Protein Analysis - Twitter Search

A network analysis method can predict friendships in a social network and protein-protein interactions within a cell. http://bit.ly/65jzd6
ritontriton (Henri Jautrou ) Thu, 17 Dec 2009 10:06:25 -0000
A network analysis method can predict friendships in a social network and protein-protein interactions within a cell. http://bit.ly/65jzd6
RT @wellness_news: RT @DianeKeddyRD: The benefits of Greek yogurt (higher protein, lower lactose) and a taste analysis chicagotribune.c ...
elisazied (Elisa Zied) Thu, 17 Dec 2009 00:20:04 -0000
RT @wellness_news: RT @DianeKeddyRD: The benefits of Greek yogurt (higher protein, lower lactose) and a taste analysis chicagotribune.c ...
The benefits of Greek yogurt (higher protein, lower lactose) and a taste analysis chicagotribune.com http://ow.ly/MPvZ
DianeKeddyRD (Diane Keddy, MS, RD) Wed, 16 Dec 2009 22:04:48 -0000
The benefits of Greek yogurt (higher protein, lower lactose) and a taste analysis chicagotribune.com http://ow.ly/MPvZ
An integrated bioinformatics tools for DNA, RNA, and protein sequence analysis http://bit.ly/8anxvz
geneticist (Geneticist) Wed, 16 Dec 2009 18:33:55 -0000
An integrated bioinformatics tools for DNA, RNA, and protein sequence analysis http://bit.ly/8anxvz
Protein Phosphorylation Part B Analysis of Protein Phosphorylation Protein Kinase Inhibitors and Protein Phosph.. http://cli.gs/9n87B
ecampusnet (Campus Net) Wed, 16 Dec 2009 07:36:16 -0000
Protein Phosphorylation Part B Analysis of Protein Phosphorylation Protein Kinase Inhibitors and Protein Phosph.. http://cli.gs/9n87B
picture the new AttuneTM Cytometer next to your Applied Biosystems real-time instruments, accessible gene to protein analysis - priceless
BioAcousticGal (BioAcousticGal) Tue, 15 Dec 2009 19:35:23 -0000
picture the new AttuneTM Cytometer next to your Applied Biosystems real-time instruments, accessible gene to protein analysis - priceless

 

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3D-JIGSAW - Automated comparative (homology) protein modelling, including an interactive mode which highlights known domains and allows users to select and align templates.
Meta Description: [ The 3D-JIGSAW automatic comparative modelling server for predicting the structure and/or function of your protein sequence. ]

3D-PSSM Fold Recognition - Combines sequence and structural information for predicting the structure and/or function of your protein sequence, and can detect remote homologies beyond PSI-Blast.

Betapred - Prediction of beta turns and their types using statistical algorithms. 5 different methods including Chou-Fasman, Thornton's PRs, Gorbturn, and a consensus of all methods.

404 BioInfoBank Meta Server - The BioInfoBank Meta Server offers a gateway to well-benchmarked protein structure and function prediction methods. Structural models collected from the predictions servers are assesset using the powerfull 3D-jury consensus approach.
Meta Description: [ Polish Bioinformatics Site ]

COLORADO3D - Service to aid visualisation of potential errors in protein structures. Free for academic users.

Combinatorial Extension of Polypeptides - Method for finding 3-D similarities in protein structures from the UCSD Supercomputer Center.

ConSurf - Identifies functionally important regions on the surface of a protein or domain, of known three-dimensional (3D) structure using the phylogenetic relations between close sequence homologues.

Dali server - The Dali server is a network service for comparing protein structures in 3D.
Meta Description: [ Dali Server for 3-D protein structure database searches ]

DisEMBL - Computational tool for sequence based prediction of intrinsic protein disorder and unstructured regions within a protein.

ELM - Functional Sites in Proteins - Predicts functional sites (linear motifs) in proteins, such as post-translational modification sites, ligand motifs, and targeting signals. Context-based rules and logical filters are applied to improve predictions.
Meta Description: [ ELM is a resource for predicting functional sites (described by linear motifs) in eukarytic proteins ]

EMBL Bioinformatic Harvester - Collection of human (swall) proteins, crossreferences to major prediction servers. Supported predictions from: smart, string, blast, swall, mapview, sosui, ipsort and ncbi conserved domains.

Entelechon Backtranslation tool - Online backtranslation tool for translating a protein sequence into a DNA sequence. The codon usage can be downloaded from a database and adjusted manually for each amino acid, if required. Java applet.
Meta Description: [ Entelechon GmbH focuses on gene synthesis and sells synthetic genes, synthetic DNA and long oligos for molecular biology and life science applications. ]

ESyPred3D - ESyPred3D is an automated homology modeling program getting benefit of the increased alignment performances of a new alignment strategy using neural networks. The final three dimensional structure is built using the modeling package MODELLER.

iMolTalk - Provides protein structure information such as structural alignment, residue contact, protein-protein interfaces, contact maps and general information extraction.
Meta Description: [ iMolTalk is the structural bioinformatics webserver which provides scientific analyses and protein homology modeling methods ]

InterPro - The Integrated Resource of Protein Domains and Functional Sites. - A database built from Pfam, PRINTS and PROSITE.
Meta Description: [ The European Bioinformatics Institute ]

JAligner - Open source Java implementation of the dynamic programming algorithm Smith-Waterman for biological local pairwise sequence alignment.
Meta Description: [ JAligner is an open source Java implementation of the Smith-Waterman algorithm with Gotoh's improvement for biological local pairwise sequence alignment using the affine gap penalty model. ]

Jpred - Secondary protein structure prediction from amino acid sequence; based on a consensus from several methods including DSC, PHD, NNSSP, PREDATOR, ZPRED, and MULPRED.

Melanie II 2-D Analysis Software - Powerful, state-of-the-art, 2-D analysis software package with user-friendly interface from the Swiss Institute of Bioinformatics.

MODBASE - A database of annotated comparative protein structure models. The database includes fold assignments and alignments as well as information about putative ligand binding sites, SNP annotation, and protein-protein interactions.

Molecular Biology Tools Online - Includes WebOligoMelt (Annealing temperature of oligonucleotides), Virtual Ribosome (translate nucleotide sequences into peptides), and SeqScanGraph (graph melting temperature along nucleotide chain).

Molecules To Go - Search engine for visualizing 3-D biomolecular models. From the Center for Molecular Modeling, NIH, Maryland.

MSDmotif - Service for protein sequence motifs detection. Search based on the small 3D motifs defined by J.Milner-White.
Meta Description: [ Protein small structure motif search and statistics wrapped into integrated protein sequence and protein structure search agains PDB archive with fast phi/psi search and rich visualization capabilities ]

MultiProt - Service for detecting the multiple structural alignments of proteins. Uses the common geometrical cores between the input molecules. Does not require that all the input molecules participate in the alignment.
Meta Description: [ MultiProt ]

Munich Information Center for Protein Sequences (MIPS) - Bioinformatics research group offering organism specific information (Yeast, Cress) as well as search tools for public databases.
Meta Description: [ IBI, mips, Bioinformatics ]

NUMODs Motifs Finder - Finds Nuclease-Associated Modular DNA-binding Domains (NUMODs) in protein sequences

PDB Ligand Environment - Ligand search engine to EBI Macromolecule Structure Database. Provides PDB ID codes with further visualization and statistics charts.
Meta Description: [ PDB ligand, sequence and 3D structure searches, including macromolecule - smallmolecule interaction ]

PFP: Automated Function Prediction Server - Accepts a single query protein sequence and returns the most probable Gene Ontology functional annotations in each of the three ontologies.

Phyre- Protein Homology/analogY Recognition Engine - Phyre is a free for academics service for predicting the 3-dimensional structure of a protein amino acid sequence.
Meta Description: [ The PHYRE automatic fold recognition server for predicting the structure and/or function of your protein sequence. ]

PredictProtein Server - Most widely used server for analysing protein sequences, searching protein databases, and predicting protein structure - from Columbia Univ.
Meta Description: [ service for protein structure prediction, protein sequence analysis, protein function prediction, protein sequence alignments, bioinformatics ]

Protein Structure Prediction Server (PSIPRED) - 3D protein structure prediction from amino acid sequence. Includes MEMSAT for transmembrane topology prediction, GenTHREADER and mGenTHREADER for fold recognition.

500 Protein Structure Prediction Using Web Resources - SPORes is a website for protein structure prediction using the web browser as an interface to software that runs of web servers or other resources available over the world wide web.

Proteomics Tools - Online software for protein analysis from the Swiss Institute of Bioinformatics (SIB).
Meta Description: [ ExPASy World Wide Web (WWW) molecular biology server of the Swiss Institute of Bioinformatics (SIB) Sequence analysis tools ]

ProtFun - Ab initio predictions of protein function from protein sequence. The method works by integrating various predicted post-translational and localizational aspects of the proteins submitted.

Protonet - Provides automatic hierarchical classification of proteins sequences.
Meta Description: [ ProtoNet Version 4.5 offers automatic hierarchical classification of proteins. Proteins are processed using a novel clustering algorithm which relies on their sequence distances. The ProtoNet classification hierarchically partitions the protein space into clusters of similar proteins. The lower a... ]

Quaternary Structure Prediction - An experimental bioinformatics server. Classifies protein sequences as homodimers or non-homodimers. Applications: metabolic reconstruction, protein structure and function assignment, and drug-design.
Meta Description: [ A rule-based classifier that attempts to answer the question: Is my protein sequence a homodimer? Input=protein sequence in 20-letter code. Output=class ]

404 SDSC molecular biology software - Server based software for molecule animation, x-ray crystal analysis and protein structure. Free downloads of software also available.
Meta Description: [ San Diego Super Computer Center ]

SSM - Provides interactive service for matching protein structures in 3D and looking for structural homologues in PDB and SCOP databases, as well as in user-uploaded sets of structures.
Meta Description: [ Home page for protein structure comparison service ]

Swiss-Model - Automated comparative protein modelling server to make protein modelling accessible to biochemists and molecular biologists worldwide - from GlaxoWellcome Experimental Research, Geneva, Switzerland.

Swiss-Pdb Viewer - User-friendly interface allowing analysis of several proteins at once, including superimposition to deduce structural alignments, and compare active sites. From GlaxoWellcome Experimental Research, Geneva, Switzerland.

SWISS-PROT + TrEMBL - The SWISS-PROT database contains high-quality annotation, is non-redundant and cross-referenced to many other databases. SWISS-PROT is accompanied by TrEMBL, a computer-annotated supplement, which contains the translations of all coding sequences (CDS) present in the EMBL Nucleotide Sequence Database, which are not yet integrated into SWISS-PROT.
Meta Description: [ Information about Swiss-Prot and how to access it and make submissions. Links to projects and people as well as publications and documentation ]

The Protein Information Resource - In collaboration with the Munich Information Center for Protein Sequences (MIPS) and the Japanese International Protein Sequence Database (JIPID) maintains the PIR-International Protein Sequence Database --- a comprehensive, annotated, and non-redundant set of protein sequence databases in which entries are classified into family groups and alignments of each group are available.

TRANSFAC-The Transcription Factor Database - Very thorough compilation of transcriptional regulatory protein factors their cognate gene promoter elements along with DNA sequence search analysis programs - from GBF, Braunschweig, Germany.

UniProt - UniProt (Universal Protein Resource) is a comprehensive catalog of information on proteins. It is a central repository of protein sequence and function created by joining the information contained in Swiss-Prot, TrEMBL, and PIR.

Wurst - A protein threading server using sequence profiles combined with a protein sequence to structure compatibility function based on Bayesian statistics.
Meta Description: [ protein structure prediction server ]