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Cscape is an application for visualizing and navigating through data from a Reverse Phase Protein Microarray (RPMA). Cscape uses the Google Maps API to map the RPMA data on top of an image of a cancer cell and its associated pathways.
The SNP ratio test can assess significance of enrichment of significant associations in genome-wide association studies. Tests can be applied to pathways such as KEGG/GO, or user-defined pathways to test specific hypotheses. See link below for more.
Create, in a few hours, an eCRF that is as easy to use as a paper one, and avoid the biggest headaches in data collection in Pre-authorisation and Post-authorisation studies of your medical device. Incorporate an EDC that is highly flexible when creating the eCRF, this will allow you to meet the needs of any kind of study. Save tons of time in the management and monitoring of the study with the management and monitoring tools included in the EDC. Use a validated system with all the security guarantees that give trust to the sponsor and allow the collection of quality data. Don’t wait until the analysis phase to discover mistakes in the data or you will end up chasing down investigators to correct them. Prevent the process of creation of an eCRF from being long and complex.
This is a utility to convert a set of fasta formatted sequences along with output from ELAND or SOAP (and other next generation sequence alignment in due time) to make them viewable using eagleview.
A repository linking to eight Bioinformatics Resource Centers (BRCs) sponsored by the NIAID. The BRCs are providing web-based resources to scientific community conducting basic and applied research on organisms considered potential agents of bioterrorism
BCAR is a library for the associative classification, which denotes "Boosting
Class Association Rules". BCAR provides a general tool for classification tasks
with various types of input data.
Harmonize + gene = Harmogene Efficiently create sets of genome annotations ("consensus annotations") from one or more source genomes using simple rules and and apply those annotations to one or more target genomes. See the Trac page for more info.
EdgeExpressDB (eeDB) is a federated data abstraction system designed for integrating, interpreting, and visualizing very large biology datasets. It is designed for scaling beyond Petabytes and 10^13 objects. http://fantom.gsc.riken.jp/4/edgeexpress
ProgPorts is an administrative and easy user interface to hundreds of proteomics, molecular dynamics, and protein crystallography programs. It is a hybrid of the prog/setup system, developed at Johns Hopkins University, and GNU-Darwin ports system.
PeptideProphet and ProteinProphet CGI program source files modified to make interoperable with Rosetta Biosoftware's Elucidator(R) System. All files are published and distributed under the LGPL license, v2.1.
ReAlignerV is an alignment tool focusing on genomic nucleotide
sequences upstream of genes. ReAlignerV integrates TRANSFAC(R) Match(TM)
results to detect the conserved TFBSs.
ReAlignerV is robust against transposable element insertions.
GPSR is a resource for genomics, proteomics and systems biology. The aim of this project is to build comprehensive resources in the field of bioinformatics.
DIY Genomics is an open source bioinformatics consortium intended to bring a collection of tools and libraries into the hands of small scale genomics labs for the process of sequence assembly and annotation. Projects include DIYA, MGAP, CRISPR, and DIYGV
EMMA 2 is web-based server application for management, annotation, and analysis of microarray data. It provides mapping of gene expression data onto pathway data extensible analysis and visualization functions and MAGE-ML support.
ArrayPipeLine is a web-based Laboratory Information Management system, using MySQL, Perl CGI and R. It enables high-throughput analysis of microarray data, providing automation of data handling, and rapid creation and implementation of analysis pipelines
Celsius is a data warehouse that provides web services for upload, archival, download, annotation, quantification, and normalization of all Affymetrix microarray platforms.