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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.

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Resource Name Proper Citation Abbreviations Resource Type Description Keywords Resource Relationships Related Condition Funding Defining Citation Availability Website Status Alternate IDs Alternate URLs Old URLs Parent Organization Resource ID Synonyms Record Last Update Mentions Count
Agilent 2100 Bioanalyzer Instrument
 
Resource Report
Resource Website
100+ mentions
Agilent 2100 Bioanalyzer Instrument (RRID:SCR_018043) instrument resource Bioanalyzer system is automated electrophoresis tool that provides an analytical evaluation of various samples types in many workflows, including next generation sequencing NGS, gene expression, biopharmaceutical, and gene editing research. Digital data is provided in timely manner and delivers assessment of sizing, quantitation, integrity and purity from DNA, RNA, and proteins. Minimal sample volumes are required for accurate result, and data may be exported in many different formats. ABRF, bioanalyzer, electrophoresis, DNA, RNA, protein, data analysis, instrument, equipment is listed by: USEDit SCR_019389, Model_Number_2100 Bioanalyzer https://www.agilent.com/cs/library/usermanuals/public/2100_Bioanalyzer_Expert_USR.pdf SCR_018043 Agilent 2100 Bioanalyzer, , 2100 Bioanalyzer (Agilent Technologies) 2026-02-07 02:10:07 184
Sanford Burnham Prebys Medical Discovery Institute NMR Facility
 
Resource Report
Resource Website
Sanford Burnham Prebys Medical Discovery Institute NMR Facility (RRID:SCR_014861) instrument supplier, material resource Facility that acts as a centralized shared resource for NMR studies on proteins, peptides, small molecules, and carbohydrates in solution or in solid state. It provides instrumentation and expertise for NMR data collection. It also provides consultation with investigators on the feasibility of NMR for structural studies of protein candidates, as well as the optimal method to obtain solution structures and binding information by multi-dimensional NMR techniques. It can also train users in basic spectrometer operations, trouble-shoot for instrumental and operational problems, and set up NMR experiments for users as requested. facility, medical, nmr, protein, peptide, small molecules, carbohydrates, data collection, consultation, spectrometer, linux, software, analysis Commercially available SCR_014861 SBP NMR Facility, SBP Medical Discovery Institute NMR Facility 2026-02-07 02:16:10 0
Sanford Burnham Prebys Medical Discovery Institute Protein Analysis Core
 
Resource Report
Resource Website
Sanford Burnham Prebys Medical Discovery Institute Protein Analysis Core (RRID:SCR_014862) instrument supplier, material resource Facility that provides a variety of analytical services focused on biophysical characterization of structural and functional properties of proteins in solution, under native, non-denaturing conditions. Examples of services include quality control of protein samples (folding, stability, aggregation); measuring molecular weight of proteins, protein complexes, oligomers and assemblies; charcaterizing protein conformation and shape in solution; determining oligomeric state of protein (including stoichiometry and Kd for self-association) and measuring protein binding to proteins, peptides, small molecules, compounds, metals, nucleotides and other ligands (including determination of equilibrium (Kd) and kinetic rate (kon, koff) constants, stoichiometry, binding enthalpy and entropy). facility, la jolla, protein, analysis, quality control, molecular weight, stoichiometry Commercially available SCR_014862 SBP Medical Discovery Institute Protein Analysis Core, SBP Protein Analysis Core 2026-02-07 02:15:54 0
Vilber E-BOX CX5 TS gel imager
 
Resource Report
Resource Website
Vilber E-BOX CX5 TS gel imager (RRID:SCR_026106) instrument resource Stand alone gel imager for gel documentation. Provides high-resolution images of DNA, RNA or protein gels. Images can either be printed out directly or saved in internal storage. Transfer of data to PC is possible. gel imager, gel documentation, images, DNA, RNA, protein, gels Model_Number_ E-BOX_CX5_TS SCR_026106 E-BOX CX5 TS imager 2026-02-07 02:17:06 0
ALLSHENG Nano100 Micro-specrophotometer
 
Resource Report
Resource Website
ALLSHENG Nano100 Micro-specrophotometer (RRID:SCR_026096) instrument resource Nano-100 microspectrophotometer to measure concentration of nucleic acid, protein and cell solution. 0.5 to 2μl of sample volume is required for each measurement. No cuvette is required. At the end of measurement, sample could be either wiped off directly or recovered with pipettor. spectrophotometer, measure, absorbance, concentration, nucleic acid, protein, cell solution, Model_Number_Nano100 SCR_026096 , Nano100 Micro-specrophotometer, Nano-100 micro-spectrophotometer 2026-02-07 02:17:16 0
BD Rhapsody Single-Cell Analysis System
 
Resource Report
Resource Website
1+ mentions
BD Rhapsody Single-Cell Analysis System (RRID:SCR_027096) instrument resource System allows high-throughput capture of multiomic information from single cells using cartridge workflow and multitier barcoding system. Used for high-throughput, multiomic profiling of single cells. Allows to analyze gene expression at both mRNA and protein levels, as well as other cellular characteristics, using microwell-based system with multitiered barcoding approach.This enables the generation of various next-generation sequencing (NGS) libraries for deeper analysis. profiling of single cells, analyze gene expression, mRNA, protein, multitiered barcoding, generation of next-generation sequencing libraries, SCR_027096 2026-02-07 02:18:01 3
National Biomedical Center for Advanced ESR Technology
 
Resource Report
Resource Website
1+ mentions
National Biomedical Center for Advanced ESR Technology (RRID:SCR_001444) ACERT biomedical technology research center, training resource Biomedical technology research center that develops methods, both experimental and theoretical, of modern electron spin resonance (ESR) for biomedical applications. Center technologies are applicable to the determination of the structure and complex dynamics of proteins. Principal areas of expertise: * Pulsed Fourier Transform and Two Dimensional ESR * High Frequency-High Field (HFHF) ESR * High Resolution ESR Microscopy * Theory and Computational Methods for Modern ESR Activities include: * making resources available to the biomedical community, * publishing results, * running workshops on the new methodologies, * addressing the need to bring these new technologies to other laboratories. electron spin resonance, spectrometer, electron spin resonance spectrometer, structure, dynamics, protein, structural biology technology center has parent organization: Cornell University; New York; USA NIGMS P41GM103521;
NCRR P41RR016292
Free, Freely Available nlx_152669 SCR_001444 ACERT National ESR Center, National Biomedical Center for Advanced Electron Spin Resonance Technology 2026-02-10 09:54:31 1
BUSM Mass Spectrometry Resource
 
Resource Report
Resource Website
BUSM Mass Spectrometry Resource (RRID:SCR_000823) Mass Spectrometry Resource biomedical technology research center, training resource Biomedical technology research center that conducts high-sensitivity structural determinations and analyses of biological compounds via mass spectrometry. The emphasis is on glycoconjugates, oligosaccharides and proteins. systems biology technology center, mass spectrometry, glycoconjugate, oligosaccharide, protein has parent organization: Boston University School of Medicine; Massachusetts; USA NCRR P41RR010888 nlx_152679 SCR_000823 Mass Spectrometry Resource for Biology and Medicine, Boston University School of Medicine Mass Spectrometry Resource, Boston University Mass Spectrometry Resource for Biology and Medicine 2026-02-10 09:54:24 0
Yeast Resource Center
 
Resource Report
Resource Website
1+ mentions
Yeast Resource Center (RRID:SCR_007942) YRC biomedical technology research center, training resource Biomedical technology research center that (1) exploits the budding yeast Saccharomyces cerevisiae to develop novel technologies for investigating and characterizing protein function and protein structure (2) facilitates research and extension of new technologies through collaboration, and (3) actively disseminates data and technology to the research community. Through collaboration, the YRC freely provides resources and expertise in six core technology areas: Protein Tandem Mass Spectrometry, Protein Sequence-Function Relationships, Quantitative Phenotyping, Protein Structure Prediction and Design, Fluorescence Microscopy, Computational Biology. systems biology technology center, protein function, protein structure, mass spectrometry, protein, structure prediction, fluorescence microscopy, computational biology, sequence, function, phenotyping has parent organization: University of Washington; Seattle; USA NCRR ;
NIGMS P41 GM103533
nif-0000-03650 SCR_007942 YRC 2026-02-10 09:55:44 6
NIH / NCRR Mass Spectrometry Resource Washington University in St. Louis
 
Resource Report
Resource Website
1+ mentions
NIH / NCRR Mass Spectrometry Resource Washington University in St. Louis (RRID:SCR_009009) Mass Spectrometry Resource, WU Mass Spectrometry Resource biomedical technology research center, training resource Biomedical technology research center that develops mass spectrometry-based tools for the study of proteins, lipids and metaboilites. These include biomarker identification, stable isotope mass spectrometry and the analysis of intact proteins. Our goals are: * to conduct basic research in the science of mass spectrometry * to establish collaborative research projects with scientists at WU and at other institutions * to provide a service in mass spectrometry * to educate and train students in mass spectrometry * to disseminate results of our research and descriptions of the subject of mass spectrometry systems biology technology center, mass spectrometry, protein, lipid, metaboilite, biomarker, isotope, analysis has parent organization: Washington University School of Medicine in St. Louis; Missouri; USA NIGMS ;
NCRR 2P41RR00954
nlx_152688 SCR_009009 Mass Spectrometry Resource at Washington University in St. Louis, Washington University Mass Spectrometry Resource 2026-02-10 09:55:54 1
Azure Biosystems c600 Imaging System
 
Resource Report
Resource Website
Azure Biosystems c600 Imaging System (RRID:SCR_027952) AZURE c600 instrument resource Benchtop instrument designed for life science research, specifically for imaging, detecting, and quantifying protein and nucleic acids on gels and blots. It enables multi-channel analysis, including laser infrared (IR) fluorescence, RGB visible fluorescence, and chemiluminescence, allowing for multiplexed Western blots. imaging, detecting, quantifying, protein, nucleic acids, gels, blots is related to: Azure 600 Western Blot Imaging System Model_Number_Azure_c600 SCR_027952 , Azure c600 Imaging System, Azure c600 Western Blot Imaging System 2026-02-10 09:59:27 0
MedScan
 
Resource Report
Resource Website
10+ mentions
MedScan (RRID:SCR_003314) data acquisition software, software application, software resource, data processing software THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 5, 2023. MedScan is a fast and flexible biomedical information extraction technology. It uses dictionaries to identify individual biomedical terms (proteins, cellular processes, small molecules, diseases, etc) referred to in literature articles, and applies advanced natural language processing techniques to detect the relationships within the article and extract these terms and the relationships; the overall process of detection, identification, extraction and assembling, is termed Information Harvesting. Information extracted by MedScan represents the multiple aspects of protein function, including protein modification, cellular localization, protein-protein interactions, gene expression regulation, molecular transport and synthesis, as well as association with diseases, and regulation of various cellular processes. This scope can be broadened by modifying information extraction rules and the dictionaries. Dictionaries can be assembled on any topic or area that is represented in the literature you wish to harvest. High-throughput data generation methodologies like microarray gene expression require new approaches for gathering information for data analysis. For the best results, computational approaches used for high-throughput data analysis require that biological information from the literature be a coherent and integrated part of the analysis software itself. Pathway Studio meets this challenge through its MedScan Technology and underlying ResNet database. All editions of Pathway Studio contain MedScan Technology to harvest information from the literature and to save this information in the Pathway Studio ResNet database ready for data analysis. MedScan is more than a web search engine. Indeed, the output of a Google search can be channeled into MedScan for example. Web searches, like Google, are excellent at finding items as a result of a query. A quick look at the output list usually locates the item for which you are looking. This approach however, is not well suited for information and knowledge gathering. Also, once information is gathered, where do you put it for later computational use? MedScan meets this challenge for the area of biomedical literature and biomedical online information. PubMed meets the needs for a central repository of biomedical literature. Researchers can go to PubMed and search for any topic and articles of interest, much like a web type of search. However, just like a web type of search, PubMed also provides a list of all the hits with a link to the articles. If a single article, or even just a few, are sought, this search approach is useful. Alternatively, MedScan will list all the articles of interest but additionally scans the text for relationships, highlights these relationships in the articles and then lists these relationships and the biological molecules and processes involved in the relationships in separate tables. The tables of relationships can be viewed graphically in Pathway Studio and can be saved into the ResNet database for use in experimental data analysis. expression, function, article, biological, biomedical, cellular, dictionary, disease, information, literature, localization, medline interfaces, modification, molecule, process, protein, regulation, synthesis, technology, term, transport, FASEB list PMID:15033866 THIS RESOURCE IS NO LONGER IN SERVICE nif-0000-21259 http://www.ariadnegenomics.com/products/medscan/reader/ SCR_003314 MedScan 2026-02-11 10:56:41 37
Human Gene and Protein Database (HGPD)
 
Resource Report
Resource Website
1+ mentions
Human Gene and Protein Database (HGPD) (RRID:SCR_002889) data or information resource, database THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 4,2023.The Human Gene and Protein Database presents SDS-PAGE patterns and other informations of human genes and proteins. The HGPD was constructed from full-length cDNAs. For conversion to Gateway entry clones, we first determined an open reading frame (ORF) region in each cDNA meeting the criteria. Those ORF regions were PCR-amplified utilizing selected resource cDNAs as templates. All the details of the construction and utilization of entry clones will be published elsewhere. Amino acid and nucleotide sequences of an ORF for each cDNA and sequence differences of Gateway entry clones from source cDNAs are presented in the GW: Gateway Summary window. Utilizing those clones with a very efficient cell-free protein synthesis system featuring wheat germ, we have produced a large number of human proteins in vitro. Expressed proteins were detected in almost all cases. Proteins in both total and supernatant fractions are shown in the PE: Protein Expression window. In addition, we have also successfully expressed proteins in HeLa cells and determined subcellular localizations of human proteins. These biological data are presented on the frame of cDNA clusters in the Human Gene and Protein Database. To build the basic frame of HGPD, sequences of FLJ full-length cDNAs and others deposited in public databases (Human ESTs, RefSeq, Ensembl, MGC, etc.) are assembled onto the genome sequences (NCBI Build 35 (UCSC hg17)). The majority of analysis data for cDNA sequences in HGPD are shared with the FLJ Human cDNA Database (http://flj.hinv.jp/) constructed as a human cDNA sequence analysis database focusing on mRNA varieties caused by variations in transcription start site (TSS) and splicing. gene, cdna clusters, cdnas, cdna sequences, human, in vitro, mrna varieties, protein, sds-page has parent organization: National Institute of Advanced Industrial Science and Technology PMID:22140100
PMID:19073703
THIS RESOURCE IS NO LONGER IN SERVICE nif-0000-02956 SCR_002889 HGPD 2026-02-11 10:56:40 6
Autophagy Database
 
Resource Report
Resource Website
10+ mentions
Autophagy Database (RRID:SCR_002671) Autophagy DB, AutophagyDB data or information resource, database Database that provides basic, up-to-date information on relevant literature, and a list of autophagy-related proteins and their homologs in eukaryotes. autophagy, protein, homolog, ortholog, bio.tools is listed by: OMICtools
is listed by: bio.tools
is listed by: Debian
has parent organization: University of Tokyo; Tokyo; Japan
Japanese Ministry of Education Culture Sports Science and Technology MEXT PMID:20972215 Free, Available for download, Freely available OMICS_03306, biotools:the_autophagy_database, r3d100012565 https://bio.tools/the_autophagy_database
https://doi.org/10.17616/R3J786
SCR_002671 2026-02-11 10:56:31 17
Jenalib: Jena Library of Biological Macromolecules
 
Resource Report
Resource Website
1+ mentions
Jenalib: Jena Library of Biological Macromolecules (RRID:SCR_003031) JenaLib data or information resource, database Database aimed at disseminating information on three-dimensional biopolymer structures with an emphasis on visualization and analysis. It provides access to all structure entries deposited at the Protein Data Bank (PDB) or at the Nucleic Acid Database (NDB). In addition, basic information on the architecture of biopolymer structures is available. The JenaLib intends to fulfill both scientific and educational needs. Authors who are willing to make available images or coordinates to the scientific community via the Image Library of Biological Macromolecules are requested to contact the author. A PDB/SWISS-PROT cross-reference database combines information from both PDB and SWISS-PROT, thus providing significantly more cross-references than either PDB or SWISS-PROT. The existing brief descriptions of X-ray, NMR and FTIR methods for structure determination are supplemented by information on circular dichroism. protein, nucleic acid, macromolecule, image, structure, rna, dan, carbohydrate, amino acid, nucleotide is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB)
is related to: Nucleic Acid Database
has parent organization: Fritz Lipmann Institute; Jena; Germany
BMBF PMID:11752308
PMID:10592237
PMID:8872391
Free, Freely available nif-0000-03062 https://jenalib.leibniz-fli.de/ SCR_003031 IMB Jena Image Library of Biological Macromolecules, Image library of biological macromolecules, Jena Library of Biological Macromolecules 2026-02-11 10:56:37 1
SuperTarget
 
Resource Report
Resource Website
10+ mentions
SuperTarget (RRID:SCR_002696) SuperTarget data or information resource, database Database for analyzing drug-target interactions, it integrates drug-related information associated with medical indications, adverse drug effects, drug metabolism, pathways and Gene Ontology (GO) terms for target proteins. At present (May 2013), the updated database contains >6000 target proteins, which are annotated with >330 000 relations to 196 000 compounds (including approved drugs); the vast majority of interactions include binding affinities and pointers to the respective literature sources. The user interface provides tools for drug screening and target similarity inclusion. A query interface enables the user to pose complex queries, for example, to find drugs that target a certain pathway, interacting drugs that are metabolized by the same cytochrome P450 or drugs that target proteins within a certain affinity range. drug metabolism, drug, cytochrome p450, ontology, pathway, target, compound, cytochrome, drug target, protein, side effect, protein-protein interaction is listed by: OMICtools
has parent organization: Charite - Universitatsmedizin Berlin; Berlin; Germany
BMBF MedSys 0315450A;
DFG RTG Computational Systems Biology GRK1772;
DFG IRTG Systems Biology of Molecular Networks GRK1360;
European Union SynSys ;
NIGMS GM070064
PMID:22067455
PMID:17942422
Free, Freely available r3d100012195, nif-0000-00416, OMICS_01591 http://bioinf-tomcat.charite.de/supertarget/
http://bioinformatics.charite.de/supertarget
https://doi.org/10.17616/R3TM0F
SCR_002696 2026-02-11 10:56:32 28
CASBAH
 
Resource Report
Resource Website
1+ mentions
CASBAH (RRID:SCR_002728) CASBAH data or information resource, database Database which contains information pertaining to all currently known caspase substrates. protein, caspase substrate, caspase is listed by: OMICtools
has parent organization: Trinity College Dublin; Dublin; Ireland
PMID:17273173 OMICS_03304 SCR_002728 The CAspase Substrate dataBAse Homepage, The CASBAH, CAspase Substrate dataBAse Homepage 2026-02-11 10:56:38 4
RefSeq
 
Resource Report
Resource Website
10000+ mentions
RefSeq (RRID:SCR_003496) data or information resource, database Collection of curated, non-redundant genomic DNA, transcript RNA, and protein sequences produced by NCBI. Provides a reference for genome annotation, gene identification and characterization, mutation and polymorphism analysis, expression studies, and comparative analyses. Accessed through the Nucleotide and Protein databases. reference sequence, transcript, protein, dna, rna, plasmid, organelle, virus, genome, nucleic acid, ortholog, paralog, haplotype, nucleotide sequence, gene expression, blast, gold standard, bio.tools is listed by: OMICtools
is listed by: re3data.org
is listed by: bio.tools
is listed by: Debian
is related to: BeetleBase
is related to: EcoGene
is related to: INSDC
is related to: HFV Database
is related to: RefSeqGene
is related to: NCBI Protein Database
is related to: RefSeqGene
is related to: UniParc at the EBI
is related to: NCBI Nucleotide
is related to: UniParc
is related to: ProRepeat
is related to: NCBI Virus
is related to: Codon and Codon-Pair Usage Tables
is related to: RefSeq non-redundant proteins
has parent organization: NCBI
PMID:24316578
PMID:24259432
PMID:22121212
PMID:18927115
PMID:17130148
PMID:15608248
Free, Available for download, Freely available SCR_016579, nif-0000-03397, OMICS_01659, biotools:refseq, r3d100011306 ftp://ftp.ncbi.nlm.nih.gov/refseq
https://bio.tools/refseq
https://doi.org/10.17616/R3HP70
SCR_003496 RefSeq, , Reference Sequence Database, Reference Sequence, Reference Sequences, NCBI 2026-02-11 10:56:41 18049
PRINTS
 
Resource Report
Resource Website
100+ mentions
PRINTS (RRID:SCR_003412) PRINTS data or information resource, database Compendium of protein fingerprints. Diagnostic fingerprint database. compedium, protein, fingerprint, diagnostic, database, FASEB list has parent organization: University of Manchester; Manchester; United Kingdom THIS RESOURCE IS NO LONGER IN SERVICE nif-0000-03338 http://130.88.97.239/PRINTS/index.php SCR_003412 2026-02-11 10:56:44 395
NCBI Taxonomy
 
Resource Report
Resource Website
100+ mentions
NCBI Taxonomy (RRID:SCR_003256) NCBI Taxonomy data or information resource, database Database for a curated classification and nomenclature that contains the names of all organisms that are represented in the public sequence databases with at least one nucleotide or protein sequence. Data provided encompasses archaea, bacteria, eukaryota, viroids and viruses. The NCBI taxonomy database is not a primary source for taxonomic or phylogenetic information. Furthermore, the database does not follow a single taxonomic treatise but rather attempts to incorporate phylogenetic and taxonomic knowledge from a variety of sources, including the published literature, web-based databases, and the advice of sequence submitters and outside taxonomy experts. Consequently, the NCBI taxonomy database is not a phylogenetic or taxonomic authority and should not be cited as such. viroid, virus, nucleotide, protein, sequence, phylogeny, taxonomic, taxonomy, nomenclature, cladistics, classification, animal, genetic code, gold standard is used by: NIF Data Federation
is used by: Vertebrate Taxonomy Ontology
is listed by: re3data.org
is related to: Taxonomy
is related to: NEWT
is related to: Phenoscape Knowledgebase
is related to: EBIMed
is related to: GOTaxExplorer
is related to: Whatizit
is related to: Integrated Manually Extracted Annotation
has parent organization: NCBI
is parent organization of: NCBITaxon
PMID:18940862
PMID:18940867
Free, Freely available nif-0000-03179, r3d100010776 http://www.ncbi.nlm.nih.gov/Taxonomy/taxonomyhome.html
https://doi.org/10.17616/R3X039
SCR_003256 NCBI Taxonomy Browser, Taxonomy Browser, Entrez Taxonomy Browser, NCBI Taxonomy Database 2026-02-11 10:56:38 273

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