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21,542
The Protein Data Bank
- Nucleic Acids Res
, 2000
"... The Protein Data Bank (PDB; http://www.rcsb.org/pdb/ ) is the single worldwide archive of structural data of biological macromolecules. This paper describes the goals of the PDB, the systems in place for data deposition and access, how to obtain further information, and near-term plans for the futur ..."
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Cited by 1387 (24 self)
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The Protein Data Bank (PDB; http://www.rcsb.org/pdb/ ) is the single worldwide archive of structural data of biological macromolecules. This paper describes the goals of the PDB, the systems in place for data deposition and access, how to obtain further information, and near-term plans
The SWISS-MODEL Workspace: A web-based environment for protein structure homology modelling
- BIOINFORMATICS
, 2005
"... Motivation: Homology models of proteins are of great interest for planning and analyzing biological experiments when no experimental three-dimensional structures are available. Building homology models requires specialized programs and up-to-date sequence and structural databases. Integrating all re ..."
Abstract
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Cited by 575 (5 self)
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Motivation: Homology models of proteins are of great interest for planning and analyzing biological experiments when no experimental three-dimensional structures are available. Building homology models requires specialized programs and up-to-date sequence and structural databases. Integrating all
Sequence Logos: A New Way to Display Consensus Sequences
- Nucleic Acids Res
, 1990
"... INTRODUCTION A logo is "a single piece of type bearing two or more usually separate elements" [1]. In this paper, we use logos to display aligned sets of sequences. Sequence logos concentrate the following information into a single graphic [2]: 1. The general consensus of the sequences. ..."
Abstract
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Cited by 650 (28 self)
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INTRODUCTION A logo is "a single piece of type bearing two or more usually separate elements" [1]. In this paper, we use logos to display aligned sets of sequences. Sequence logos concentrate the following information into a single graphic [2]: 1. The general consensus of the sequences
Fitting a mixture model by expectation maximization to discover motifs in biopolymers.
- Proc Int Conf Intell Syst Mol Biol
, 1994
"... Abstract The algorithm described in this paper discovers one or more motifs in a collection of DNA or protein sequences by using the technique of expect~tiou ma.,dmization to fit a two-component finite mixture model to the set of sequences. Multiple motifs are found by fitting a mixture model to th ..."
Abstract
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Cited by 947 (5 self)
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Abstract The algorithm described in this paper discovers one or more motifs in a collection of DNA or protein sequences by using the technique of expect~tiou ma.,dmization to fit a two-component finite mixture model to the set of sequences. Multiple motifs are found by fitting a mixture model
Functional discovery via a compendium of expression profiles.
- Cell,
, 2000
"... provided that the cellular transcriptional response to frames encode proteins required for sterol metabodisruption of different steps in the same pathway is lism, cell wall function, mitochondrial respiration, or similar, and that there are sufficiently unique transcripprotein synthesis. We also sh ..."
Abstract
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Cited by 547 (9 self)
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provided that the cellular transcriptional response to frames encode proteins required for sterol metabodisruption of different steps in the same pathway is lism, cell wall function, mitochondrial respiration, or similar, and that there are sufficiently unique transcripprotein synthesis. We also
Hidden Markov models for detecting remote protein homologies
- Bioinformatics
, 1998
"... A new hidden Markov model method (SAM-T98) for nding remote homologs of protein sequences is described and evaluated. The method begins with a single target sequence and iteratively builds a hidden Markov model (hmm) from the sequence and homologs found using the hmm for database search. SAM-T98 is ..."
Abstract
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Cited by 462 (15 self)
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A new hidden Markov model method (SAM-T98) for nding remote homologs of protein sequences is described and evaluated. The method begins with a single target sequence and iteratively builds a hidden Markov model (hmm) from the sequence and homologs found using the hmm for database search. SAM-T98
Detecting protein function and protein-protein interactions from genome sequences. Science 285:751–753
, 1999
"... A computational method is proposed for inferring protein interactions from genome sequences on the basis of the observation that some pairs of interacting proteins have homologs in another organism fused into a single protein chain. Searching sequences from many genomes revealed 6809 such putative p ..."
Abstract
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Cited by 359 (13 self)
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A computational method is proposed for inferring protein interactions from genome sequences on the basis of the observation that some pairs of interacting proteins have homologs in another organism fused into a single protein chain. Searching sequences from many genomes revealed 6809 such putative
Asymmetry in the assembly of the RNAi enzyme complex. Cell 115
, 2003
"... A key step in RNA interference (RNAi) is assembly of the RISC, the protein-siRNA complex that mediates target RNA cleavage. Here, we show that the two strands of an siRNA duplex are not equally eligible for assembly into RISC. Rather, both the absolute and relative stabilities of the base pairs at t ..."
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Cited by 405 (6 self)
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A key step in RNA interference (RNAi) is assembly of the RISC, the protein-siRNA complex that mediates target RNA cleavage. Here, we show that the two strands of an siRNA duplex are not equally eligible for assembly into RISC. Rather, both the absolute and relative stabilities of the base pairs
Tracking single proteins within cells.
- Biophys. J.
, 2000
"... ABSTRACT We present experiments in which single proteins were imaged and tracked within mammalian cells. Single proteins of R-phycoerythrin (RPE) were imaged by epifluorescence microscopy in the nucleoplasm and cytoplasm at 71 frames/s. We acquired two-dimensional trajectories of proteins (correspo ..."
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Cited by 21 (0 self)
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ABSTRACT We present experiments in which single proteins were imaged and tracked within mammalian cells. Single proteins of R-phycoerythrin (RPE) were imaged by epifluorescence microscopy in the nucleoplasm and cytoplasm at 71 frames/s. We acquired two-dimensional trajectories of proteins
Human DNA methylomes at base resolution show widespread epigenomic differences.
- Nature,
, 2009
"... DNA cytosine methylation is a central epigenetic modification that has essential roles in cellular processes including genome regulation, development and disease. Here we present the first genome-wide, single-base-resolution maps of methylated cytosines in a mammalian genome, from both human embryo ..."
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Cited by 401 (6 self)
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DNA cytosine methylation is a central epigenetic modification that has essential roles in cellular processes including genome regulation, development and disease. Here we present the first genome-wide, single-base-resolution maps of methylated cytosines in a mammalian genome, from both human
Results 1 - 10
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21,542
