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Software interface for the statistical analysis of haplotype-disease association. HAPSTAT allows the user to estimate or test haplotype effects and haplotype-environment interactions by maximizing the (observed-data) likelihood that properly accounts for phase uncertainty and study design. The current version considers cross-sectional, case-control and cohort studies. (entry from Genetic Analysis Software)

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• SciCrunch
• 14 years ago - by Anonymous

A database of centralized mutation data on the PAH gene. Searchable fields of the database available to users are: mutation name, polymorphic haplotype, population, geographic location, gene region, codon number, mutation type, substitution, phenotype, author's name and many more. The complete information provided for each mutation is regularly updated from both published data and personal communications.

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• SciCrunch
• 17 years ago - by Anonymous

MALISAM is a database of pairwise, structure-based alignments for structurally analogous motifs in proteins. Homology and analogy are two alternative scenarios to explain structural similarities among proteins. Homologs inherit similar features from their common ancestor, while analogs converge to similar structures due to a limited number of energetically favorable ways to pack secondary structural elements. Analogous pairs in this database are in three categories: a hybrid motif and a core motif, an interface motif and a core motif, an artificial protein and a natural protein. During evolution, a protein family usually preserves a common core while accumulating insertions and deletions in the periphery. A core motif is composed entirely of secondary structure elements belonging to the evolutionary core. A hybrid motif consists of both core elements and peripheral insertions that are not present in the majority of the family members. An interface motif uses secondary structural elements from two or more domains or subunits contacting along that interface.

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• SciCrunch
• 17 years ago - by Anonymous

An Antibody supplier

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• SciCrunch
• 14 years ago - by Anonymous

Software program that presents complete raw datasets of individuals'' genotype data using a display format with samples as rows and polymorphisms as columns. The color code is: (1) blue: homozygous genotype for the common allele; (2) red: heterozygous genotype; (3) yellow: homozygous genotype for the rare allele; and (4) grey: missing data (entry from Genetic Analysis Software)

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• SciCrunch
• 14 years ago - by Anonymous

GiardiaDB is a resource for information on Giardia lamblia. It contains gene information, including genomic attributes, protein expression patterns, evolution, and EST sequence information. The website provides tools for BLASTing, sequence retrieval, graphic visualization, and PubMed information.

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• SciCrunch
• 17 years ago - by Anonymous

Software suite of six programs that can be used as a stand-alone extension of the pedigree drawing facilities found in the publicly available version of PEDPACK. (entry from Genetic Analysis Software)

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• SciCrunch
• 14 years ago - by Anonymous

A patient resource to provide Parkinson's disease patients and their families with information and resources to help understand and manage Parkinson's disease and improve the quality of life for both patient and caregiver, while increasing public awareness about the disease. The website also connects users with resources, such as therapy groups, physical exercise classes, and patient care resources. It gives users access to mailing lists, support group information, and other Parkinson's-related event information for Parkinson's patients and their families. Based at Stanford University Medical Center, it is a partnership between the American Parkinson Disease Association, Inc. and Stanford University.

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• SciCrunch
• 17 years ago - by Anonymous

The Kidney Development Database was created to collect in one place the data from a large number of developmental studies that have a bearing on the study of kidney development. With its oldest parts dating back to 1993/4, it is, as far as we know, the earliest computer database in the field of vertebrate organogenesis. Data are displayed in tables, arranged according to a standard scheme of kidney development explained in the key. Many of the entries are derived from low-power in situs or published text-only descriptions, and should therefore be interpreted with mild caution.

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• SciCrunch
• 17 years ago - by Anonymous

An Illumina Genome-Analyzer (Solexa) base caller.

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• SciCrunch
• 13 years ago - by Anonymous

IGTC uses GenMapp to provide maps of public gene trap data from members of the International Gene Trap Consortium (IGTC) to map sets of biological pathways and gene groupings. Users can browse the pathway diagrams and view which genes within the pathway have been trapped. Genes with gene trap insertions are colored on the pahtway diagram depending upon the number of traps of the gene. Clicking on a gene of interest will bring up a backpage of annotation data and detailed information about the gene trap cell lines.

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• SciCrunch
• 17 years ago - by Anonymous

A database for protein-nucleic acid interaction that provides various features of protein-nucleic acid interfaces.<BR/> There are 2333 protein-nucleic acid PDB complexes, 9547 SCOP domains, and 9633 domain-nucleic acid interfaces in BIPA. BIPA also provides a multiple structural alignment of representative structures at the SCOP family level using the program SALIGN, and the structural alignments were further annotated using the program JOY to detect local environments of amino acids.<BR/>

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• SciCrunch
• 17 years ago - by Anonymous

An Antibody supplier

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• SciCrunch
• 14 years ago - by Anonymous

An Antibody supplier

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• SciCrunch
• 14 years ago - by Anonymous

This site provides online servers for algorithms such as normal mode calculation, structural refinement, solvation, and mutation. The primary application is for biological macromolecules like proteins or DNA, but they can certainly be used for general structures.

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on March 17,2022. Genome databases for vertebrates and other eukaryotic species. Analysis and annotation maintained on current data.Distribution of analysis to other bioinformatics laboratories. Ensembl concentrates on vertebrate genomes, but other groups have adapted system for use with plant and fungal genomes (see Powered by Ensembl list on website).

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• SciCrunch
• 17 years ago - by Anonymous

JAIL is a database that classifies the interfaces between domain architectures and those between protein chains and between proteins and nucleic acids. Interacting proteins are difficult to crystallize and rarely present within the Protein Data Base. Nevertheless, it is essential to analyze the interacting parts of the proteins to understand the process of protein-protein docking. To overcome this problem we have built up the JAIL database. Since interacting domains exhibit similar structural features than proteins, all known interfaces between interacting domains of the SCOP database were extracted and classified in JAIL. Only a part of all protein structures are included in SCOP. Particularly, new PDB entries are not yet annotated. To overcome this problem additionally all interfaces between protein chains were calculated and included in the database. This type of interface also comprises the interacting parts of the assumed biological units. The last important type of interfaces provided here is composed of the interacting parts between proteins and nucleic acids. Overall the data set consists of about 180,000 interfaces. JAIL is a comfortable tool to browse through the interface library and to analyze single interfaces. However, more general questions require large-scale analysis. For this purpose, a detailed form enables the compiling of comprehensive non redundant data sets for download.

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• SciCrunch
• 17 years ago - by Anonymous

How is association mapping going to help me find genes? During the past decade, the genes for a large number of rare mendelian traits have been identified. However, traditional linkage analyses lack power and precision when applied to complex disease. Association mapping, which compares the effects of different chromosomal variants, may be more successful at identifying genes of small effect. How does QTDT help association mapping? Association mapping can produce misleading results when the study population is not homogeneous, but includes individuals with different genetic backgrounds. Family based association tests, commonly referred to as TDTs (Transmission Disequilibrium Tests), do not produce misleading results in these circumstances. QTDT can use all the information in a pedigree to construct powerful tests of association that are robust in the presence of stratification. What does the Q stant for ? Q stands for Quantitative. Quantitative traits provide effective descriptions of many complex diseases, including asthma. For many of these conditions, all or nothing definitions of disease are arbitrary and unsatisfactory. QTDT incorporates variance components methodology in the analysis of family data and includes exact estimation of p-values for analysis of small samples and non-normal data. The QTDT abbreviation (for Quantitative Transmission Disequilibrium Tests) was first used by David Allison in his 1997 paper. This research was supported in part by the intramural program of the National Eye Institute and by National Institutes of Health Grants EY016862, EY007758, EY09859, EY012118, P30-EY014801, EY-014458, EY014467, HL084729, and HG002651, by the Foundation Fighting Blindness, the Macula Vision Research Foundation, the American Health Assistance Foundation, Research to Prevent Blindness, the Pew Charitable Trusts, the Mayo Clinic Foundation, the Casey Macular Degeneration Center Fund, the Marion W. and Edward F. Knight AMD Fund, the Harold and Pauline Price Foundation, National Genotyping Centre of Spain, and the Elmer and Sylvia Sramek Foundation. The Center for Inherited Disease Research, fully funded through a federal contract (HHSN268200782096C) from National Institutes of Health to

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. EPGD isfocused on the paralogs and the duplication events in the evolution. It is gene-centered and organized by paralog family. The paralog families and paralogons can be searched by text or sequence, and are downloadable from the website in plain text files. The database will be very useful for both experimentalists and bioinformaticians for the study of duplication events or paralog families.

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• SciCrunch
• 17 years ago - by Anonymous

The GPCR NaVa database describes sequence variants within the family of human G Protein-Coupled Receptors (GPCRs). GPCRs regulate many physiological functions and are the targets for most of today&apos;s medicines. The acronym NaVa stands for Natural Variant, which means any (non-artificial) variant that occurs in humans. The GPCR NaVa database includes: 1) rare mutations (frequency &lt; 1%); 2) polymorphisms (frequency &gt; 1%), including Single Nucleotide Polymorphisms (SNPs); 3) variants without estimates of allele frequency. The GPCR NaVa database aids GPCR research by categorising and integrating information on variants from databases and scientific papers. Moreover, the GPCR NaVa database is linked with the reputable GPCRDB. In case of missing NaVas, please help our users by sending a completed Excel-file to Jeroen Kazius. human G Protein-Coupled Receptors, human G Protein, human G-protein

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• SciCrunch
• 17 years ago - by Anonymous