Published in BMC Bioinformatics on February 17, 2006
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TreeVector: scalable, interactive, phylogenetic trees for the web. PLoS One (2010) 1.45
PHY.FI: fast and easy online creation and manipulation of phylogeny color figures. BMC Bioinformatics (2006) 1.31
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The Bioperl toolkit: Perl modules for the life sciences. Genome Res (2002) 58.63
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Interactive analysis of phylogeny and character evolution using the computer program MacClade. Folia Primatol (Basel) (1989) 6.35
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PhyloDraw: a phylogenetic tree drawing system. Bioinformatics (2000) 1.96
The third dimension bridges the gap between cell culture and live tissue. Nat Rev Mol Cell Biol (2007) 7.38
DNA methylation protects hematopoietic stem cell multipotency from myeloerythroid restriction. Nat Genet (2009) 3.73
The Protein-Protein Interaction tasks of BioCreative III: classification/ranking of articles and linking bio-ontology concepts to full text. BMC Bioinformatics (2011) 3.03
Cargo-selected transport from the mitochondria to peroxisomes is mediated by vesicular carriers. Curr Biol (2008) 2.67
Identification of LRRC8 heteromers as an essential component of the volume-regulated anion channel VRAC. Science (2014) 2.42
Prediction of protein secondary structure from circular dichroism using theoretically derived spectra. Proteins (2011) 2.23
HIPPIE: Integrating protein interaction networks with experiment based quality scores. PLoS One (2012) 2.17
The FTO (fat mass and obesity associated) gene codes for a novel member of the non-heme dioxygenase superfamily. BMC Biochem (2007) 2.14
Mechanosensing in actin stress fibers revealed by a close correlation between force and protein localization. J Cell Sci (2009) 2.14
K2D2: estimation of protein secondary structure from circular dichroism spectra. BMC Struct Biol (2008) 2.12
Gene function in early mouse embryonic stem cell differentiation. BMC Genomics (2007) 1.96
A directed protein interaction network for investigating intracellular signal transduction. Sci Signal (2011) 1.95
Computational disease gene identification: a concert of methods prioritizes type 2 diabetes and obesity candidate genes. Nucleic Acids Res (2006) 1.95
In migrating cells, the Golgi complex and the position of the centrosome depend on geometrical constraints of the substratum. J Cell Sci (2008) 1.77
MedlineRanker: flexible ranking of biomedical literature. Nucleic Acids Res (2009) 1.64
Identification of outer membrane proteins of Mycobacterium tuberculosis. Tuberculosis (Edinb) (2008) 1.63
Secretory cargo regulates the turnover of COPII subunits at single ER exit sites. Curr Biol (2006) 1.60
Oct4 targets regulatory nodes to modulate stem cell function. PLoS One (2007) 1.52
Aggregation of polyQ-extended proteins is promoted by interaction with their natural coiled-coil partners. Bioessays (2013) 1.48
Update of the G2D tool for prioritization of gene candidates to inherited diseases. Nucleic Acids Res (2007) 1.42
Evolution and function of CAG/polyglutamine repeats in protein-protein interaction networks. Nucleic Acids Res (2012) 1.38
Recognition of 2'-O-methylated 3'-end of piRNA by the PAZ domain of a Piwi protein. Structure (2011) 1.37
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Loss of fish actinotrichia proteins and the fin-to-limb transition. Nature (2010) 1.16
Three-dimensional tissue cultures: current trends and beyond. Cell Tissue Res (2012) 1.16
StemBase: a resource for the analysis of stem cell gene expression data. Methods Mol Biol (2007) 1.15
Linking genes to diseases: it's all in the data. Genome Med (2009) 1.14
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Adding protein context to the human protein-protein interaction network to reveal meaningful interactions. PLoS Comput Biol (2013) 1.10
Génie: literature-based gene prioritization at multi genomic scale. Nucleic Acids Res (2011) 1.10
PU.1 level-directed chromatin structure remodeling at the Irf8 gene drives dendritic cell commitment. Cell Rep (2013) 1.09
Detection of alpha-rod protein repeats using a neural network and application to huntingtin. PLoS Comput Biol (2009) 1.09
A transcriptional roadmap to the induction of pluripotency in somatic cells. Stem Cell Rev (2010) 1.09
Microtubule-associated AIR9 recognizes the cortical division site at preprophase and cell-plate insertion. Curr Biol (2006) 1.09
Tissue-specific subnetworks and characteristics of publicly available human protein interaction databases. Bioinformatics (2011) 1.07
Molecular insights into reprogramming-initiation events mediated by the OSKM gene regulatory network. PLoS One (2011) 1.06
In vivo selective cytoskeleton dynamics quantification in interphase cells induced by pulsed ultraviolet laser nanosurgery. Traffic (2005) 1.06
Periostin shows increased evolutionary plasticity in its alternatively spliced region. BMC Evol Biol (2010) 1.06
Functional evidence of post-transcriptional regulation by pseudogenes. Biochimie (2011) 1.05
Resident endothelial precursors in muscle, adipose, and dermis contribute to postnatal vasculogenesis. Stem Cells (2007) 1.05
Expression of protein elongation factor eEF1A2 predicts favorable outcome in breast cancer. Breast Cancer Res Treat (2006) 1.02
Three-dimensional laser microsurgery in light-sheet based microscopy (SPIM). Opt Express (2007) 1.01
LAITOR--Literature Assistant for Identification of Terms co-Occurrences and Relationships. BMC Bioinformatics (2010) 1.00
uORFdb--a comprehensive literature database on eukaryotic uORF biology. Nucleic Acids Res (2013) 0.99
SynSysNet: integration of experimental data on synaptic protein-protein interactions with drug-target relations. Nucleic Acids Res (2012) 0.98
Identification of gene 3' ends by automated EST cluster analysis. Proc Natl Acad Sci U S A (2008) 0.97
Using cited references to improve the retrieval of related biomedical documents. BMC Bioinformatics (2013) 0.96
ROMO1 is an essential redox-dependent regulator of mitochondrial dynamics. Sci Signal (2014) 0.96
A role for GPx3 in activity of normal and leukemia stem cells. J Exp Med (2012) 0.94
Cardiac alpha-myosin (MYH6) is the predominant sarcomeric disease gene for familial atrial septal defects. PLoS One (2011) 0.93
Towards completion of the Earth's proteome. EMBO Rep (2007) 0.93
Mitochondrial carriers and pores: key regulators of the mitochondrial apoptotic program? Apoptosis (2007) 0.92
Emergence and evolution of the renin-angiotensin-aldosterone system. J Mol Med (Berl) (2012) 0.91
PESCADOR, a web-based tool to assist text-mining of biointeractions extracted from PubMed queries. BMC Bioinformatics (2011) 0.90
Identification of human proteins that modify misfolding and proteotoxicity of pathogenic ataxin-1. PLoS Genet (2012) 0.90
[Laser nanosurgery in cell biology]. Med Sci (Paris) (2006) 0.88
BiasViz: visualization of amino acid biased regions in protein alignments. Bioinformatics (2007) 0.88
Transcriptional profiling of skeletal muscle reveals factors that are necessary to maintain satellite cell integrity during ageing. Mech Ageing Dev (2009) 0.88
Pseudogenes as an alternative source of natural antisense transcripts. BMC Evol Biol (2010) 0.87
Prioritization of candidate disease genes for metabolic syndrome by computational analysis of its defining phenotypes. Physiol Genomics (2008) 0.87
Outer membrane pore protein prediction in mycobacteria using genomic comparison. Microbiology (2010) 0.87
Investigating relaxation processes in cells and developing organisms: from cell ablation to cytoskeleton nanosurgery. Methods Cell Biol (2007) 0.87
Computational approaches to discovering noncoding RNA. Wiley Interdiscip Rev RNA (2012) 0.87
CellFinder: a cell data repository. Nucleic Acids Res (2013) 0.87
Mutually exclusive signaling signatures define the hepatic and pancreatic progenitor cell lineage divergence. Genes Dev (2013) 0.86
Genes to diseases (G2D) computational method to identify asthma candidate genes. PLoS One (2008) 0.86
Loss of Lrp2 in zebrafish disrupts pronephric tubular clearance but not forebrain development. Dev Dyn (2011) 0.86
Recent developments in StemBase: a tool to study gene expression in human and murine stem cells. BMC Res Notes (2009) 0.86
Concerted down-regulation of immune-system related genes predicts metastasis in colorectal carcinoma. BMC Cancer (2014) 0.86
Amplification of the Gene Ontology annotation of Affymetrix probe sets. BMC Bioinformatics (2006) 0.86
A correlative light and electron microscopy method based on laser micropatterning and etching. Methods Mol Biol (2008) 0.85
Identification of novel stem cell markers using gap analysis of gene expression data. Genome Biol (2007) 0.84
Armadillo motifs involved in vesicular transport. PLoS One (2010) 0.82
ChIP on SNP-chip for genome-wide analysis of human histone H4 hyperacetylation. BMC Genomics (2007) 0.82
The soluble intracellular domain of megalin does not affect renal proximal tubular function in vivo. Kidney Int (2010) 0.81
Comparative genomics identification of a novel set of temporally regulated hedgehog target genes in the retina. Mol Cell Neurosci (2012) 0.81
The pseudogenes of Mycobacterium leprae reveal the functional relevance of gene order within operons. Nucleic Acids Res (2010) 0.81
Functional and genomic analyses of alpha-solenoid proteins. PLoS One (2013) 0.81
PDBpaint, a visualization webservice to tag protein structures with sequence annotations. Bioinformatics (2011) 0.80
Development and application of a DNA microarray-based yeast two-hybrid system. Nucleic Acids Res (2012) 0.80
QiSampler: evaluation of scoring schemes for high-throughput datasets using a repetitive sampling strategy on gold standards. BMC Res Notes (2011) 0.80
A novel laser nanosurgery approach supports de novo Golgi biogenesis in mammalian cells. J Cell Sci (2011) 0.80
MLTrends: Graphing MEDLINE term usage over time. J Biomed Discov Collab (2010) 0.80
Preimplantation development regulatory pathway construction through a text-mining approach. BMC Genomics (2011) 0.79
Short tandem repeats in the inhibitory domain of the mineralocorticoid receptor: prediction of a β-solenoid structure. BMC Struct Biol (2013) 0.78
Three-dimensional Fluorescence Lifetime Imaging with a Single Plane Illumination Microscope provides an improved signal to noise ratio. Opt Express (2011) 0.78
A novel approach for protein subcellular location prediction using amino acid exposure. BMC Bioinformatics (2013) 0.77
Homologues of Arabidopsis Microtubule-Associated AIR9 in Trypanosomatid Parasites: Hints on Evolution and Function. Plant Signal Behav (2007) 0.77
Integration of expressed sequence tag data flanking predicted RNA secondary structures facilitates novel non-coding RNA discovery. PLoS One (2011) 0.77
CAFE: an R package for the detection of gross chromosomal abnormalities from gene expression microarray data. Bioinformatics (2014) 0.75
dAPE: a web server to detect homorepeats and follow their evolution. Bioinformatics (2016) 0.75
Adéquation Germany, meeting the needs of scientists in the developing world. Biotechnol J (2006) 0.75
Toward completion of the Earth's proteome: an update a decade later. Brief Bioinform (2017) 0.75
Detection and quantification of protein-microtubules interactions using green fluorescent protein photoconversion. Traffic (2006) 0.75
Use of SNP-arrays for ChIP assays: computational aspects. Methods Mol Biol (2009) 0.75