Utilizing Modular Biobanking Software in Different Types of Biobanking Activities.

Biobanking defines all activities linked to bioresource management-whether of human, animal, microbial, or environmental origin-which means that any biobank information management system should take into account the multistep life cycle of the samples: from acquisition, through preparation, storage, to distribution to the end users (medical or research teams). Different types of biobanks can use diverse approaches, making it difficult to find software that can handle all types of scenarios. Modul-Bio has developed MBioLIMS BioBanking, a software dedicated to biobanking, as a modular solution so that our various clients can access the functionalities and scale in a system to match their needs.

EDGEdb: a transcription factor-DNA interaction database for the analysis of C. elegans differential gene expression.

Background: Transcription regulatory networks are composed of protein-DNA interactions between transcription factors and their target genes. A long-term goal in genome biology is to map protein-DNA interaction networks of all regulatory regions in a genome of interest. Both transcription factor -and gene-centered methods can be used to systematically identify such interactions.

A map of the interactome network of the metazoan C. elegans.

To initiate studies on how protein-protein interaction (or "interactome") networks relate to multicellular functions, we have mapped a large fraction of the Caenorhabditis elegans interactome network. Starting with a subset of metazoan-specific proteins, more than 4000 interactions were identified from high-throughput, yeast two-hybrid (HT=Y2H) screens. Independent coaffinity purification assays experimentally validated the overall quality of this Y2H data set.

C. elegans ORFeome version 1.1: experimental verification of the genome annotation and resource for proteome-scale protein expression.

To verify the genome annotation and to create a resource to functionally characterize the proteome, we attempted to Gateway-clone all predicted protein-encoding open reading frames (ORFs), or the 'ORFeome,' of Caenorhabditis elegans. We successfully cloned approximately 12,000 ORFs (ORFeome 1.1), of which roughly 4,000 correspond to genes that are untouched by any cDNA or expressed-sequence tag (EST).