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http://www.ncbi.nlm.nih.gov/unists

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 22, 2016. Database of sequence tagged sites (STSs) derived from STS-based maps and other experiments. STSs are defined by PCR primer pairs and are associated with additional information such as genomic position, genes, and sequences. Chromosome maps are labeled by name of the originating organism, the map title, total markers, total UniSTSs and links to view maps as well as research documents available through PubMed, another NCBI database. The search functions within UniSTS allow the user to search by gene marker, chromosome, gene symbol and gene description terms to locate markers on specified genes. A representation of the UniSTS datasets is available by ftp. NOTE: All data from this resource have been moved to the Probe database, http://www.ncbi.nlm.nih.gov/probe. You can retrieve all UniSTS records by searching the probe database using the search term unists(properties). (use brackets insead of parenthesis). Additionally, legacy data remain on the NCBI FTP Site in the UniSTS Repository (ftp://ftp.ncbi.nih.gov/pub/ProbeDB/legacy_unists).

Proper citation: UniSTS (RRID:SCR_006843) Copy   

•   Source: SciCrunch Registry

http://www.ncbi.nlm.nih.gov/COG

A database for phylogenetic classification for proteins encoded in complete genomes. Clusters of Orthologous Groups of proteins (COGs) were delineated by comparing protein sequences encoded in complete genomes, representing major phylogenetic lineages. Each COG consists of individual proteins or groups of paralogs from at least 3 lineages and thus corresponds to an ancient conserved domain. Please be aware that COGs hasn't been updated in many years and will not be.

Proper citation: COG (RRID:SCR_007139) Copy   

•   Source: SciCrunch Registry

http://murphylab.web.cmu.edu/services/SLIF/

SLIF finds fluorescence microscope images in on-line journal articles, and indexes them according to cell line, proteins visualized, and resolution. Images can be accessed via the SLIF Web database. SLIF takes on-line papers and scans them for figures that contain fluorescence microscope images (FMIs). Figures typically contain multiple FMIs, to SLIF must segment these images into individual FMIs. When the FMI images are extracted, annotations for the images (for instance, names of proteins and cell-lines) are also extracted from the accompanying caption text. Protein annotation are also used to link to external databases, such as the Gene Ontology DB. The more detailed process includes: segmentation of images into panels; panel classification, to find FMIs; segmentation of the caption, to find which portions of the caption apply to which panels; text-based entity extraction; matching of extracted entities to database entries; extraction of panel labels from text and figures; and alignment of the text segments to the panels. Extracted FMIs are processed to find subcellular location features (SLFs), and the resulting analyzed, annotated figures are stored in a database, which is accessible via SQL queries.

Proper citation: Subcellular Location Image Finder (RRID:SCR_006723) Copy   

•   Source: SciCrunch Registry

http://www.mtf.org

The Musculoskeletal Transplant Foundation is a non-profit service organization dedicated to providing quality allograft tissue through a commitment to excellence in education, research, recovery and care for recipients, donors and their families. We are a national consortium comprised of academic medical institutions, organ procurement organizations and tissue recovery organizations. MTF was created as a charitable organization with a mission that is dedicated to the needs of donors, donor families, patients and surgeons. We focus on respectful stewardship of the donated gift while advancing the science and practice of bone, ligament, cartilage and skin transplantation. Since our inception in 1987, MTF has recovered more than 60,000 donors and distributed more than 3 million grafts for transplantation. We also support research to expand the science of transplantation, and we encourage the efforts of our members and non-member clients to improve the understanding of donation and transplantation among the medical community and the public at large. Our policies are developed and implemented by MTF''''s Medical Board of Trustees, Donation Board of Trustees and Board of Directors, composed of physicians and recovery agency representatives who are dedicated to the mission of the Foundation. This fundamental commitment enables us to set and maintain the highest levels of safety assurance and quality control in all phases of our operations.

Proper citation: Musculoskeletal Transplant Foundation - MTF (RRID:SCR_006684) Copy   

•   Source: SciCrunch Registry

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1347366/

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 19, 2016. It provides a common access point to interaction resources at MIPS. It is designed to support the PSI-MI standard, for both downloading and uploading data. It provides the user with intuitive query forms to quickly retrieve the interactions of interest. Graphical representations allow an easy navigation through the protein interaction networks.

Proper citation: MPact: Representation of Interaction Data at MIPS (RRID:SCR_006687) Copy   

•   Source: SciCrunch Registry

http://www.mbio.ncsu.edu/RNaseP/home.html

Ribonuclease P is responsible for the 5''-maturation of tRNA precursors. Ribonuclease P is a ribonucleoprotein, and in bacteria (and some Archaea) the RNA subunit alone is catalytically active in vitro, i.e. it is a ribozyme. The Ribonuclease P Database is a compilation of ribonuclease P sequences, sequence alignments, secondary structures, three-dimensional models and accessory information. The database contains information on bacterial, archaeal, and eukaryotic RNase P. The RNase P and protein sequences are available from phylogentically-arranged lists, individual sequences, or aligned in GenBank format. The database also provides secondary structures and 3D models, as well as movies, still images, and other accessory information.

Proper citation: RNase P Database (RRID:SCR_006680) Copy   

•   Source: SciCrunch Registry

http://www.disprot.org/

The Database of Protein Disorder (DisProt) is a curated database that provides information about proteins that lack fixed 3D structure in their putatively native states, either in their entirety or in part. Users can BLAST sequences, browse by protein name, or view by protein function and functional subclass.

Proper citation: DisProt - Database of Protein Disorder (RRID:SCR_007097) Copy   

•   Source: SciCrunch Registry

http://www.biologie.ens.fr/diatomics/EST3

A searchable databases of diatom ESTs (expressed sequence tags) that can be used to explore diatom biology. Research has generated approximately 90,000 ESTs from P. tricornutum cells grown in a range of conditions. Here we present a database of these sequences, that can be used for digital gene expression studies to explore this organisms responses to a range of environmental conditions. Such studies should provide a foundation for interpreting the ecological success of diatoms.

Proper citation: The Diatom EST Database (RRID:SCR_007090) Copy   

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http://blogs.nature.com/actionpotential

Action Potential is a forum operated by neuroscience editors at Nature for the entire neuroscience community. We''ll discuss what''s new and exciting in science, be it in our journals or elsewhere, as well as science policy and publishing and provide updates from major meetings. Although we provide the opportunity to comment as a service to the community, we do not endorse all viewpoints represented here. To contact the contributors directly with confidential questions or suggestions for future entries, please e-mail n.gray (at) us.nature.com.

Proper citation: Action Potential (RRID:SCR_006836) Copy   

•   Source: SciCrunch Registry

http://www.athamap.de/

Genome wide map of putative transcription factor binding sites in Arabidopsis thaliana genome.Data in AthaMap is based on published transcription factor (TF) binding specificities available as alignment matrices or experimentally determined single binding sites.Integrated transcriptional and post transcriptional data.Provides web tools for analysis and identification of co-regulated genes. Provides web tools for database assisted identification of combinatorial cis-regulatory elements and the display of highly conserved transcription factor binding sites in Arabidopsis thaliana.

Proper citation: AthaMap (RRID:SCR_006717) Copy   

•   Source: SciCrunch Registry

http://diprodb.fli-leibniz.de

The Dinucleotide Property Database is designed to collect and analyse thermodynamic, structural and other dinucleotide properties. The table presenting all the dinucleotide properties can be pruned and rearranged by different criteria. The database contains different export and analysis functions.

Proper citation: Dinucleotide Property Database (RRID:SCR_007128) Copy   

•   Source: SciCrunch Registry

http://molonc.bccrc.ca/platforms/btb/

The Molecular Oncology department hosts the breast cancer tumour tissue repository (BREAST-TTR), a project within the agency-wide tumour tissue repository. The BREAST-TTR comprises several important banks of breast tissues, contemporaneous as well as archival. The main banks are: * 3000 frozen breast cancers, linked to 15 year outcomes data from the BCCA Breast Cancer Outcomes Unit. This archival bank consists of frozen tissue, DNA and RNA, and a tissue microarray of the cases. * Live-cryopreserved cancers. At present around 50 individual cases of metastatic breast cancer, with tumour material cryopreserved for subsequent cell culture/xenograft work. * Comptemporary bank. Between the TTR in Victoria and the accrual site in Vancouver, approximately 1300 contemporaneous (within last 4 years) breast cancers with matched normal DNA and outcomes linkages.

Proper citation: British Columbia Breast Cancer Tumour Bank (RRID:SCR_006671) Copy   

•   Source: SciCrunch Registry

http://www.biomedcentral.com/developingcountries/

Free, immediate and permanent online access to the full text of all articles published within its portfolio of over 200 peer-reviewed journals, and through its open access waiver fund, ensuring that scientific authors in low-income countries do not face financial barriers to publishing in open access journals. Open access provides a way for researchers from low-income countries to participate more fully in the international research community, and so BioMed Central has created a set of initiatives designed to increase the visibility and output of scientific research from these countries.

Proper citation: Open Access and the developing world (RRID:SCR_006672) Copy   

•   Source: SciCrunch Registry

http://globin.cse.psu.edu/globin/hbvar

HbVar is a relational database of information about hemoglobin variants and mutations that cause thalassemia. The initial data came from Syllabi authored by Prof. Titus H.J. Huisman, Mrs. Marianne F.H. Carver, Dr. Erol Baysal, and Prof. Georgi D. Efremov. This information was converted to a database, and now new entries are added and old entries are corrected by curators. HbVar results from a collaboration among several investigators at Penn State University (USA), INSERM Creteil (France), and Boston University Medical Center (USA). Visit our query page or summary page to see the types of information available.

Proper citation: Database of Human Hemoglobin Variants and Thalassemias (RRID:SCR_007084) Copy   

•   Source: SciCrunch Registry

http://dptf.cbi.pku.edu.cn/

Database of collected known and predicted transcription factors (TF) of the black cottonwood tree, Populus trichocarpa. They have made extensive annotations, including similarity searches against major databases (Uniprot, RefSeq, EMBL, TRANSFAC et al) and EST expression information extraction from UniGene clusters and microarray expression, to provide comprehensive information for the putative TFs. In addition, multiple alignment of the DNA-binding domain of each family, Neighbor-Joining phylogenetic tree of each family, the GO annotation, homolog with the Database of Arabidopsis Transcription Factors (DATF), the Database of Rice Transcription Factors (DRTF) are included.

Proper citation: Database of Poplar Transcription Factors (RRID:SCR_007080) Copy   

•   Source: SciCrunch Registry

http://gbrowse.org/

A database and interactive web site for manipulating and displaying annotations on genomes. Features include: detailed views of the genome; use of a variety of premade or personally made glyphs ; customizable order and appearance of tracks by administrators and end-users; search by annotation ID, name, or comment; support of third party annotation using GFF formats; DNA and GFF dumps; connectivity to different databases, including BioSQL and Chado; and a customizable plug-in architecture (e.g. run BLAST, find oligonucleotides, design primers, etc.). GBrowse is distributed as source code for Macintosh OS X, UNIX and Linux platforms, and as pre-packaged binaries for Windows machines. It can be installed using the standard Perl module build procedure, or automated using a network-based install script. In order to use the net installer, you will need to have Perl 5.8.6 or higher and the Apache web server installed. The wiki portion accepts data submissions.

Proper citation: GBrowse (RRID:SCR_006829) Copy   

•   Source: SciCrunch Registry

http://digestive.niddk.nih.gov/statistics/statistics.aspx

A collection of statistics about specific digestive diseases, including prevalence, mortality, care delivery and cost.

Proper citation: Digestive Diseases Statistics for the United States (RRID:SCR_006703) Copy   

•   Source: SciCrunch Registry

http://www.expasy.org/ch2d/

A database of proteins identified by various 2-D PAGE and SDS-PAGE reference maps. Each SWISS-2DPAGE entry contains textual data on one protein, including mapping procedures, physiological and pathological information, experimental data (isoelectric point, molecular weight, amino acid composition, peptide masses) and bibliographical references. In addition to this textual data, SWISS-2DPAGE provides several 2-D PAGE and SDS-PAGE images showing the experimentally determined location of the protein, as well as a theoretical region computed from the sequence protein, indicating where the protein might be found in the gel. Using the database, users can locate these proteins on the 2-D PAGE maps or display the region of a 2-D PAGE map where one might expect to find a protein from UniProtKB/Swiss-Prot.

Proper citation: SWISS-2DPAGE (RRID:SCR_006946) Copy   

•   Source: SciCrunch Registry

http://neuropathologyblog.blogspot.com/

Blog by Brian E. Moore, MD, discussing issues pertaining to the practice of neuropathology -- including nervous system tumors, neuroanatomy, neurodegenerative disease, muscle and nerve disorders, ophthalmologic pathology, neuro trivia, neuropathology gossip, job listings and anything else that might be of interest to a blue-collar neuropathologist. Brian E. Moore, MD: Neuropathologist, Memorial Medical Center in Springfield, Illinois. Co-Chair, Southern Illinois University School of Medicine Department of Pathology.

Proper citation: neuropathology blog (RRID:SCR_006825) Copy   

•   Source: SciCrunch Registry

http://wwwmgs.bionet.nsc.ru/mgs/gnw/aspd/

THIS RESOURCE IS NO LONGER IN SERVICE, documented on June 04, 2014. Curated database on selected from randomized pools proteins and peptides designed for accumulation of experimental data on protein functionality obtained by in vitro directed evolution methods (phage display, ribosome display, SIP etc.) ASPD is integrated by means of hyperlinks with different databases (SWISS-PROT, PDB, PROSITE, etc). The database also contains modules for pairwise correlation analysis and BLAST search.

Proper citation: Artificial Selected Proteins/Peptides Database (RRID:SCR_007557) Copy   

•   Source: SciCrunch Registry