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SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.

(last updated: Oct 12, 2019)

Physical Resource or Software Tool Software

16,890 Results - per page

Resource NameResource TypeDescriptionKeywordsResource IDProper CitationParent OrganizationRelated ConditionFunding AgencyRelationReferenceWebsite StatusAlternate IDsAlternate URLsOld URLs
Zymo ResearchResource, commercial organization, antibody supplier, core facility, service resource, access service resource, reagent supplier, material resourceA commercial service organization that for DNA Methylation available for bisulfite treatment of DNA for methylation-specific analysis, histone, chromatin, and small RNA analysis and for the next era of DNA methylation detection and analysis.SCR_008968(Zymo Research, RRID:SCR_008968)listed by: Science ExchangeLast checked upnlx_152491, nlx_152491, SciEx_13327
Zymo GeneticsResource, organization portal, portal, data or information resourceFounded in 1981, ZymoGenetics is a biopharmaceutical company focused on the development and commercialization of therapeutic proteins. ZymoGenetics is publicly traded (NASDAQ: ZGEN) and headquartered in Seattle, Washington in the historic Seattle City Light Steam Plant building. Our mission is to create novel protein drugs that will significantly help patients fight their diseases. We have contributed to the discovery or development of six recombinant protein products now marketed by other companies. Current programs target viral infection, cancer, inflammatory diseases and bleeding. Our first internally developed product, RECOTHROM Thrombin, topical (Recombinant), was approved by the U.S. Food and Drug Administration (FDA) on January 17, 2008 for use as a topical hemostat to control moderate bleeding during surgical procedures and is now marketed in the United States. We have a promising pipeline of novel therapeutics, which we are developing on our own or in collaboration with partners.SCR_008602(Zymo Genetics, RRID:SCR_008602)Last checked upnif-0000-31937
ZyagenResource, material resource, reagent supplier, commercial organization, antibody supplierAn Antibody supplierSCR_013650(Zyagen, RRID:SCR_013650)Last checked upnlx_152490
ZyagenResource, service resource, commercial organization, core facility, access service resourceA commercial service organization from Zyagen.SCR_005295(Zyagen, RRID:SCR_005295)listed by: Science ExchangeLast checked downSciEx_13206
Zung Self-Rating Depression ScaleResource, material resource, assessment test providerA self-rating scale to assess the level of depression for patients diagnosed with depressive disorder. There are 20 items on the scale that rate the rating affective, psychological and somatic symptoms associated with depression. There are ten positively worded and ten negatively worded questions. Each question is scored on a scale of 1 through 4 (based on these replies: a little of the time, some of the time, good part of the time, most of the time). Scores on the test range from 20 through 80. The scores fall into four ranges: Scoring: * 20-44 Normal Range * 45-59 Mildly Depressed * 60-69 Moderately Depressed * 70 and above Severely Depressed The Zung Self-Rating Depression Scale has been translated into many languages, including Arabic, Azerbaijani, Dutch, German, Portuguese, and Spanish. (Adapted from Wikipedia)affective, psychological, somaticSCR_003692(Zung Self-Rating Depression Scale, RRID:SCR_003692)Depressive DisorderLast checked upnlx_157845
zUMIsResource, software resource, software application, data analysis software, data processing softwareSoftware pipeline to process RNA-seq data with UMIs. The input to this pipeline is paired-end fastq files, where one read contains the cDNA sequence and the other read contains UMI and Cell Barcode information.single-cell, RNA-seq, UMI, Genomics, shell, r, perl, rna, cdna, cell, sequencingSCR_016139(zUMIs, RRID:SCR_016139)DOI:10.1101/153940Last checked up
ZoteroResource, software resourceA software application that allows users to add and store research content directly from the web. Users can use the tool to add research content and bibliographic references directly to their Zotero library from their browser. The application stores PDFs, images, audio and video files, and snapshots of web pages on a single searchable interface.software application, scientific literature, browserSCR_013784(Zotero, RRID:SCR_013784)George Mason University; Virginia; USA Alfred P. Sloan Foundation, Andrew W. Mellon Foundation, Institute of Museum and Library Servicesrelated to: Connected Researchers, Overleaf, uses: Citation Style Language, listed by: Connected ResearchersLast checked up
ZooniverseResource, analysis service resource, service resource, production service resource, material analysis serviceA production service resource which allows researchers to enlist the help of volunteers in projects. Researchers can build web-based projects where volunteers can assist in identification, classification, and/or characterization of specific "items" in images. An example of a project is having volunteers mark the instances when nematode worms lay eggs as part of a larger project concerning genes and behavior.production service resource, volunteer, web-based project, material analysis serviceSCR_013969(Zooniverse, RRID:SCR_013969)related to: Connected Researchers, listed by: Connected ResearchersLast checked uphttps://www.zooniverse.org/#/lab-how-to
ZOOMResource, software resource, commercial organizationSoftware to map the Illumina/Solexa reads of 15x coverage of a human genome to the reference human genome in one CPU-day, allowing two mismatches, at full sensitivity.next-generation sequencing, illumina, solexa, reference genomeSCR_002175(ZOOM, RRID:SCR_002175)listed by: OMICtoolsPMID:18684737Last checked upOMICS_01852
ZoomifyResource, software resourceZoomify makes high-quality images zoom-and-pan for fast, interactive viewing on the web. Zoomify''s image viewing solutions use just HTML, JPEGs, and Flash - no large downloads, no special installs, and no server-side setup is required. And Zoomify''s innovative features provided added value including support for slideshows, hotspots, annotation, side-by-side comparison, and much more. Zoomifys products meet the high-quality, high-resolution imaging needs of creative professionals and image-centric applications. Zoomify is revolutionizing digital imaging in medicine and the sciences, image archiving and museum exhibits, defense and security, education, entertainment, and more.SCR_008601(Zoomify, RRID:SCR_008601)Last checked upnif-0000-31935
ZooBankResource, data or information resource, controlled vocabulary, databaseA database of scientific names in zoology. ZooBank is an online, open-access, community-generated registry for zoological nomenclature. It serves as a service to taxonomists, biologists, and the global diversity informatics community. It is the Official Register of the International Commission on Zoological Nomenclature (ICZN).zoo, bank, taxonomy, biology, global diversity, informatics, registry, zoology, iczn, official register of the international commission on zoological nomenclatureSCR_000901(ZooBank, RRID:SCR_000901)NSFLast checked upnlx_156872
ZMPResource, database, biomaterial supply resource, production service resource, material service resource, service resource, material resource, biomaterial manufacture, data or information resourceCreate knockout alleles in protein coding genes in the zebrafish genome, using a combination of whole exome enrichment and Illumina next generation sequencing, with the aim to cover them all. Each allele created is analyzed for morphological differences and published on the ZMP site. Transcript counting is performed on alleles with a morphological phenotype. Alleles generated are archived and can be requested from this site through the Zebrafish International Resource Center (ZIRC). You may register to receive updates on genes of interest, or browse a complete list, or search by Ensembl ID, gene name or human and mouse orthologue.phenotype, genome, gene, disease model, allele, orthologue, mutant, chromosome, human orthologue, mouse orthologue, mutation, knockout, human, mouse, transcriptSCR_006161(ZMP, RRID:SCR_006161)Wellcome Trust Sanger Institute; Hinxton; United Kingdom NIH, Wellcome Trust Sanger Institute; Hinxton; United Kingdom, ZF-HEALTHrelated to: Zebrafish International Resource Center, listed by: One Mind Biospecimen Bank ListingLast checked upnlx_151662
ZMMResource, data visualization software, software application, data processing software, software resourceZMM is a molecular modeling program for theoretical studies of systems of any complexity: small molecules, peptides, proteins, nucleic acids, and ligand-receptor complexes. ZMM searches optimal structures in the space of generalized coordinates: torsion angles, bond angles, bond lengths, positions free molecules and ions, and orientation of free molecules. Any generalized coordinate may be kept fixed. Molecules and fragments that are not expected to undergo significant conformational changes may be treated as rigid bodies. Popular molecular modeling programs usually work in the space of Cartesian coordinates of atoms. During energy minimization of a big system, many Cartesian coordinates-variables move collectively. For example, rotation of a benzene ring around the C-Ph bond in the Cartesian-coordinates space involves collective motion of 33 variables. In the generalized-coordinates space, this rotation involves variation of just one torsion angle. In ZMM, any fragment of a molecular system may be treated as either rigid or flexible. The generalized-coordinates method saves large computational resources if only a small part of a system is considered flexible. Examples are ligand-protein and protein-protein interactions. The savings occur because the sampling space is reduced and because molecular interactions within rigid fragments are not computed. * ZMM runs on Windows 95, 98, 2000, XP, UNIX, and Linux * ZMM can be used via the command-line interface * ZMM can also be used at Windows via a graphical user interfacemolecule, molecular model, peptide, protein, nucleic acid, ligand-receptor complex, small moleculeSCR_005741(ZMM, RRID:SCR_005741)Last checked upnlx_149201
ZincResource, data or information resource, databaseWelcome to ZINC, a free database of commercially-available compounds for virtual screening. ZINC contains over 13 million purchasable compounds in ready-to-dock, 3D formats. ZINC is provided by the Shoichet Laboratory in the Department of Pharmaceutical Chemistry at the University of California, San Francisco (UCSF). To cite ZINC, please reference: Irwin and Shoichet, J. Chem. Inf. Model. 2005;45(1):177-82 PDF, DOI. We thank NIGMS for financial support (GM71896). There are release notes for ZINC 10. - We have a survey where you can give us feedback.SCR_008596(Zinc, RRID:SCR_008596)Last checked upnif-0000-31930
Zinc Finger ToolsResource, software resourceThis site provides several tools for selecting zinc finger protein (ZFP) target sites and for designing the proteins that will target them. These ZFPs can be fused with effector domains that confer transcriptional activation or repression activity as well as catalytic functions.SCR_008598(Zinc Finger Tools, RRID:SCR_008598)The Scripps Research Institute Last checked upnif-0000-31934
Zinc Finger Consortium DatabaseResource, data or information resource, databaseZiFDB is a database of zinc finger arrays and zinc finger proteins organized for use by molecular biologists. ZiFDB organizes information on both individual zinc finger modules and engineered ZFAs. There are currently four sets of zinc finger modules available: 1) Sangamo BioScience researchers have identified fingers recognizing all 5''-GNN-3'' and a few of 5''-ANN-3'', 5''-CNN-3'' and 5''-TNN-3'' triplets using phage display, targeted mutagenesis and SELECT methods (Liu et al., 2002); 2) the Barbas group constructed another set of models, which recognize all 5''-GNN-3'', most 5''-ANN-3'', 5''-CNN-3'' and a few 5''-TNN-3'' triplets (Dreier et al., 2001; Dreier et al., 2005; Dreier et al., 2000;); 3) Toolgen, Inc. isolated a set of naturally-occurring zinc finger modules from human transcription factors (Bae et al., 2003); 4) the Joung lab has made a large number of ZFAs by OPEN, and the constituent zinc fingers are included in the database. For the engineered ZFAs, we have collected information on 3-finger ZFAs, since this is the architecture advocated by the Zinc Finger Consortium (http://www.zincfingers.org), a group of academic laboratories dedicated to the development of improved methods to engineer zinc finger proteins. Currently, all ZFAs in ZiFDB are described in the published literature. In the future, unpublished ZFAs will also be included. It is hoped that the information in this database will help molecular biologists develop zinc finger reagents that meet their needs for genome modification. Further, we hope the analysis of the collected information will aid in improving modular design.SCR_006082(Zinc Finger Consortium Database, RRID:SCR_006082)Iowa State University; Iowa; USA Last checked downnif-0000-03657http://bindr.gdcb.iastate.edu:8080/ZiFDB/
ZINBAResource, software resourceSoftware to identify genomic regions enriched in a variety of ChIP-seq and related next-generation sequencing experiments (DNA-seq), calling both broad and narrow modes of enrichment across a range of signal-to-noise ratios. ZINBA models and accounts for factors that co-vary with background or experimental signal, such as G/C content, and identifies enrichment in genomes with complex local copy number variations. ZINBA provides a single unified framework for analyzing DNA-seq experiments in challenging genomic contexts.SCR_010868(ZINBA, RRID:SCR_010868)University of North Carolina at Chapel Hill; North Carolina; USA listed by: OMICtoolsPMID:21787385Last checked upOMICS_00465
Zhejiang University; Zhejiang; ChinaResource, undergraduate program resource, graduate program resource, degree granting program, training resourceA public research university with twelve main academic disciplines that include science, engineering, agriculture and medicine. The university has campuses across China in locations such as Yuquan, Zhijiang and Zhoushan. It has studies available in undergraduate, graduate and post-doctorate degrees.china, undergraduate, graduate, post doctorate, research universitySCR_000224(Zhejiang University; Zhejiang; China, RRID:SCR_000224)uses: ReadCubeLast checked upnlx_149178
ZF-screensResource, organization portal, service resource, portal, data or information resourceA commercial organization with expertise and multiple departments that focus on both fish physiology and molecular cell biology. ZF-pharma has developed patented technology for the automated in vivo high-throughput screening of pharmaceutical drug candidates against diseases. They seek industrial partners that are interested in obtaining a license for this technology or, alternatively, would prefer to outsource screening of TB drugs to ZF-pharma. NewCatch BV has developed a tool for use in sustainable aquaculture. The tool will first be used for reproduction of the highly valued fish species eel, pikeperch and sole. They seek industrial / aquaculture partners interested in obtaining a license for ZF-implants in other fish species. NewCatch BV carries out fish reproductive research, for instance European eel (Anguilla anguilla), exploring maturation and reproduction. ZF-Genomics offers multiple sequencing services, including mRNAseq and microRNA analysis and de novo and reference genome assemblies. In addition they also offer the bioinformatics services that are needed to make sense of the sequence data. In addition, they perform Next generation sequencing tasks for (inter)national research project partners and for external customers.next generation sequencing, pharmaceutical, in vivo, reproduction, mrnaseq, microrna, maturation, fish physiology, fish molecular cell biologySCR_003910(ZF-screens, RRID:SCR_003910)related to: Predict-TBLast checked upnlx_158253
zfishbookResource, database, biomaterial supply resource, production service resource, image collection, material service resource, service resource, material resource, biomaterial manufacture, data or information resourceCollection of revertible protein trap gene-breaking transposon (GBT) insertional mutants in zebrafish with active or cryopreserved lines from initially identified lines. Open to community-wide contributions including expression and functional annotation and represents world-wide central hub for information on how to obtain these lines from diverse members of International Zebrafish Protein Trap Consortium (IZPTC) and integration within other zebrafish community databases including Zebrafish Information Network (ZFIN), Ensembl and National Center for Biotechnology Information.\\nRegistration allows users to save their favorite lines for easy access, request lines from Mayo Clinic catalog, contribute to line annotation with appropriate credit, and puts them on optional mailing list for future zfishbook newletters and updates.gene-breaking transposon, expression-tagged, revertible mutation, gene, transposon, mutation, mutant, brain, muscle, skin, secretory, cardiac, brain line, muscle line, skin line, secretory line, cardiac line, plasmid, expression, functional annotation, gene-breaking transposon line, gene-break transposon mutagenesis, cell line, annotation, embryonic zebrafish, larval zebrafishSCR_006896(zfishbook, RRID:SCR_006896)Mayo Clinic Minnesota; Minnesota; USA Mayo Clinic Cancer Center, Mayo Foundation, NHGRI, NIDA, NIGMSrelated to: Addgene, Zebrafish International Resource Center, listed by: One Mind Biospecimen Bank ListingPMID:22067444Last checked upnlx_151613
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