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A public research university in Belfast, Ireland that offers degree programs in a wide variety of disciplines at the undergraduate, graduate and postgraduate level.

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

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on March 17, 2022. A secure repository for storing, cataloging, and accessing cancer genome sequences, alignments, and mutation information from the Cancer Genome Atlas (TCGA) consortium and related projects. CGHub gives scientific researchers the statistical power of large cancer genome datasets to attack the molecular complexity of cancer.

• Resource
• SciCrunch
• 13 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented on August 26, 2016. The T-DB contains millions of structural alignments between all proteins in the PDB as of July 2005 found by the TOPOFIT method. Structural neighbors to the query protein structure can be retrieved by the PDB code and chain id. Pairwise or multiple structural alignments can be visualized in 3D with the FRIEND software. In the TOPOFIT method, similarity of protein structures is analyzed using three-dimensional Delaunay triangulation patterns derived from backbone representation. It has been found that structurally related proteins have a common spatial invariant part, a set of tetrahedrons, mathematically described as a common spatial sub-graph volume of the three-dimensional contact graph derived from Delaunay tessellation (DT). Based on this property of protein structures we present a novel common volume superimposition (TOPOFIT) method to produce structural alignments of proteins. The superimposition of the DT patterns allows one to uniquely identify a common number of equivalent residues in the structural alignment, in other words, TOPOFIT identifies a feature point on the RMSD/Ne curve, a topomax point, until which two structures correspond to each other including backbone and inter-residue contacts, while the growing number of mismatches between the DT patterns occurs at larger RMSD (Ne) after topomax point. The topomax point is present in all alignments from different protein structural classes; therefore, the TOPOFIT method identifies common, invariant structural parts between proteins. The TOPOFIT method adds new opportunities for the comparative analysis of protein structures and for more detailed studies on understanding the molecular principles of tertiary structure organization and functionality. It helps to detect conformational changes, topological differences in variable parts, which are particularly important for studies of variations in active/binding sites and protein classification.

• Resource
• SciCrunch
• 17 years ago - by Anonymous

Public research university in San Diego, California. Founded in 1897 as San Diego Normal School, it is the third-oldest university in the 23-member California State University system.

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

Databases utilize rich ad-hoc query system for the analysis of public health data. Reports and other query systems are also available.

• Resource
• RRID
• 2 years ago - submitted by Yuelin He

Catalog of internet resources relating to biological model organisms, and is part of the Biosciences area of the Virtual Library project. The main Model Organisms Library discussed in this website are: * E. coli (bacterium) * Yeasts (Saccharomyces cerevisiae, and other species) * Dictyostelium discoideum (slime mold) * Drosophila melanogaster (fruit fly) * Xenopus laevis (African clawed frog) Many aspects of biology are similar in most or all organisms, but it is frequently much easier to study particular aspects in particular organisms - for instance, genetics is easier in small organisms that breed quickly, and very difficult in humans! The most popular model organisms have strong advantages for experimental research, and become even more useful when other scientists have already worked on them, discovering techniques, genes and other useful information.

• Resource
• SciCrunch
• 17 years ago - by Anonymous

Strategically located in the state capital of New York, the University at Albany is an internationally recognized public research institution that brings The World Within Reach to nearly 18,000 students at the graduate and undergraduate levels. The varied perspectives and life experiences of a student body and faculty that represent more than 100 nations provide a diversity that enriches learning at UAlbany.

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

Database as a division of GenBank that contains sequence data and other information on single-pass cDNA sequences, or Expressed Sequence Tags, from a number of organisms.

• Resource
• SciCrunch
• 17 years ago - by Anonymous

An audio summary of highlights and key articles from each issue of The American Journal of Psychiatry. Users may subscribe to the podcast to get automatic updates with each issue or download each issue''s audio file individually.

• Resource
• SciCrunch
• 15 years ago - by Anonymous

Public research university located in Swansea, Wales, United Kingdom. It was chartered as University College of Swansea in 1920, as the fourth college of the University of Wales.

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

Institutional Spectroscopy Laboratory is equipped with a comprehensive suite of instruments for spectroscopic analysis. Our capabilities include absorption spectroscopy (UV-Vis, NIR, and IR), Raman scattering, and fluorescence emission spectroscopy.

• Resource
• SciCrunch
• 1 year ago - submitted by Edyta Vieth

This database have been funded by the National Human Genome Research Institute (NHGRI) to produce shotgun sequence of the Tetraodon nigriviridis genome. The strategy involves Whole Genome Shotgun (WGS) sequencing, in which sequence from the entire genome is generated. Whole genome shotgun libraries were prepared from Tetraodon genomic DNA obtained from the laboratory of Jean Weissenbach at Genoscope. Additional sequence data of approximately 2.5X coverage of Tetraodon has also been generated by Genoscope in plasmid and BAC end reads. Broad and Genoscope intend to pool their data and generate whole genome assemblies. Tetraodon nigroviridis is a freshwater pufferfish of the order Tetraodontiformes and lives in the rivers and estuaries of Indonesia, Malaysia and India. This species is 20-30 million years distant from Fugu rubripes, a marine pufferfish from the same family. The gene repertoire of T. nigroviridis is very similar to that of other vertebrates. However, its relatively small genome of 385 Mb is eight times more compact than that of human, mostly because intergenic and intronic sequences are reduced in size compared to other vertebrate genomes. These genome characteristics along with the large evolutionary distance between bony fish and mammals make Tetraodon a compact vertebrate reference genome - a powerful tool for comparative genetics and for quick and reliable identification of human genes.

• Resource
• SciCrunch
• 17 years ago - by Anonymous

UCalgary offers diverse educational and research experiences for Canadian and International students, with top undergraduate and graduate programs.

• Organization
• SciCrunch
• 17 years ago - submitted by Stephen Larson

Software application to identify spanning hypervariable region(s) from amplicon sequencing variants or SRA public runs (SRR). Aligns query sequences to reference E. coli full-length 16S rRNA gene and identifies spanning region through alignment. Used for identifying hypervariable regions in 16S rRNA big datasets.

• Resource
• RRID
• 1 year ago - submitted by Jonas Kasmanas

Blog discussing preprints in population and evolutionary genetics.

• Resource
• SciCrunch
• 13 years ago - by Anonymous

Public university in Germany that offers degrees in law, management and business, the arts and humanities, and human sciences.

• Organization
• SciCrunch
• 18 years ago - submitted by Stephen Larson

Offers advanced single and combined services including genomics, imaging, metabolomics and lipidomics, in vivo disease modelling, cell-based alternative methods, drug screening, and bioinformatics, providing researchers with essential tools for scientific exploration. Staff members offer advice on experimental design, data processing, and troubleshooting, as well as training to facilitate the use of our technologies.

• Resource
• RRID
• 1 year ago - submitted by Shaman Narayanasamy

The REasons for Geographic and Racial Differences in Stroke (REGARDS) project, sponsored by the National Institutes of Health (NIH), is a national study focusing on learning more about the factors that increase a person''s risk of having a stroke. REGARDS is an observational study of risk factors for stroke in adults 45 years or older. 30,239 participants were recruited between January 2003 and October 2007. They completed a telephone interview followed by an in-home physical exam. Measurements included traditional risk factors such as blood pressure and cholesterol levels, and an echocardiogram of the heart. At six month intervals, participants are contacted by phone to ask about stroke symptoms, hospitalizations and general health status. The study is ongoing and will follow participants for many years. The purpose of the REGARDS project is to understand why people in some parts of the country develop more strokes than people in other parts of the country, and why blacks develop more strokes than whites. We hope to learn how to reduce the number of people having strokes.

• Resource
• SciCrunch
• 16 years ago - by Anonymous

Public research university in Guelph, Ontario, Canada.

• Organization
• SciCrunch
• 15 years ago - submitted by Stephen Larson

Software application to perform Bayesian analysis on expression and gene dependency data across different cell lineages. Integrates expression as the dependent variable and gene dependency data as the independent variable. Used to identify cancer gene targets by jointly analyzing global transcriptomic and proteomic profiles with genetic dependency data of cancer cell lines across tissue lineages.

• Resource
• RRID
• 1 year ago - submitted by Abdulkadir Elmas