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Full-Length cDNA Database is a resource for cDNA libraries of arhtropods and parasites. The arthropod species covered are Anopheles stephensi, Glossina morsitans (Tsetse fly), and Dermatophagoides farinae (House dust mite), while the parasitic species included are Plasmodium falciparum (Malaria), Toxoplasma gondii, Cryptosporidium parvum, Babesia bovis (Babesia), and Echinococcus multilocularis. A specialized database of each species is available as a link from the home page. This database has been constructed and maintained since 2001 by a Grant-in-Aid for Publication of Scientific Research Results from the Japan Society for the Promotion of Science. Anopheles stephensi, Glossina morsitans, Tsetse fly, Dermatophagoides farinae, House dust mite, Plasmodium falciparum, Malaria, Toxoplasma gondii, Cryptosporidium parvum, Babesia bovis, Babesia, Echinococcus multilocularis, cDNA, cDNA library, arthropod genome, parasite genome

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• SciCrunch
• 17 years ago - by Anonymous

Flexible Structural Neighborhood is a database of structural neighbors of proteins as seen by FATCAT - a flexible protein structure alignment program. The server accepts either a protein (PDB ID) or a domain (SCOP ID) as a query. For the former case, the server first displays the information of chains and domains of a given protein. Afterwards, users can retrieve similar structures for a domain (if domain information is available, i.e., the protein is collected by SCOP), or for a chain otherwise. The protein structure database we collected for similar structure search includes a representative set at 90% sequence identity of SCOP domains, and of up-to-date PDB entries that are not included in the latest release of SCOP.

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• SciCrunch
• 17 years ago - by Anonymous

fRNAdb is a database of comprehensive non-coding RNA (ncRNA) sequences including known (or previously reported) ncRNAs, which are acquired from other sequence databases, and ncRNA sequences reported by the joint research groups of the Functional RNA Project. It is funded by the New Energy and Industrial Technology Development Organization.

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• SciCrunch
• 17 years ago - by Anonymous

This project aims to provide the information and technical resources to support high-throughput positional cloning in Drosophila melanogaster. These resources include a high-density genome-wide map of single nucleotide polymorphisms (SNPs), and inexpensive, high-throughput assays for SNP genotyping. The specific aims were as follows: 1. To establish a map of >2200 SNP marker loci in the Drosophila genome. These SNP markers have been identified in several commonly used genetic strains. The FlySNP project identified SNP markers within the sequenced, euchromatic regions of the X, 2nd and 3rd chromosomes. The average distance between SNPs is about 50 kb. 2. To establish robust, high-throughput assays for SNP genotyping. Assays have been established using PCR, microarray and mass-spectrometry methods. The tag-array mini-sequencing (TAMS) approach has proven to be an especially fast and reliable method for SNP genotyping.

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• SciCrunch
• 17 years ago - by Anonymous

FlyEx is a database that stores quantitative data on gene expression in segmentation genetic network in fruit fly Drosophila melanogaster. It includes images of gene expression patterns, quantitative and processed data, conceptual schemes, and integrated patterns constructed from available data. The design of the FlyEx database is supported by awards from the Center for Research Resources of the NIH, grant RR-07801. Drosophila melanogaster genome, Drosophila gene expression, Drosophila segmentation

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• SciCrunch
• 17 years ago - by Anonymous

An interactive database of the Drosophila melanogaster nervous system. It is used by the drosophila neuroscience community and by other researchers studying arthropod brain structure. Flybrain contains neuroanatomical peer reviewed descriptions of the central and peripheral nervous system of Drosophila melanogaster. It also contains an introductory hypertext tour guide to the basic structure of the nervous system, as well as more specific information concerning different anatomical structures, developmental stages, and visualization techniques for the Drosophila nervous system. Additionally, The site contains schematic representations, a 3D project, immunocytology stains, a library of golgi impregnations, and enhancer-trap images.

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• SciCrunch
• 17 years ago - by Anonymous

A database that has been designed to facilitate the integration of data from high-throughput experiments carried out in Drosophila cell culture. It includes phenotypic information from published cell-based RNAi screens, gene expression data from Drosophila cell lines, protein interaction data, together with novel tools to cross-correlate these diverse datasets, such as the phenotype clustering tool Shuffle. We believe it will complement existing Drosophila databases and will prove useful to researchers working in other organisms who are looking for a simple way to navigate their way through the fly genome.

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• SciCrunch
• 17 years ago - by Anonymous

A database for the functional analysis of the Arabidopsis genome. The ultimate objective of this project is to develop a database and associated bioinformatics tools based on the integration of genomic data around a selection of plant complete genomes. This tool will help users to understand the biological role of plant genes by considering them in a wide context: a multigene family, a topological environment, and/or a functional network. The database and the associated user-friendly interface is developed with a conceptual effort for the graphical display and the hierarchical organization of the data. The running integration involves the structural and functional international annotations, EST from different plant species, novel gene predictions, mutant tags, gene families, protein motifs, transcriptome data, repeat sequences, primers and tags for genomic approaches (DNA chips, synteny studies, BAC library screening, RT-PCR, SNP discovery, ...), subcellular targeting, secondary structures, 3D models, MPSS tags, curated annotations and mutant phenotypes.

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• SciCrunch
• 17 years ago - by Anonymous

It is an automated system for human transcripts (mRNA & ESTs) annotation and elucidation of de-novo genes. GeneTIDE aims to integrate various data resources in order to create a comprehensive list of human genes. This is done by association between the set of over ~5.5 million human ESTs currently available from dbEST and mRNA sequences from GenBank to the set of ~35,000 human genes as defined in GeneCards. Heretofore transcripts (mRNA & EST) can be : :1. Proven to belong to an existing GeneCards gene :2. Used to define de-novo genes :3. Demonstrated to be an artifact or contaminated(genomic DNA, vector, etc.), and should therefore be discarded.

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• SciCrunch
• 17 years ago - by Anonymous

Software application (entry from Genetic Analysis Software)

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• SciCrunch
• 14 years ago - by Anonymous

Public research university founded in 1892 located on a 1,245-acre main campus in Kingston, Rhode Island.

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• SciCrunch
• 16 years ago - submitted by Anita Bandrowski

A database of Protein Data Bank structures, ligands and annotated functional site residues. The database can be accessed by PDB codes or UniProt accession numbers as well as keywords. FireDB contains information on every chemical compound in the PDB, including their descriptions, the PDB structures in which the compounds are found and the amino acids that are in contact with the ligand.

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• SciCrunch
• 17 years ago - by Anonymous

FCP is a publicly accessible web tool dedicated to analyzing the current state and trends of available proteome structures along the classification schemes of enzymes and nuclear receptors. It offers both graphical and quantitative data on the degree of functional coverage in that portion of the proteome by existing structures and on the bias observed in the distribution of those structures among proteins. Users can choose to search the website based on structures or ligands, and can also sort by enzyme or receptor. Users can also view data based on structural and population (species) filters.

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• SciCrunch
• 17 years ago - by Anonymous

F-SNP database provides integrated information about the functional effects of SNPs obtained from 16 bioinformatics tools and databases. The functional effects are predicted and indicated at the splicing, transcriptional, translational, and post-translational level. As such, the F-SNP database helps identify and focus on SNPs with potential pathological effect to human health. Users can find SNP's based on ID, associated disease, gene, or chromosomal region.

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. EXProt (database for EXPerimentally verified Protein functions) is a new non-redundant database containing protein sequences for which the function has been experimentally verified. EXProt is a selection of 6491 entries which are described to have an experimentally verified function. The entries in EXProt all have a unique ID number and provide information about organism, protein sequence, functional annotation, link to entry in original database, and if known, gene name and link to references in PubMed. The EXProt database can be searched with BLAST or FASTA with amino acid or nucleotide sequence as query sequence. Note that only the sequence goes into the field. EXProt database is also searchable in SRS6 at CMBI. In a near future entries from the genome project of Lactobacillus plantarum by Wageningen Centre for Food Sciences (WCFS) will be added to EXProt.

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• SciCrunch
• 17 years ago - by Anonymous

Evola is a sub-database of H-InvDB, providing ortholog data as evolutionary annotation. Representative transcripts (one transcript per one gene locus) were analyzed as genes. Orthologs were first detected by computational analysis. Then, more reliable orthologs were determined by manual curation inspecting the phylogenetic trees., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

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• SciCrunch
• 17 years ago - by Anonymous

EVEREST is an automatic process of identifying and classifying of protein domains. Users can search for specific proteins using Protein ID or name, browse through protein families, and upload/download protein sequence data. EVEREST combines methodologies from the fields of finite metric spaces, machine learning and statistical modeling and achieves state of the art results. The process begins by constructing a database of protein segments that emerge in an all vs. all pairwise sequence comparison. It then proceeds to cluster these segments into putative domain families, choosing the best putative families using machine learning techniques, and creating a statistical model for each of the chosen families. This procedure is then iterated: The aforementioned statistical models are used to scan all protein sequences, to recreate a segment database and to cluster them again. Performance was evaluated by comparing with Pfam and SCOP.

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• SciCrunch
• 17 years ago - by Anonymous

The University of Rennes 1 is one of the two main universities in the city of Rennes, France. It is under the Academy of Rennes. It specializes in science, technology, law, economy, management and philosophy.

• Organization
• SciCrunch
• 15 years ago - submitted by Andrea Stagg

Ontology of human dermatologic disease

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• SciCrunch
• 13 years ago - by Anonymous

Ontology for host pathogen interactions in farmed animals

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• SciCrunch
• 13 years ago - by Anonymous