Resources (Archive)

PathoDB® Professional is a database on pathologically relevant mutated forms of transcription factors and their binding sites. It comprises numerous cases of defective transcription factors or mutated transcription factor binding sites, which are known to cause pathological defects. The underlying genetic defects and the resulting diseases are considered as well. PathoDB® is developed by Biobase and only available for members of the UKG.
Please read the license conditions before using PathoDB.


ReAlSplice collects information on the splicing sites which will be "glued" together during the splicing event, on additional sites in the pre-mRNA which are regarded to influence alternative splicing and on factors involved in alternative splicing (i.e. splicing factors).


S/MARt DB collects information about scaffold/matrix attached regions and the nuclear matrix proteins that are supposed be involved in the interaction of these elements with the nuclear matrix. It covers the whole range from yeast to human.

It covers the whole range from yeast to human. For convenience S/MARt DB provides links to Medline abstracts of the extracted publications, relevant entries in primary sequence databases, (EMBL/GenBank/DDBJ, SwissProt and PIR) and to databases devoted to gene regulation (Transfac and TRRD).


TiProD is a database of human promoter sequences for which some functional features are known. It allows a user to query individual promoters and the expression pattern they mediate, gene expression signatures of individual tissues, and to retrieve sets of promoters according to their tissue-specific activity or according to individual Gene Ontology terms the corresponding genes are assigned to. We have defined a measure for tissue-specificity that allows the user to discriminate between ubiquitously and specifically expressed genes or any Gene Ontology (GO)-assignment, e.g. to a given biological process.

 

TRANSCompel® Professional is a specialized database module on composite regulatory elements. Such elements are found in many promoters and enhancers of eukaryotic genes. They consist of two binding sites of two different transcription factors, which through this combination form a module with new regulatory properties. Composite elements frequently serve as integration sites of two (or more) signaling pathways.
TRANSCompel® Professional progresses from single binding events (as in theTRANSFAC® Professional database) to combinatorial regulation, helping to build up structures of entire promoters. TRANSCompel® Professional is developed by Biobase and only available for members of the UKG.
Please read the license conditions before using TRANSCompel® Professional

The TRANSFAC® database helps researchers to understand the transcriptional control of genes.Functionally regulated and disregulated conditions are provided in different databases. Each of the databases deals with one special feature in eukaryotic cells.TRANSFAC® delivers any information on transcription factors, their genomic binding sites and the regulated genes.Based on the binding sites matrices which can be retrieved from multiple site entries in the TRANSFAC® database analysis tools can be used to elucidate new potential target genes. TRANSFAC® Professional is developed by Biobase and only available for members of the UKG.
Please read the license conditions before using TRANSFAC® Professional.


TRANSPATH® Professional comprises data about molecules participating in signal transductionand the reactions they undergo, thus spanning a complex network of interconnected signalling components. TRANSPATH® Professional focuses on signalling cascades that aim at transcription factors and thus alter the gene expression profile of a given cell.TRANSPATH® Professional is the resource of choice in disclosing the upstream regulators and downstream targets of each molecule in the regulatory network.
Connected and integrated with the TRANSFAC® Professional database, TRANSPATH® Professional bridges the gap between extra cellular signal molecules (such as hormones, cytokines etc.) and the genes responding to these triggers. TRANSPATH® is developed by Biobase and only available for members of the UKG.
Please read the license conditions before using TRANSPATH®.


TRANSPRO? is a database module within the TRANSFAC® Suite. It contains upstream (5') sequences of human, mouse, and rat genes. The TRANSPRO? sequences can be directly searched for potential regulatory elements with the help of BIOBASE tools such as TRANSPLORER®, Match?, Patch?, and Catch®. TRANSPRO? is developed by Biobase and only available for members of the UKG.
Please read the license conditions before using TRANSPRO?.


TSM, the TRANSFAC Saccharomyces Module is an extensive repository of information on yeast transcription factors and transcription factor binding sites. It is based upon the TRANSFAC database (Matys et al., 2003) and was implemented in the framework of the Comprehensive Yeast Genome Database (CYGD) project.