NOVELTIES
LabX has evolved as a highly specialized business-to-business marketplace where scientific equipment and supplies can be bought and sold. It provide a means for buyers and sellers to connect. Professionals from all industries visit LabX to buy and sell equipment and supplies. While 85% of customers are from North America, LabX enjoys a worldwide user base that includes Europe, Asia, Central and South America, and Australia. Registration not required.
Click here for more informationsPublished on 2012-04-29 00:27:08
R is a free software environment for statistical computing and graphics. It compiles and runs on a wide variety of UNIX platforms, Windows and MacOS Registration not required.
Click here for more informationsPublished on 2012-04-28 15:08:44
The Gene Expression Omnibus (GEO - NCBI) is a public repository archiving and freely distributing microarray, next-generation sequencing, and other forms of high-throughput functional genomic data submitted by the scientific community. In addition to data storage, a collection of web-based interfaces and applications are available to help users query and download the experiments and gene expression patterns stored in GEO. Registration not required.
Click here for more informationsPublished on 2012-04-28 15:07:20
WikiPathways is an open, public platform dedicated to the curation of biological pathways by and for the scientific community Registration not required.
Click here for more informationsPublished on 2012-04-28 10:15:07
BASE is a comprehensive free web-based database solution for the massive amounts of data generated by microarray analysis. Registration not required.
Click here for more informationsPublished on 2012-04-28 10:12:21
The Human Metabolome Database (HMDB) is a freely available electronic database containing detailed information about small molecule metabolites found in the human body. It is intended to be used for applications in metabolomics, clinical chemistry, biomarker discovery and general education. Registration not required.
Click here for more informationsPublished on 2012-04-28 10:11:06
Gene (NCBI) is a searchable database of genes, from RefSeq genomes, and defined by sequence and/or located in the NCBI Map Viewer Registration not required.
Click here for more informationsPublished on 2012-04-28 10:03:06
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analysis of transcription factor binding sites
Category: Transcription factors analysis
DiRE (Distant Regulatory Elements of co-regulated genes) uses gene co-expression data, comparative genomics, and combinatorics of transcription factor binding sites (TFBSs) to find TFBS-association signatures that can be used for discriminating specific regulatory functions. DiRE's unique feature is the detection of REs outside of proximal promoter regions, as it takes advantage of the full gene locus to conduct the search. DiRE can predict common REs for any set of input genes for which the user has prior knowledge of co-expression, co-function, or other biologically meaningful grouping. The server predicts function-specific REs consisting of clusters of specifically-associated TFBSs, and it also scores the association of individual TFs with the biological function shared by the group of input genes. Its integration with the Array2BIO server allows users to start their analysis with raw microarray expression data. Registration not required.
Click here for more informationsPublished on 2012-04-28 10:00:27
The Integrated Genomics Viewer (IGV) is a high-performance visualization tool for interactive exploration of large, integrated datasets. It supports a wide variety of data types including sequence alignments, microarrays, and genomic annotations. Registration required.
Click here for more informationsPublished on 2012-04-24 12:20:47
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Category: Other topics, Gene expression
Roadmap Epigenomics Project allows: Epigenome
The NIH Roadmap Epigenomics Mapping Consortium was launched with the goal of producing a public resource of human epigenomic data to catalyze basic biology and disease-oriented research. The Consortium leverages experimental pipelines built around next-generation sequencing technologies to map DNA methylation, histone modifications, chromatin accessibility and small RNA transcripts in stem cells and primary ex vivo tissues selected to represent the normal counterparts of tissues and organ systems frequently involved in human disease. Registration not required.
Click here for more informationsPublished on 2012-04-13 04:45:47
The UC Santa Cruz Xena (Cancer Genomics Browser) is a suite of web-based tools to visualize, integrate and analyze cancer genomics and its associated clinical data. It displays side-by-side heat maps of genomic data such as gene expression and copy number changes, and clinical data for a long list of cancer data sets, along with a feature that enables researchers to look for genomic variations that correlate with clinical outcomes. Registration not required.
Click here for more informationsPublished on 2012-04-12 10:02:38
The Cancer Genome Atlas (TCGA) Data Portal provides a platform to retrieve information on somatic mutations, or other data types such as copy number, DNA methylation, and gene expression, for a number of tumor types. It contains clinical information, genomic characterization data, and high-throughput sequencing analysis of the tumor genomes.TCGA updates as soon as new data become available. Registration not required.
Click here for more informationsPublished on 2012-04-12 09:12:22
The International Cancer Genome Consortium (ICGC) Data Portal allows researchers to access mutation and expression data for specific genes, or to scroll through data sets collected so far on 24 types of cancers by project teams in 9 countries. It represents a good starting point to check for known mutations and other aberrations in a gene of interest. Registration not required.
Click here for more informationsPublished on 2012-04-12 09:03:50
The Genomics of Drug Sensitivity in Cancer project from Weelcome Trust is an academic research program to identify molecular features of cancers that predict response to anti-cancer drugs. Participants are performing a large-scale drug screen incorporating detailed genomic and gene expression analyses to systematically identify drug response biomarkers. Registration not required.
Click here for more informationsPublished on 2012-04-12 08:56:29
It's a simple Excel spreadsheet from Jon Wittwer of Vertex42 for constructin box-plots by inputing single subject values. In addition the spreadsheet includes examples for generating a random number from a Normal distribution, for calculating cumulative probabilities and for shading a portion of the distribution. Registration not required.
Click here for more informationsPublished on 2012-04-10 10:23:54
It's a simple and well constructed Excel spreadsheet from Jon Wittwer of Vertex42 for graphing a Normal distribution curve by inputing either a mean & SD or single subject values. In addition the spreadsheet includes examples for generating a random number from a Normal distribution, for calculating cumulative probabilities and for shading a portion of the distribution. Registration not required.
Click here for more informationsPublished on 2012-04-10 10:14:10
The Broad-Novartis Cancer Cell Line Encyclopedia (CCLE) is an ongoing project from collaboration between the Broad Institute, and the Novartis Institutes for Biomedical Research and its Genomics Institute of the Novartis Research Foundation to conduct a detailed genetic and pharmacologic characterization of a large panel of human cancer models, to develop integrated computational analyses that link distinct pharmacologic vulnerabilities to genomic patterns and to translate cell line integrative genomics into cancer patient stratification. The CCLE provides public access analysis and visualization of DNA copy number, mRNA expression and mutation data for about 1000 cell lines. Registration required.
Click here for more informationsPublished on 2012-04-09 03:25:40
The server from MSKCC predicts the functional impact (high, medium, low, or neutral) of amino-acid substitutions in proteins, such as mutations discovered in cancer or nonsynonymous polymorphisms. The functional impact is assessed based on evolutionary conservation of the affected amino acid in protein homologs. MutationAssessor looks at conservation across all the homologs of a protein and also it takes into account the conservation within just the closest homologs, which is called “specificity.” This gives the tool an advantage in predicting mutations that have a functional impact, particularly those that lead to a change in function rather than a loss or gain of function Registration not required.
Click here for more informationsPublished on 2012-03-19 11:28:46
The Common Fund's Human Microbiome Project (HMP) aims to characterize the microbial communities found at several different sites on the human body, including nasal passages, oral cavities, skin, gastrointestinal tract, and urogenital tract, and to analyze the role of these microbes in human health and disease. HMP includes the following initiatives Registration not required.
Click here for more informationsPublished on 2012-03-16 05:12:06
TargetScan (Whitehead Institute) predicts biological targets of miRNAs by searching for the presence of conserved 8mer and 7mer sites that match the seed region of each miRNA Registration not required.
Click here for more informationsPublished on 2012-03-09 12:39:31
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