRNAs by MYCN amplification and chromosomal imbalances in neuroblastoma: association of miRNA expression with survival. PLoS One 2009 1.55
16 Co-regulation of Gremlin and Notch signalling in diabetic nephropathy. Biochim Biophys Acta 2007 1.44
17 A multivariate analysis approach to the integration of proteomic and gene expression data. Proteomics 2007 1.39
18 Temporal change in gene expression in the rat dentate gyrus following passive avoidance learning. J Neurochem 2007 1.37
19 Altered cytoplasmic-to-nuclear ratio of survivin is a prognostic indicator in breast cancer. Clin Cancer Res 2008 1.34
20 Comparative proteomics profiling of a phospholamban mutant mouse model of dilated cardiomyopathy reveals progressive intracellular stress responses. Mol Cell Proteomics 2007 1.31
21 Influence of acute phytochemical intake on human urinary metabolomic profiles. Am J Clin Nutr 2007 1.29
22 Structural and functional properties of genes involved in human cancer. BMC Genomics 2006 1.29
23 GWIPS-viz: development of a ribo-seq genome browser. Nucleic Acids Res 2013 1.28
24 CENP-F expression is associated with poor prognosis and chromosomal instability in patients with primary breast cancer. Int J Cancer 2007 1.17
25 Evaluation of iterative alignment algorithms for multiple alignment. Bioinformatics 2004 1.14
26 Regulation of the hypoxic response in Candida albicans. Eukaryot Cell 2010 1.11
27 Making automated multiple alignments of very large numbers of protein sequences. Bioinformatics 2013 1.11
28 Using RNA-seq to determine the transcriptional landscape and the hypoxic response of the pathogenic yeast Candida parapsilosis. BMC Genomics 2011 1.10
29 Application of DNA microarray technology in determining breast cancer prognosis and therapeutic response. Expert Opin Biol Ther 2005 1.10
30 Integrating transcription factor binding site information with gene expression datasets. Bioinformatics 2006 1.10
31 The copper regulon of the human fungal pathogen Cryptococcus neoformans H99. Mol Microbiol 2011 1.08
32 Identification of novel inter-genotypic recombinants of human hepatitis B viruses by large-scale phylogenetic analysis. Virology 2012 1.08
33 R-Coffee: a web server for accurately aligning noncoding RNA sequences. Nucleic Acids Res 2008 1.07
34 Correlation between biofilm formation and the hypoxic response in Candida parapsilosis. Eukaryot Cell 2009 1.06
35 miR-187 is an independent prognostic factor in breast cancer and confers increased invasive potential in vitro. Clin Cancer Res 2012 1.04
36 Hepatitis B virus subgenotyping: history, effects of recombination, misclassifications, and corrections. Infect Genet Evol 2013 1.01
37 Supervised multivariate analysis of sequence groups to identify specificity determining residues. BMC Bioinformatics 2007 0.99
38 Hypoxia selectively activates the CREB family of transcription factors in the in vivo lung. Am J Respir Crit Care Med 2008 0.97
39 Clustal omega. Curr Protoc Bioinformatics 2014 0.95
40 Detecting microRNA activity from gene expression data. BMC Bioinformatics 2010 0.94
41 A complete analysis of HA and NA genes of influenza A viruses. PLoS One 2010 0.93
42 Integrating multiple genome annotation databases improves the interpretation of microarray gene expression data. BMC Genomics 2010 0.91
43 Gene expression, intron density, and splice site strength in Drosophila and Caenorhabditis. J Mol Evol 2007 0.91
44 Systematic exploration of guide-tree topology effects for small protein alignments. BMC Bioinformatics 2014 0.89
45 Fast embedding methods for clustering tens of thousands of sequences. Comput Biol Chem 2008 0.87
46 mab21l2 transgenics reveal novel expression patterns of mab21l1 and mab21l2, and conserved promoter regulation without sequence conservation. Dev Dyn 2011 0.86
47 Subgenotype reclassification of genotype B hepatitis B virus. BMC Gastroenterol 2012 0.85
48 GSK3 inhibitors regulate MYCN mRNA levels and reduce neuroblastoma cell viability through multiple mechanisms, including p53 and Wnt signaling. Mol Cancer Ther 2013 0.84
49 High DNA melting temperature predicts transcription start site location in human and mouse. Nucleic Acids Res 2009 0.83
50 Recombination in hepatitis C virus: identification of four novel naturally occurring inter-subtype recombinants. PLoS One 2012 0.82
51 Inhibition of the Pim1 oncogene results in diminished visual function. PLoS One 2012 0.82
52 Ensemble approach combining multiple methods improves human transcription start site prediction. BMC Genomics 2010 0.81
53 Subgenotyping of genotype C hepatitis B virus: correcting misclassifications and identifying a novel subgenotype. PLoS One 2012 0.81
54 Using Illumina next generation sequencing technologies to sequence multigene families in de novo species. Mol Ecol Resour 2013 0.80
55 Genes and signaling networks regulated during zebrafish optic vesicle morphogenesis. BMC Genomics 2014 0.80
56 Distinct patterns in the regulation and evolution of human cancer genes. In Silico Biol 2008 0.79
57 Maternally and paternally silenced imprinted genes differ in their intron content. Comp Funct Genomics 2004 0.77
58 Temporal dysregulation of cortical gene expression in the isolation reared Wistar rat. J Neurochem 2010 0.77
59 APDB: a web server to evaluate the accuracy of sequence alignments using structural information. Bioinformatics 2006 0.75