pscan-chip

ChIP-based identifcation of TF binding sites

Regulation of transcription is one of the main check points of gene expression regulation and plays a key role in fundamental processes like cellular differentiation and dynamic molecular responses to stimuli The transcriptional activity of genes is finely regulated by the interaction of sequence elements on the DNA (transcription factor binding sites or TFBSs) and particular proteins called Transcription Factors (TFs). , TFBSs are usually clustered in specific regulatory genomic regions called promoters and enhancers. TFs usually recognize TFBSs in a loose sequence specific fashion but there is no computational way to determine if any given sequence motif on the DNA is actually bound in-vivo by a TF, even when the motif is an istance of the sequences typically bound by the TF itself.

liblwres161

Lightweight Resolver Library used by BIND

The Berkeley Internet Name Domain (BIND) implements an Internet domain name server. BIND is the most widely-used name server software on the Internet, and is supported by the Internet Software Consortium, www.isc.org.

pscan-tfbs

search for transcription factor binding sites

Pscan finds Over-represented Transcription Factor Binding Site Motifs in Sequences from Co-Regulated or Co-Expressed Genes.

soapsnp

resequencing utility that can assemble consensus sequence of genomes

For getting ideas on the cause of diseases or their response to therapy, and for understanding either for a particular patient, doctors around the globe are starting to look at the genes or the whole genome and how that sequence is different from a healthy / well responding individual.

libsuper-csv-java

Super CSV library for Java

It is highly configurable, and supports reading and writing with POJOs, Maps and Lists. It also has support for deep-mapping and index-based mapping with POJOs, using the powerful Dozer extension.

python3-tempest-horizon

OpenStack Integration Test Suite - Horizon plugin transitional package

Tempest is a set of integration tests to be run against a live Openstack cluster in order to make sure that all components are working as expected. Tempest will start and stop virtual machine in order to check that your cloud is working as expected.