Curator Dashboard

A pathway-based graphical interface for navigating the glycoenzyme database. The goal of the project is to define the paradigms by which carbohydrate binding proteins function in cellular communication. These pages are divided into six categories: -Glycosphingolipid: Sub-categories are Isogloboseries, Globoseries, Neo-lactoseries, Lactoseries and Ganglioseries - N-linked: Sub-categories are High-mannose, Hybrid and Complex -Mucin -Terminal Core 1 -Other O-linked -Terminal All: Includes all potential terminal structures for each glycan category

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• 17 years ago - by Anonymous

An Antibody supplier

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• 14 years ago - by Anonymous

An Antibody supplier

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• 14 years ago - by Anonymous

Software package providing an interactive graphical interface for computations in dynamical systems and visualization of resulting geometric structures, designed for researchers and educators studying dynamical systems (both differential equations and discrete time systems). DsTool readily produces nice pictures for both discrete and continuous systems.

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• SciCrunch
• 17 years ago - by Anonymous

The HUGE protein database has been created to publicize the Human cDNA project at the Kazusa DNA Research Institute. This project will sequence and analyze long (>4 kb) human cDNAs and establish methods by using the sequence data how to predict the primary structure of proteins of various biological activities. Currently, it focuses on the analysis of cDNA clones encoding particularly large proteins (>50 kDa). The HUGE protein database contains various types of information derived from the predicted primary structure data of newly identified human proteins. The HUGE protein database are expected to cover various sets of large human proteins of hitherto unidentified functions. They are likely to be involved in cellular structure/motility (such as cytoskeleton, membrane skeleton, and motor proteins), gene expression and nucleic acid metabolism, cell signaling/communication (such as cellular adhesion, signal transduction, channels, and receptors), and so on.

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• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 22, 2016. A database of virus-specific oligonucloetides and their primers. It allows users to search based on virus name, PMID, VirOligoID, or taxonomy ID. The VirOligo database is part of an effort to provide methods suitable for assessing what viruses are present in samples. Such methods should faciliate studies of the spatial and temporal distribution of viruses and their diversity at any one time and place. To this end, researchers are also exploring Virus Signature Hybridization (ViSH) and Virus Signature Amplification (ViSA), microarray-based methods for hybridization and PCR amplification. The site employs Universal PCR techniques, a PCR that amplifies DNA fragments from more than one viral species, such as family- or genus-specific PCR.

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• 17 years ago - by Anonymous

Software application for Bayesian estimation of the population inbreeding coefficient f (entry from Genetic Analysis Software)

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• 14 years ago - by Anonymous

Software application for Bayesian estimation of the coancestry coefficient FST (entry from Genetic Analysis Software)

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• 14 years ago - by Anonymous

A database of protein domains shared by different sequence clusters. These were assembled by performing an "all-by-all" comparison of (putative) protein sequences with the BIOFACET software, building clusters of sequences based on their similarity and finally displaying à la Prodom the domains shared by the sequences in each cluster.

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• SciCrunch
• 17 years ago - by Anonymous

The Essential Genes in E. Coli website provides links to data on essential genes in E. coli, and shows a short list of E. coli essential genes identified from the Neidhardt E. coli books. Essential genes are defined as those genes which are required in WT strain MG1655 for the formation of colonies on solid rich medium within 24 hours of incubation at 37 degrees C.

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 22, 2016. A database aiming to guide experimental studies and in silico simulation studies on the culture conditions of obligate parasitic bacteria. Now we are gathering biological data relevant to the improvement of culture conditions of different obligate parasitic bacteria, and organizing a database named Metagrowth. The data were collected from literature, genomic sequence information, metabolic databases and transporter databases. Each database entry is composed of evidences and derived hypotheses. The hypotheses are physical conditions or supplementation of molecules in culture media, that may lead to the improvement of the bacterial growth. Currently about 200 entries are available for six different bacteria.

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• SciCrunch
• 17 years ago - by Anonymous

An Antibody supplier

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• 14 years ago - by Anonymous

It has been developed with the aim to annotate the complete set of Drosophila melanogaster nuclear genes encoding for mitochondrial proteins in order to contribute to their functional characterization. The data collected in MitoDrome derive from the comparison of Human mitochondrial proteins available in SWISSPROT vs. the Drosophila genome, ESTs and cDNA sequences available in the FlyBase database. According to the results, each Drosophila gene sharing significant homology with a human mitochondrial protein was classified as a putative Drosophila mitochondrial gene and annotated in MitoDrome.

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• 17 years ago - by Anonymous

An Antibody supplier

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• 14 years ago - by Anonymous

<BR/> ArchDB is a compilation of structural classifications of loops extracted from known protein structures.<BR/> ArchDB includes 4 classifications:<BR/> * ArchDB40 contains the classification of loops extracted from proteins domains of ASTRAL SCOP with less that 40% sequence identity.<BR/> * ArchDB95 contains the classification of loops extracted from proteins domains of ASTRAL SCOP with less that 95% sequence identity.<BR/> * ArchDB-EC is a classification of loops extracted from proteins with known enzymatic function<BR/> * ArchDB-KI is a curated classification database of kinase loops EC number 2.7.X.X with functional information of residues.<BR/> Futhermore, the functional annotation of residues in this database are further classified in four categories:<BR/> 1. ATP interaction: for residues involved on ATP binding/interaction.<BR/> 2. Substrate binding: for residues involved in substrate interaction/binding with the exception of ATP<BR/> 3. Ion interaction: for residues involved in ion interaction/binding of ions needed for the catalytic mechanism<BR/> 4. Catalytic: involved in reaction, the stabilization of a transition state or the activation of substrates.<BR/> Additionally, three different approaches were applied to identify functional residues of the loops of the sub-classes:<BR/> 1. Residues found within a cut-off distance of 6���� from an heteroatom, ligand, inhibitor, cofactor or complex partner molecule (protein or DNA), with the exception of D2O or crystallization buffer molecules.<BR/> 2. Residues identified by functional information from ACTSITE and SITE records in the RCSB protein data bank.<BR/> 3. Residues identified by the functional annotation collected from the literature and assigned to specific motifs of kinases.<BR/> Lastly, the multiple ways to browse and query in ArchDB are:<BR/> * Search by sequence: Users can search for classified loop(s) with sequence similarity to a query sequence.<BR/> * Search by structure: Users can upload protein coordinates in PDB format and its loops will be extracted and compared with those from the classification. First: structural class is assigned comparing loop geometry and, second: the loop conformation is compared among the subclasses within the assigned class.<BR/> * Search subclasses and/or Search Loops: A range of options are offered for subclass or loop searches. Users can query ArchDB asking for subclasses or loops with specific flanking secondary structures, length of loops or phi/psi loop conformation. Also, users can retrieve all subclasses or loops with PDB SITE annotations and contacts with co-crystallized ligands. Finally, users can search for subclasses that have SCOP, GO or EC annotations conserved at different percentage levels.<BR/> * Search structures: Users can search for classified PDB structures in ArchDB with specific Sprot. Annotation/Keyword, GO annotation, SCOP and EC codes.<BR/> * Specific queries for ArchDB-KI: Users can list functional subclasses or loops classified in ArchKI.<BR/> :Sponsors: ArchDB is funded by grants from Fundacin Areces (Spain), Ministerio de Ciencia y Tecnologa Spain (MCYT; BIO2002-03609, BIO2001-246 and BIO2001-264), Centre de Referncia en Biotecnologia Generalitat de Catalunya (CERBA), and the Generalitat de Catalunya<BR/> :<BR/> :Enzyme-specific classification,<BR/> :Kinase proteins, ligand, Protein residue, Protein motif, Protein loop, <BR/>

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• 17 years ago - by Anonymous

The Therapeutically Relevant Multiple Pathways Database is designed to provide information about such multiple pathways and related therapeutic targets described in the literatures, the targeted disease conditions, and the corresponding drugs/ligands directed at each of these targets. This database currently contains 11 entries of multiple pathways, 97 entries of individual pathways, 120 targets covering 72 disease conditions along with 120 sets of drugs directed at each of these targets. Each entry can be retrieved through multiple methods including multiple pathway name, individual pathway name and disease name. Additional information provided include protein name, synonyms, Swissprot AC number, species, gene name and location, protein sequence (AASEQ) and gene sequence (NTSEQ) as well as potential therapeutic implications while applicable. Cross-links to other databases are provided which include Genecard, GDB, Locuslink, NCBI, KEGG, OMIM, SwissProt to facilitate the access of more detailed information about various aspects of the particular target or non-target protein. Queries can be submitted by entering or selecting the required information in any one or combination of the fields in the form. User can specify full name or any part of the name in a text field, or choose one item from an selection field. Sponsors: TRMP is supported by the National University of Singapore.

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• SciCrunch
• 17 years ago - by Anonymous

A software tool that allows users to input a DNA (or RNA) sequence and obtain its inverse, complement or inverse complement. The program can also be used to display a DNA sequence and its complement in double-stranded format. Functions after users paste a DNA sequence into the upper text box, then click the appropriate button to place a manipulated form of the sequence in the lower text box.

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• SciCrunch
• 16 years ago - by Anonymous

A collection of Active protein Sequences, or protein fragments or subsequences, collected in the form of function-oriented databases. Since its first release, ASC has extended its topics to other specific functions as well as by including databases with structural peculiarities. The current release (Spring 2005) includes seven databases: - AIRS: a database of Auto Immune Related Sequences. The collected information comes from the literature and each entry reports the peptide sequence, information about its biological activity, the reference (with hyperlink to Medline or other similar service). - BAC: a database of Bio ACtive peptides. The collected information comes from the literature and each entry reports the peptide sequence, its biological activity, the reference (with hyperlink to Medline or other similar service). - CHAMSE: a database of CHAMeleon SEquences. This name indicates the structural feature of some segments which have been observed to assume both alpha helix and beta strand structure in 3D models of proteins. - DORRS: a Database Of RGD Related Sequences which collects active linear and cyclized short peptide sequences taken from literature. - DVP: a database of Delivery Vector Peptides. The collected information comes from the literature and each entry reports the peptide sequence and the reference (with hyperlink to Medline or other similar service). - SSP: a Database of Structures of Solved Peptides. - TRANSIT: a database of TRANsglutamination SITes which collects information from literature about protein amino acids substrates of the transglutaminase enzyme (E.C. 2.3.2.13 - click the number for the ENZYME database link at the ExPASy Molecular Biology Server).

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• 17 years ago - by Anonymous

A database of the genomes of representative strains of the four Shigella species and comparative genomic hybridization (CGH) of 43 different serotypes of Shigella strains by microarray. The intra-species comparison of Shigella genomes are presented at several different levels in the database, including not only basic genome features, structure of genomes and orthologs ordering, but also metabolic pathways and virulence factors. Moreover, the CGH results on 43 different serotypes of Shigella strains were also integrated into ShiBASE. The newly developed online sequence comparison visualization service, Shi-align, offers an easy way for biologists to perform comparative analysis on their own data.

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• 17 years ago - by Anonymous

Provides access to large scale cell culture at reasonable cost. The Cell Culture Center has experience with the production of over 1700 cell lines. Numerous common cell lines, such as HeLa, CHO, 293, BHK, and hybridomas are routinely produced at the Center. We will adapt your cell line or custom protocol to large scale production then deliver the cells in the quantity and frequency you need. Large Scale Production Services: Mammalian cells: Suspension culture (1 to 400 liters per day), Anchorage dependent culture (1 to 200 roller bottles per batch), Purified monoclonal antibodies (10 mg to 100 grams), Non-hybridoma cell secreted proteins, Conditioned media Secreted proteins from suspension cultures can be produced in automated hollow fiber bioreactor systems. These systems may be considered after initial static culture production yields are determined. Upon determining the quantities requested by the investigator, the appropriate automated system will be used. For more information on the automated instrumentation available for the use of secreted protein production, please refer to the Biovest International web page (www.biovest.com). Working with our experienced personnel and quality controlled, state-of-the-art facilities also permits access to large quantities of cells or protein so you aren''t limited by the cell culture capacities of your own laboratory. The Center fulfills the needs of small research laboratories as well as those of larger institutions. Customers from all sectors of the research and industrial community are welcome to inquire about our services. If you''d like to inquire about using our services, use the contact infromation below. Key words: Cell, cells, culture, monoclonal, antibodies, antibody.

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• 17 years ago - by Anonymous