Published in Bioinformatics on February 01, 2000
SCOP: a structural classification of proteins database. Nucleic Acids Res (2000) 14.14
The CATH extended protein-family database: providing structural annotations for genome sequences. Protein Sci (2002) 2.69
PartsList: a web-based system for dynamically ranking protein folds based on disparate attributes, including whole-genome expression and interaction information. Nucleic Acids Res (2001) 2.23
Evaluation of PSI-BLAST alignment accuracy in comparison to structural alignments. Protein Sci (2000) 1.33
A protein domain interaction interface database: InterPare. BMC Bioinformatics (2005) 1.16
SNP@Domain: a web resource of single nucleotide polymorphisms (SNPs) within protein domain structures and sequences. Nucleic Acids Res (2006) 0.94
Detection of homologous proteins by an intermediate sequence search. Protein Sci (2004) 0.93
Identification of related proteins with weak sequence identity using secondary structure information. Protein Sci (2001) 0.83
Clustering protein sequences with a novel metric transformed from sequence similarity scores and sequence alignments with neural networks. BMC Bioinformatics (2005) 0.78
Improved detection of remote homologues using cascade PSI-BLAST: influence of neighbouring protein families on sequence coverage. PLoS One (2013) 0.78
Alternative approach to protein structure prediction based on sequential similarity of physical properties. Proc Natl Acad Sci U S A (2015) 0.76
Genomic sequencing. Proc Natl Acad Sci U S A (1984) 92.36
SCOP: a structural classification of proteins database for the investigation of sequences and structures. J Mol Biol (1995) 74.88
Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature (2002) 28.79
Systematic determination of genetic network architecture. Nat Genet (1999) 25.45
Determinants of a protein fold. Unique features of the globin amino acid sequences. J Mol Biol (1987) 18.58
The relation between the divergence of sequence and structure in proteins. EMBO J (1986) 16.66
Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure. J Mol Biol (2001) 15.97
Computational identification of cis-regulatory elements associated with groups of functionally related genes in Saccharomyces cerevisiae. J Mol Biol (2000) 14.30
SCOP: a structural classification of proteins database. Nucleic Acids Res (2000) 14.14
Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation. Nat Biotechnol (1998) 13.99
The atomic structure of protein-protein recognition sites. J Mol Biol (1999) 12.63
Methods for generating precise deletions and insertions in the genome of wild-type Escherichia coli: application to open reading frame characterization. J Bacteriol (1997) 12.41
Volume changes in protein evolution. J Mol Biol (1994) 12.07
DaliLite workbench for protein structure comparison. Bioinformatics (2000) 10.53
B lineage--specific interactions of an immunoglobulin enhancer with cellular factors in vivo. Science (1985) 9.73
A computational analysis of whole-genome expression data reveals chromosomal domains of gene expression. Nat Genet (2000) 9.47
Sequence comparisons using multiple sequences detect three times as many remote homologues as pairwise methods. J Mol Biol (1998) 9.09
Proteins. One thousand families for the molecular biologist. Nature (1992) 7.83
A comprehensive library of DNA-binding site matrices for 55 proteins applied to the complete Escherichia coli K-12 genome. J Mol Biol (1998) 7.75
Identifying regulatory networks by combinatorial analysis of promoter elements. Nat Genet (2001) 7.74
Chemosensitivity prediction by transcriptional profiling. Proc Natl Acad Sci U S A (2001) 7.51
Assessing sequence comparison methods with reliable structurally identified distant evolutionary relationships. Proc Natl Acad Sci U S A (1998) 7.18
Correlation between transcriptome and interactome mapping data from Saccharomyces cerevisiae. Nat Genet (2001) 7.16
Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12. Electrophoresis (1997) 6.82
Principles of protein-protein recognition. Nature (1975) 6.50
RNA expression analysis using a 30 base pair resolution Escherichia coli genome array. Nat Biotechnol (2000) 6.36
Gene Ontology annotations and resources. Nucleic Acids Res (2012) 6.13
ZnO nanowire UV photodetectors with high internal gain. Nano Lett (2007) 6.06
Structural patterns in globular proteins. Nature (1976) 5.95
The nature of the accessible and buried surfaces in proteins. J Mol Biol (1976) 5.92
How different amino acid sequences determine similar protein structures: the structure and evolutionary dynamics of the globins. J Mol Biol (1980) 5.85
Protein kinase SGK mediates survival signals by phosphorylating the forkhead transcription factor FKHRL1 (FOXO3a). Mol Cell Biol (2001) 5.78
Hydrophobic bonding and accessible surface area in proteins. Nature (1974) 5.69
Structural invariants in protein folding. Nature (1975) 5.60
The personal genome project. Mol Syst Biol (2005) 5.47
Interior and surface of monomeric proteins. J Mol Biol (1987) 5.42
Structural mechanisms for domain movements in proteins. Biochemistry (1994) 5.36
Exploring the DNA-binding specificities of zinc fingers with DNA microarrays. Proc Natl Acad Sci U S A (2001) 5.08
Surface, subunit interfaces and interior of oligomeric proteins. J Mol Biol (1988) 4.80
The structure of protein-protein recognition sites. J Biol Chem (1990) 4.55
Conservation of DNA regulatory motifs and discovery of new motifs in microbial genomes. Genome Res (2000) 4.34
Synthesis of highly crystalline and monodisperse maghemite nanocrystallites without a size-selection process. J Am Chem Soc (2001) 4.28
Helix to helix packing in proteins. J Mol Biol (1981) 4.24
Understanding protein structure: using scop for fold interpretation. Methods Enzymol (1996) 4.22
Principles that determine the structure of proteins. Annu Rev Biochem (1984) 4.15
Regulatory networks revealed by transcriptional profiling of damaged Saccharomyces cerevisiae cells: Rpn4 links base excision repair with proteasomes. Mol Cell Biol (2000) 4.15
Guanylyl cyclases and signaling by cyclic GMP. Pharmacol Rev (2000) 4.10
Biclustering of expression data. Proc Int Conf Intell Syst Mol Biol (2000) 3.97
Cell-type-specific contacts to immunoglobulin enhancers in nuclei. Nature (1985) 3.94
Quantifying DNA-protein interactions by double-stranded DNA arrays. Nat Biotechnol (1999) 3.87
Haemoglobin: the structural changes related to ligand binding and its allosteric mechanism. J Mol Biol (1979) 3.79
Many of the immunoglobulin superfamily domains in cell adhesion molecules and surface receptors belong to a new structural set which is close to that containing variable domains. J Mol Biol (1994) 3.57
Volume changes on protein folding. Structure (1994) 3.54
The packing density in proteins: standard radii and volumes. J Mol Biol (1999) 3.48
Standard conformations for the canonical structures of immunoglobulins. J Mol Biol (1997) 3.42
Characterization of the cobalamin (vitamin B12) biosynthetic genes of Salmonella typhimurium. J Bacteriol (1993) 3.42
The implications of human metabolic network topology for disease comorbidity. Proc Natl Acad Sci U S A (2008) 3.41
Cysteamine, methionine, and penicillamine in the treatment of paracetamol poisoning. Lancet (1976) 3.41
Crystal structure of yeast phenylalanine transfer RNA. I. Crystallographic refinement. J Mol Biol (1978) 3.19
Conformation of twisted beta-pleated sheets in proteins. J Mol Biol (1973) 3.15
Treatment of paracetamol (acetaminophen) poisoning with N-acetylcysteine. Lancet (1977) 3.00
Intermediate sequences increase the detection of homology between sequences. J Mol Biol (1997) 2.98
Differential transcriptional regulation of the two vascular endothelial growth factor receptor genes. Flt-1, but not Flk-1/KDR, is up-regulated by hypoxia. J Biol Chem (1997) 2.95
The Isw2 chromatin remodeling complex represses early meiotic genes upon recruitment by Ume6p. Cell (2000) 2.95
Modeling gene expression with differential equations. Pac Symp Biocomput (1999) 2.85
Systematic management and analysis of yeast gene expression data. Genome Res (2000) 2.83
Aligning gene expression time series with time warping algorithms. Bioinformatics (2001) 2.82
Selection analyses of insertional mutants using subgenic-resolution arrays. Nat Biotechnol (2001) 2.80
RNA-ligant interactions. (I) Magnesium binding sites in yeast tRNAPhe. Nucleic Acids Res (1977) 2.79
The accessible surface area and stability of oligomeric proteins. Nature (1987) 2.77
Cadherin superfamily proteins in Caenorhabditis elegans and Drosophila melanogaster. J Mol Biol (2001) 2.64
Structure of proteins: packing of alpha-helices and pleated sheets. Proc Natl Acad Sci U S A (1977) 2.60
The cleavage site of the restriction endonuclease Ava II. Nucleic Acids Res (1978) 2.60
RSDB: representative protein sequence databases have high information content. Bioinformatics (2000) 2.55
In situ localized amplification and contact replication of many individual DNA molecules. Nucleic Acids Res (1999) 2.52
Evolution of proteins formed by beta-sheets. II. The core of the immunoglobulin domains. J Mol Biol (1982) 2.47
beta-Trefoil fold. Patterns of structure and sequence in the Kunitz inhibitors interleukins-1 beta and 1 alpha and fibroblast growth factors. J Mol Biol (1992) 2.45
SCOP: a structural classification of proteins database. Nucleic Acids Res (1997) 2.44
Microarray analysis of the transcriptional network controlled by the photoreceptor homeobox gene Crx. Curr Biol (2000) 2.36
Predictors of mortality in pulmonary thromboendarterectomy. Ann Thorac Surg (1996) 2.33
A fully automatic evolutionary classification of protein folds: Dali Domain Dictionary version 3. Nucleic Acids Res (2001) 2.32
Epidermal growth factor receptor and HER2-neu mRNA expression in non-small cell lung cancer Is correlated with survival. Clin Cancer Res (2001) 2.28
Immunosuppressive drugs prevent a rapid dephosphorylation of transcription factor NFAT1 in stimulated immune cells. Proc Natl Acad Sci U S A (1995) 2.24
PartsList: a web-based system for dynamically ranking protein folds based on disparate attributes, including whole-genome expression and interaction information. Nucleic Acids Res (2001) 2.23
Autosomal dominant hypocalcaemia caused by a Ca(2+)-sensing receptor gene mutation. Nat Genet (1994) 2.23
Role of intron-contained sequences in formation of moloney murine leukemia virus env mRNA. Mol Cell Biol (1984) 2.21
SCOP: a Structural Classification of Proteins database. Nucleic Acids Res (1999) 2.20
Prognostic value of a cell cycle progression signature for prostate cancer death in a conservatively managed needle biopsy cohort. Br J Cancer (2012) 2.15
The evolution and structural anatomy of the small molecule metabolic pathways in Escherichia coli. J Mol Biol (2001) 2.15
Changing pattern of drugs used for self-poisoning. Br Med J (1978) 2.11
Advances in structural genomics. Curr Opin Struct Biol (1999) 2.09
Structural assignments to the Mycoplasma genitalium proteins show extensive gene duplications and domain rearrangements. Proc Natl Acad Sci U S A (1998) 2.08
Alignment and structure prediction of divergent protein families: periplasmic and outer membrane proteins of bacterial efflux pumps. J Mol Biol (1999) 2.08
Sequence variability and candidate gene analysis in complex disease: association of mu opioid receptor gene variation with substance dependence. Hum Mol Genet (2000) 2.05
Domain association in immunoglobulin molecules. The packing of variable domains. J Mol Biol (1985) 2.03
Glutathione S-transferase mu modulates the stress-activated signals by suppressing apoptosis signal-regulating kinase 1. J Biol Chem (2001) 1.99
Population statistics of protein structures: lessons from structural classifications. Curr Opin Struct Biol (1997) 1.98
Deletions in the tRNA(Lys) primer-binding site of human immunodeficiency virus type 1 identify essential regions for reverse transcription. J Virol (1991) 1.97
Conformations of the third hypervariable region in the VH domain of immunoglobulins. J Mol Biol (1998) 1.96