NOVELTIES
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searchable collection of complete and incomplete large-scale sequencing, assembly, annotation, and mapping projects for cellular organisms
Category: Gene information search
The NCBI Entrez Genome Project database is intended to be a searchable collection of complete and incomplete (in-progress) large-scale sequencing, assembly, annotation, and mapping projects for cellular organisms. The database is organized into organism-specific overviews that function as portals from which all projects in the database pertaining to that organism can be browsed and retrieved (see Figure 1). For example, you will find all information regarding the human genome project on this project page. (Although the Entrez Genome Project database does not include organellar-, phage-, plasmid-, or viral-only genome sequencing projects, data from those projects are submitted to GenBank and are available in the Entrez Nucleotide and Entrez Genome databases. Sequences such as the human mitochondrial sequence will be attached to the human genome project. There is also a special set of resources at NCBI dedicated to Viral Genomes. Registration not required.
Click here for more informationsPublished on 2012-05-09 03:49:40
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high-throughput discovery of functional regulatory elements
Category: Transcription factors analysis
Finding potential regulatory elements in noncoding regions of the human genome is a challenging problem. Analyzing novel sequences for the presence of known transcription factor binding sites or their weight matrices produces a huge number of false positive predictions that are randomly and uniformily distributed. rVista combines database searches with comparative sequence analysis, reducing the number of false positive predictions by ~95% while maintaining a high sensitivity of the search.
G. Loots and I. Ovcharenko, rVista 2.0: evolutionary analysis of transcription factor binding sites, Nucleic Acids Research, 32(Web Server Issue), W217-W221 (2004) Registration not required.
Click here for more informationsPublished on 2012-05-09 02:04:34
Tfsitescan is intended for promoter sequence analysis and works best with sequences of ~500 nt Registration not required.
Click here for more informationsPublished on 2012-05-09 02:02:33
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protein-protein interactions mined from the scientific literature
Category: Protein interactions
The Molecular INTeraction database (MINT) focuses on experimentally verified protein-protein interactions mined from the scientific literature by expert curators. The full MINT dataset can be freely downloaded. Registration not required.
Click here for more informationsPublished on 2012-05-09 01:33:37
TReverse Translate accepts a protein sequence as input and uses a codon usage table to generate a DNA sequence representing the most likely non-degenerate coding sequence. A consensus sequence derived from all the possible codons for each amino acid is also returned. Use Reverse Translate when designing PCR primers to anneal to an unsequenced coding sequence from a related species Registration not required.
Click here for more informationsPublished on 2012-05-08 03:37:17
The International Genome Sample Resource (IGSR) maintains and shares the human genetic variation resources built by the 1000 Genomes Project. We also update the resources to the current reference assembly, add new data sets generated from the 1000 Genomes Project samples and add data from projects working with other openly consented samples. Registration not required.
Click here for more informationsPublished on 2012-05-07 14:14:50
MGI (Mouse Genome Informatics) is an international database resource for the laboratory mouse, providing integrated genetic, genomic, and biological data for researching human health and disease. Registration not required.
Click here for more informationsPublished on 2012-05-07 14:13:01
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collection, archiving and distribution of relevant mutant strains
Category: Laboratory animals
The European Mouse Mutant Archive (EMMA) is a non-profit repository for the collection, archiving (via cryopreservation) and distribution of relevant mutant strains essential for basic biomedical research.The laboratory mouse is the most important mammalian model for studying genetic and multi-factorial diseases in man. Thus the work of EMMA will play a crucial role in exploiting the tremendous potential benefits to human health presented by the current research in mammalian genetics. Registration not required.
Click here for more informationsPublished on 2012-05-07 14:12:07
Compare two sequences aligns two sequences using the indicated algorithm, and calculates the statistical significance using shuffled sequences. Registration not required.
Click here for more informationsPublished on 2012-05-07 12:34:30
Morpheus (from Broad Institute) is a web-based versatile matrix visualization and analysis software. View your dataset as a heat map, and then explore the interactive tools in Morpheus. Cluster, create new annotations, search, filter, sort, display charts, and more. Registration not required.
Click here for more informationsPublished on 2012-05-04 19:02:27
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Network of Excellence
Category: Biomedical communities
The Epigenome NoE allows: Epigenome
The Epigenome NoE (Network of Excellence) aims to provide clear and visible benefits for the entire epigenetic community and as such supports both members and non-members with conferences, work-shops, training visits and shared resources. It is the vision of this NoE to develop a powerful framework that can assimilate existing synergies and maintain European epigenetic research as a world-leading force. Registration required.
Click here for more informationsPublished on 2012-05-04 18:55:47
Instruct links many major structural-biology centres in Europe, allowing researchers to access a range of equipment and expertise in a single request. It has brought together representing all major infrastructure technologies that enable structure determination from macromolecular to atomic resolution of proteins, protein complexes and single particles. Registration required.
Click here for more informationsPublished on 2012-05-04 18:53:23
Lipidomics Gateway is a free, comprehensive website for researchers interested in lipid biology. Use the site to stay abreast of developments each month from across the field, and explore the rich information collections, tools and resources from the LIPID MAPS consortium Registration not required.
Click here for more informationsPublished on 2012-05-04 18:52:12
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a video journal for biological, medical, chemical and physical research
Category: Biomedical communities, Biomedical protocols
JoVE (Journal of Visualized Experiments) is a peer-reviewed journal that publishes written protocols accompanied by video for biological, medical, chemical and physical research. Currently, JoVe charges a $1200 publication fee for self-produced videos and $2400 if JoVE does the filming. There's an added fee of $1800 to provide open access. Registration not required.
Click here for more informationsPublished on 2012-05-04 18:45:16
The Genome database (NCBI) provides views for a variety of genomes, complete chromosomes, sequence maps with contigs, and integrated genetic and physical maps. The database is organized in six major organism groups: Archaea, Bacteria, Eukaryotae, Viruses, Viroids, and Plasmids and includes complete chromosomes, organelles and plasmids as well as draft genome assemblies. Registration not required.
Click here for more informationsPublished on 2012-05-04 15:16:40
OMIM (Online Mendelian Inheritance in Man) is a compendium of human genes and genetic phenotypes. The full-text, referenced overviews in OMIM contain information on all known mendelian disorders and over 12,000 genes. OMIM focuses on the relationship between phenotype and genotype. Registration not required.
Click here for more informationsPublished on 2012-05-04 15:06:58
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EMBL European Bioinformatic Istitute
Category: Gene information search, Protein informations
EBI (EMBL European Bioinformatic Istitute) home page provides a central access point to search several databases for information on genes, proteins, enzymes etc. Registration not required.
Click here for more informationsPublished on 2012-05-04 15:06:14
The Genome Data Viewer, NCBI genome browser, allows you to view and search an organism's complete genome, display chromosome maps, and zoom into progressively greater levels of detail, down to the sequence data for a region of interest. Registration not required.
Click here for more informationsPublished on 2012-05-04 14:46:15
A chemogenomics resource for neglected tropical diseases. Database includes extensive genetic, biochemical and pharmacological data related to tropical disease pathogens and computationally predicted druggability for potential targets and compound desirability Registration not required.
Click here for more informationsPublished on 2012-05-04 14:07:56
The DrugBank database contains extensive data on the nomenclature, ontology, chemistry, structure, function, action, pharmacology, pharmacokinetics, metabolism and pharmaceutical properties of both small molecule and large molecule (biotech) drugs. It also contains comprehensive information on the target diseases, proteins, genes and organisms on which these drugs act. Registration not required.
Click here for more informationsPublished on 2012-05-04 14:05:18
Biomedical search tools
Online genomic tools
Online proteomics tools
Calculators
Biomedical lab tools
Scientific writing/reading
Biomedical communities
Biomedical funding and jobs
Medical topics
Biomedical softwares