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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
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Nonhuman Primate Transplantation Tolerance Cooperative Study Group Resource Report Resource Website |
Nonhuman Primate Transplantation Tolerance Cooperative Study Group (RRID:SCR_006847) | NHPCSG | data or information resource, disease-related portal, portal, research forum portal, resource, topical portal | Cooperative program for research on nonhuman primate models of kidney, islet, heart, and lung transplantation evaluating the safety and efficacy of existing and new treatment regimens that promote the immune system''''s acceptance of a transplant and to understand why the immune system either rejects or does not reject a transplant. This program bridges the critical gap between small-animal research and human clinical trials. The program supports research into the immunological mechanisms of tolerance induction and development of surrogate markers for the induction, maintenance, and loss of tolerance. | transplantation, clinical, kidney, islet, tolerance, heart, lung, treatment, immune system, tolerance induction | is related to: NIDDK Information Network (dkNET) | Kidney transplantation, Islet transplantation, Heart transplantation, Lung transplantation | NIDDK ; NIAID |
nlx_152728 | http://www.niddk.nih.gov/fund/diabetesspecialfunds/consortia/NHP.pdf | SCR_006847 | SciCrunch Registry | Non-human Primate Transplantation Tolerance Cooperative Study Group | 2026-10-24 12:45:50 | 0 | |||||
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NIH Pain Consortium Resource Report Resource Website 1+ mentions |
NIH Pain Consortium (RRID:SCR_006767) | NIH Pain Consortium | data or information resource, portal, topical portal | The NIH Pain Consortium was established to enhance pain research and promote collaboration among researchers across the many NIH Institutes and Centers that have programs and activities addressing pain. To this end, the following goals have been identified for the Pain Consortium: * To develop a comprehensive and forward-thinking pain research agenda for the NIH - one that builds on what we have learned from our past efforts. * To identify key opportunities in pain research, particularly those that provide for multidisciplinary and trans-NIH participation. * To increase visibility for pain research - both within the NIH intramural and extramural communities, as well as outside the NIH. The latter audiences include our various pain advocacy and patient groups who have expressed their interests through scientific and legislative channels. * To pursue the pain research agenda through Public-Private partnerships, wherever applicable. This underscores a key dynamic that has been reinforced and encouraged through the Roadmap process. | pain, clinical trial, research | has parent organization: National Institutes of Health | nif-0000-00400 | SCR_006767 | SciCrunch Registry | Pain Consortium, PainConsortium | 2026-10-24 12:45:49 | 6 | ||||||||
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InParanoid: Eukaryotic Ortholog Groups Resource Report Resource Website 100+ mentions |
InParanoid: Eukaryotic Ortholog Groups (RRID:SCR_006801) | InParanoid | analysis service resource, data analysis service, data or information resource, database, production service resource, service resource | Collection of pairwise comparisons between 100 whole genomes generated by a fully automatic method for finding orthologs and in-paralogs between TWO species. Ortholog clusters in the InParanoid are seeded with a two-way best pairwise match, after which an algorithm for adding in-paralogs is applied. The method bypasses multiple alignments and phylogenetic trees, which can be slow and error-prone steps in classical ortholog detection. Still, it robustly detects complex orthologous relationships and assigns confidence values for in-paralogs. The original data sets can be downloaded. | protein, ortholog, genome, drosophila pseudoobscura, duplication, entamoeba histolytica, escherichia colik12, eukaryotic, gasterosteus aculeatus, gene, aedes aegypti, apis mellifera, bos taurus, caenorhabditis remanei, candida glabrata, canis familiaris, ciona intestinalis, cryptococcus neoformans, debaromyces hansenii, dictyostelium discoideum, genomic, homolog, inparalog, kluyveromyces lactis, macaca mulatta, monodelphis domestica, orthology, oryza sativa, outparalog, proteome, tetraodon nigroviridis, xenopus tropicalis, blast, proteome, ortholog cluster, cluster, in-paralog, paralog, automatic clustering, genome comparison, FASEB list | has parent organization: Stockholm University; Stockholm; Sweden | Swedish Research Council ; Karolinska Institutet; Stockholm; Sweden ; Pfizer Corporation |
PMID:19892828 PMID:18055500 PMID:15608241 PMID:11743721 |
Acknowledgement requested | nif-0000-03024 | http://www.cgb.ki.se/inparanoid/ | SCR_006801 | SciCrunch Registry | Inparanoid eukaryotic ortholog database | 2026-10-24 12:45:52 | 189 | ||||
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NeuroNetwork Resource Report Resource Website 1+ mentions |
NeuroNetwork (RRID:SCR_006761) | NeuroNetwork | blog, community building portal, data or information resource, job resource, narrative resource, portal, video resource | Professional networking site dedicated to those working, studying, or simply interested in the science of the brain. Those with personal and professional interests in neuroscience, neurology, psychology, and all related areas -- those studying neural activities in invertebrates up to the human brain, including brain-like systems and networks are welcome. The NeuroNetwork was built to allow students and researchers to find and interact with each other in a professional environment. You may create searchable profiles with your research interests; start a blog; upload poster presentations and videos; post and search job listings; form a virtual group based on your interests, geographical location, etc.; and view, post, and RSVP to upcoming meetings. And don''t just create a profile for yourself -- create one for your organization, institute, society, or even your lab as well. | brain, neuroscience, neurology, psychology, image, poster, event, meeting | nlx_144302 | SCR_006761 | SciCrunch Registry | The NeuroNetwork, NeuroNetwork - a professional network dedicated to the study of the brain | 2026-10-24 12:45:51 | 1 | |||||||||
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geNORM Resource Report Resource Website 5000+ mentions |
geNORM (RRID:SCR_006763) | GENORM | data analysis software, data processing software, software application, software resource | Software to determine most stable reference (housekeeping) genes from set of tested candidate reference genes in given sample panel. From this, gene expression normalization factor can be calculated for each sample based geometric mean of user-defined number of reference genes. | reference gene, quantitative real time pcr |
is used by: RefFinder is listed by: OMICtools is listed by: SoftCite is related to: qBasePLUS has parent organization: Ghent University; Ghent; Belgium |
PMID:19131113 PMID:12519963 |
nlx_156922, OMICS_02316 | http://medgen.ugent.be/~jvdesomp/genorm/ | SCR_006763 | SciCrunch Registry | 2026-10-24 12:45:49 | 5414 | |||||||
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Invertebrate Brain Platform Resource Report Resource Website |
Invertebrate Brain Platform (RRID:SCR_006764) | IVB-PF, IVBPF | data or information resource, database, image collection, narrative resource, software resource, training material | Database of information on nervous systems and behavior of various species of invertebrates and a large body of ancillary material to promote the use of invertebrate systems in research and education and facilitate information transfer to engineers that are looking for mechanisms that may be useful to solve a wide range of technological problems. The database is linked to explanations of the contents to allow users to familiarize themselves with the data and the context in which they were obtained. The platform has four entrance points tailored to different target user groups. The first entrance point is designed for users that are interested in using invertebrates for research purposes, in particular in the field of neuroscience, to assist them in initiating research projects. This includes databases of sensory systems, brains, and behavior of invertebrates, especially insects. The databases contain sensory organ structure and function, photographs and movies documenting insect behavior, data acquisition equipment and other instrumentation, software, material for eduction, and bibliography. A second entrance point is available for those that are concerned with implementations of design principles of invertebrate nervous systems and behavior in industrial applications. The third portal is destined for providing quick access for instructors that intend to use invertebrates for educational purposes and the remaining entrance point facilitates obtaining general comparative information on sensory and central nervous systems and behavior of invertebrates. | brain, invertebrate, nervous system, neuron, sensory system, brain, behavior, comparative physiology, elementary, junior high, high school, insect, neurorehabilitation, k-12, video | has parent organization: INCF Japan Node | OED | nif-0000-10269 | SCR_006764 | SciCrunch Registry | IVB PF, Invertebrate Brain Platform (IVB-PF) | 2026-10-24 12:45:49 | 0 | |||||||
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ArtificialFastqGenerator Resource Report Resource Website 10+ mentions |
ArtificialFastqGenerator (RRID:SCR_006880) | ArtificialFastqGenerator | software resource | Software to evaluate and improve the accuracy of sequencing error under different experimental conditions. It can identify which components of a system may be suboptimal and which regions of the genome may be problematic. | matlab, java, Next Generation Sequencing, aligns reads, reference genome |
is listed by: OMICtools is listed by: Debian |
PMID:23152858 | GNU GPL v3 | OMICS_00248, SCR_015979 | https://sources.debian.org/src/artfastqgenerator/ | SCR_006880 | SciCrunch Registry | Artfastqgenerator - Ouputs artificial FASTQ files derived from a reference genome | 2026-10-24 12:45:50 | 10 | |||||
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BarraCUDA Resource Report Resource Website 1+ mentions |
BarraCUDA (RRID:SCR_006881) | BarraCUDA | software resource | A sequence mapping software that utilizes the massive parallelism of graphics processing units to accelerate the inexact alignment of short sequence reads to a particular location on a reference genome. It can align a paired-end library containing 14 million pairs of 76bp reads to the Human genome in about 27 minutes (from fastq files to SAM alignment) using a ��380 NVIDIA Geforce GTX 680*. The alignment throughput can be boosted further by using multiple GPUs (up to 8) at the same time. Being based on BWA (http://bio-bwa.sf.net) from the Sanger Institute, BarraCUDA delivers a high level of alignment fidelity and is comparable to other mainstream alignment programs. It can perform gapped alignment with gap extensions, in order to minimise the number of false variant calls in re-sequencing studies. | gpu/cuda, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: University of Cambridge; Cambridge; United Kingdom has parent organization: SourceForge |
PMID:22244497 PMID:19451168 |
Acknowledgement requested | OMICS_00650, biotools:barracuda | https://bio.tools/barracuda | SCR_006881 | SciCrunch Registry | 2026-10-24 12:45:53 | 5 | ||||||
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neuroade Resource Report Resource Website |
neuroade (RRID:SCR_006758) | neuroade | data or information resource, laboratory portal, organization portal, portal | At neuroade, a Cognitive Neuroscience Laboratory, we study change in brain and behavior across multiple time-scales. Researchers in the lab combine a variety of methodologies to answer specific questions about typical and atypical behavior and development. We use functional magnetic resonance imaging (fMRI), peripheral psychophysiology (such as skin conductance responses), behavioral testing, genotyping analysis, and computational modeling. Most of our work takes place at the Centre for Integrative Neuroscience and Neurodynamics (CINN), and we all live in the Department of Psychology at the University of Reading. Our research is divided into several distinct yet highly interlinked themes, all converging in their application to understanding psychopathology -- summarised here in no particular order: * Decision-making and the Evaluation of Decision Outcomes * Dimensions of Impulsivity as a Foraging Strategy * Adolescent Development * Computational Modeling Probes of Individual Differences | cognitive neuroscience, adaptation, development, brain, behavior, human | has parent organization: University of Reading; Reading; United Kingdom | nlx_144568 | http://neuroade.anastasiachristakou.org/ | SCR_006758 | SciCrunch Registry | neuroade - A Cognitive Neuroscience Laboratory | 2026-10-24 12:45:49 | 0 | |||||||
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Diabetes in America Resource Report Resource Website |
Diabetes in America (RRID:SCR_006754) | Diabetes in America | book, data or information resource, narrative resource, resource | A compilation and assessment of epidemiologic, public health, and clinical data on diabetes and its complications in the United States. Published by the National Diabetes Data Group of the National Institute of Diabetes and Digestive and Kidney Diseases, the book contains 36 chapters organized in five areas: * the descriptive epidemiology of diabetes in the United States based on national surveys and community-based studies, including prevalence, incidence, sociodemographic and metabolic characteristics, risk factors for developing diabetes, and mortality * the myriad complications that affect patients with diabetes * characteristics of therapy and medical care for diabetes * economic aspects, including health insurance and health care costs * diabetes in special populations, including African Americans, Hispanics, Asian and Pacific Islanders, Native Americans, and pregnant women. Diabetes in America, 2nd Edition, has been designed to serve as a reliable scientific resource for assessing the scope and impact of diabetes and its complications, determining health policy and priorities in diabetes, and identifying areas of need in research. The intended audience includes health policy makers at the local and Federal levels who need a sound quantitative base of knowledge to use in decision making; clinicians who need to know the probability that their patients will develop diabetes and the prognosis of the disease for complications and premature mortality; persons with diabetes and their families who need sound information on which to make decisions about their life with diabetes; and the research community which needs to identify areas where important scientific knowledge is lacking. | epidemiology, prevalence, incidence, sociodemographic, metabolic, risk factor, mortality, complication, therapy, medical care, economic, health insurance, health care cost, african american, hispanic, asian, pacific islander, native american, pregnant, clinical, pdf, medical care |
is related to: NIDDK Information Network (dkNET) has parent organization: National Diabetes Information Clearinghouse |
Diabetes | NIDDK | Public, Not copyrighted. The Clearinghouse encourages users of this publication to duplicate and distribute as many copies as desired. | nlx_152695 | SCR_006754 | SciCrunch Registry | Diabetes in America 2nd Edition | 2026-10-24 12:45:49 | 0 | |||||
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AIDS.gov Podcast Resource Report Resource Website |
AIDS.gov Podcast (RRID:SCR_006750) | AIDS.gov Podcast | data or information resource, narrative resource, podcast | Podcasts from AIDS.gov, featuring information from the Federal government about HIV/AIDS prevention, testing, research, treatment, and using new media in response to HIV/AIDS. Categories include: Basic HIV information, New Media, Federal Programs and Policies, HIV/AIDS Awareness Days, and Real Stories. | aids, human, human immunodeficiency virus | has parent organization: AIDS.gov | nlx_144416 | SCR_006750 | SciCrunch Registry | 2026-10-24 12:45:51 | 0 | |||||||||
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EDASeq Resource Report Resource Website 100+ mentions |
EDASeq (RRID:SCR_006751) | EDASeq | software resource | Software for numerical and graphical summaries of RNA-Seq read data. Within-lane normalization procedures to adjust for GC-content effect (or other gene-level effects) on read counts: loess robust local regression, global-scaling, and full-quantile normalization (Risso et al., 2011). Between-lane normalization procedures to adjust for distributional differences between lanes (e.g., sequencing depth): global-scaling and full-quantile normalization (Bullard et al., 2010)., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | data analysis, normalization, rna-seq |
is listed by: OMICtools has parent organization: Bioconductor has parent organization: National Cancer Institute |
THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01231 | SCR_006751 | SciCrunch Registry | EDASeq: Exploratory Data Analysis and Normalization for RNA-Seq data | 2026-10-24 12:45:48 | 255 | |||||||
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POLGUI - Matlab Polhemus Interface Resource Report Resource Website 1+ mentions |
POLGUI - Matlab Polhemus Interface (RRID:SCR_006752) | POLGUI | software resource | An interface between MATLAB and the Polhemus Fastrak digitizer used to digitize fiducial locations and scalp EEG electrode locations. There are 5 versions all of which work under MATLAB R14 (on both linux and windows platforms), # polgui_ver1_r14 : works with 1 receiver (stylus pen) # polgui_ver2_r14 : works with 2 receivers (including the pen) # polgui_ver3_r14 : works with 3 receivers(including the pen) # polgui_ver4_r14 : works with 4 receivers (including the pen) # polgui_ver5_r14 : Generic version which works with 1/2/3/4 receivers (WARNING: Ver 5 might be buggy; not fully tested) Requirements: MATLAB R14 (Linux/Windows) | eeg, meg, electrocorticography, linux, matlab, microsoft, magnetic resonance, posix/unix-like, win32 (ms windows), windows |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: SourceForge |
BSD License | nlx_155915 | http://www.nitrc.org/projects/polgui | SCR_006752 | SciCrunch Registry | POLGUI - Matlab GUI for Polhemus Fastrak | 2026-10-24 12:45:49 | 5 | ||||||
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Genomes Unzipped Resource Report Resource Website |
Genomes Unzipped (RRID:SCR_006870) | Genomes Unzipped | blog, data or information resource, data set, narrative resource, software resource, source code | A group blog providing expert, independent commentary on the personal genomics industry. The goal of the project is to provide genetic testing consumers with independent and informed analysis of developments in the field of genetics and the genetic testing industry. Members of Genomes Unzipped include active researchers in various fields of genetics, as well as specialists in the legal and public health issues surrounding new genomic technologies. Many of us have also been extensively involved in public communication about genetics. Members of the group have had their DNA tested with a variety of products. We have released all of these genetic data openly to the public, both as raw data and in a custom genome browser. As the project proceeds we plan to obtain more genetic tests ����?? up to and including whole genome sequencing ����?? and to continue to release these data to the world. The group is also performing analyses of our own raw genetic data to illustrate fundamental concepts in genetics, using software written both by group members and other collaborators; and we����??ll be releasing the code for that software in our new code repository. As the project expands, we����??ll be looking to add data from other volunteers to the project, as well as to collaborate with other ����??genome hackers����?? on the development of new tools for exploring genetic data. | genomics, genetics, dna, sequencing |
is used by: NIF Data Federation is used by: Integrated Blogs is listed by: OMICtools |
Except where otherwise specified, Creative Commons Attribution-ShareAlike License, v3 Unported, Genomes Unzipped project genetic data, Is made available under, CC0 | OMICS_01831, nlx_144200 | SCR_006870 | SciCrunch Registry | 2026-10-24 12:45:50 | 0 | ||||||||
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PhysioToolkit Resource Report Resource Website 1+ mentions |
PhysioToolkit (RRID:SCR_006868) | PhysioToolkit | data analysis software, data processing software, signal processing software, software application, software repository, software resource, source code, time-series analysis software | Growing library of software for physiologic signal processing and analysis, detection of physiologically significant events using both classical techniques and novel methods based on statistical physics and nonlinear dynamics, interactive display and characterization of signals, creation of new databases, simulation of physiologic and other signals, quantitative evaluation and comparison of analysis methods, and analysis of nonequilibrium and nonstationary processes. A unifying theme of the research projects that contribute software to PhysioToolkit is the extraction of hidden information from biomedical signals, information that may have diagnostic or prognostic value in medicine, or explanatory or predictive power in basic research. Contributions of software to PhysioToolkit are welcome, http://physionet.org/guidelines.shtml#software-contributions | signal processing, analysis, matlab, wfcb, data visualization, data mining, model, simulation, deidentification, data import, data export | is related to: Physiobank | PMID:10851218 | GNU General Public License, The community can contribute to this resource | nlx_152537 | SCR_006868 | SciCrunch Registry | 2026-10-24 12:45:53 | 5 | |||||||
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Virginia Commonwealth University Medical Center, Center for Molecular Imaging Resource Report Resource Website |
Virginia Commonwealth University Medical Center, Center for Molecular Imaging (RRID:SCR_006869) | data or information resource, degree granting program, job resource, medical school program resource, organization portal, portal, training resource | The Center for Molecular Imaging integrates molecular imaging and molecular medicine with systems biology approaches to understand disease complexity, promising to provide predictive, preventative and personalized medicine that will transform health care. The multi-modality molecular imaging program is composed of individual but overlapping research themes with specific projects under each theme. As all projects are underpinned by methodology development in the chemistry, biology, physics and bioengineering of imaging, there is always a strong overlap and cross feed in terms of methods and assays. The research themes include: * Biomarker pharmacodynamic imaging of metabolism, proliferation, cell death and vascular perfusion * Molecular genetic imaging in developing multi-modal reporter gene-based probes * Molecular imaging of angiogenesis and its relation to tumor hypoxia * Multi-modal nanoparticle probes for drug delivery and molecular imaging, including cell and immune-based therapies * Radiolabeled drug pharmacokinetics and studies of drug discovery and structural biology using molecular imaging strategies * Development of nanotechnology molecular imaging systems * Imaging proteomic mass spectrometry * Molecular imaging and molecular pathology diagnostic research The Center for Molecular Imaging fosters collaborative research, bringing together the advances being made in technology-driven research such as bioengineering, chemical genomics and nanotechnology with biomedical research groups studying cell and molecular biology and radiobiology, biologically targeted therapeutics, immuno-based mechanisms, and drug and biomarker discovery. The aim is to develop and validate multi-modality molecular imaging tools that will facilitate the advancement of translational medicine and clinical science research in oncology and neuroscience as well as other clinical research areas. The center is equipped with laboratories for radiochemistry, analytical chemistry, molecular biology, nanotechnology and animal imaging, as well as a dedicated facility for translational clinical imaging. Imaging technologies within the center include Positron Emission Tomography/Computed Tomography (preclinical and clinical), Single Photon Emission Computed Tomography, optical imaging, autoradiography and multi-modality nanotechnology imaging. Molecular probe developments underpin the biological and biomedical research conducted using the above modalities. | analytical chemistry, a ngiogenesis, animal, autoradiography, bioengineering, biology, biomedical, chemical genomics, chemistry, disease, medicine, metabolism, molecular biology, nanotechnology, neuroscience, oncology, optical imaging, pathology, pharmacokinetic, physics, positron emission tomography, proteomic mass spectrometry, radiobiology, radiochemistry, single photon emission computed tomography, translational | nif-0000-10545 | SCR_006869 | SciCrunch Registry | VCU CMI | 2026-10-24 12:45:50 | 0 | ||||||||||
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TWiP - This Week in Parasitism Resource Report Resource Website |
TWiP - This Week in Parasitism (RRID:SCR_006788) | TWiP | data or information resource, narrative resource, podcast | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 4th,2023. This Week in Parasitism (TWiP) is a podcast about eukaryotic parasites hosted by Vincent Racaniello and Dick Despommier. Following in the path of their successful podcast ''This Week in Virology'' (TWiV), they strive for an informal yet informative conversation about parasites which is accessible to everyone, no matter what their science background. As science Professors at Columbia University, they have spent their entire academic careers directing research laboratories focused on parasites (Dick) and viruses (Vincent). Their enthusiasm for teaching inspired them to reach beyond the classroom with new media. TWiP is for everyone who wants to learn about parasites in a relaxing way. Music used on TWiP is composed and performed by Ronald Jenkees and used with permission. | parasite | has parent organization: MicrobeWorld | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_151571 | SCR_006788 | SciCrunch Registry | This Week in Parasitism (TWiP), This Week in Parasitism | 2026-10-24 12:45:49 | 0 | |||||||
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MatOFF Resource Report Resource Website 1+ mentions |
MatOFF (RRID:SCR_006821) | MatOFF | data analysis software, data processing software, software application, software resource, source code | An interactive analysis program that searches neurophysiological data and plots the results. MatOFF was developed especially for dealing with the complexities common to behavioral neurophysiological experiments. It runs under Windows 2000 or XP and relies on MATLAB version R11.1 (or above) for all operations. MatOFF searches a data file to locate and plot epochs (trials) of special interest to the investigator. Appropriate input data files have time-stamped event codes, usually including neuron action potential firing events (spikes), and digitized analog data. The user specifies a list of event code numbers that uniquely identify a sequence of events. MatOFF uses this sequence to search the raw data file, select the epochs that meet the criteria, time-shift the trials to align them on a common event, order the epochs based on user-selected criteria, and plot the results based on a collection of page formatting specifications. MatOFF will also save extracted data and some statistics to disk. Features: * Powerful, interactive searching tools for locating relevant experimental events * Compatible with Cortex data acquisition program * Compatible with Plexon data acquisition system * Flexible, publication-quality graphical display and printing * Comprehensive scripting language * Supports learning and other dynamic behavior * Integrated interface to MATLAB functions * Automatic alignment of trial data and generation of histograms * Large variety of options for selecting and ordering trial data * Descriptive and non-parametric statistics * XY analog displays * Data export with flexible format control * Up to 72 plots per page * Display templates can be saved and reloaded * Free for public or private use * Adaptable to almost any data file format | neurophysiology, behavioral neurophysiology, behavior, electrophysiology, matlab | has parent organization: NIMH CORTEX | NIMH | nlx_143876 | SCR_006821 | SciCrunch Registry | NIMH MatOFF | 2026-10-24 12:45:50 | 3 | |||||||
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BMDExpress Resource Report Resource Website 10+ mentions |
BMDExpress (RRID:SCR_006823) | BMDExpress | data analysis software, data processing software, software application, software resource | Bioinformatics tool used to analyze microarray dose-response data. The analysis provides benchmark dose estimates at which different cellular processes are altered in toxicogenomic experiments. | bioinformatics, microarray, software, toxicogenomics |
is related to: The Hamner Institute for Health Sciences: BMDExpress and The multiple-path particle dosimetry has parent organization: SourceForge |
MIT License | nlx_152743 | SCR_006823 | SciCrunch Registry | 2026-10-24 12:45:50 | 38 | ||||||||
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PeptideAtlas Resource Report Resource Website 500+ mentions |
PeptideAtlas (RRID:SCR_006783) | PeptideAtlas | data or information resource, data repository, database, service resource, storage service resource | Multi-organism, publicly accessible compendium of peptides identified in a large set of tandem mass spectrometry proteomics experiments. Mass spectrometer output files are collected for human, mouse, yeast, and several other organisms, and searched using the latest search engines and protein sequences. All results of sequence and spectral library searching are subsequently processed through the Trans Proteomic Pipeline to derive a probability of correct identification for all results in a uniform manner to insure a high quality database, along with false discovery rates at the whole atlas level. The raw data, search results, and full builds can be downloaded for other uses. All results of sequence searching are processed through PeptideProphet to derive a probability of correct identification for all results in a uniform manner ensuring a high quality database. All peptides are mapped to Ensembl and can be viewed as custom tracks on the Ensembl genome browser. The long term goal of the project is full annotation of eukaryotic genomes through a thorough validation of expressed proteins. The PeptideAtlas provides a method and a framework to accommodate proteome information coming from high-throughput proteomics technologies. The online database administers experimental data in the public domain. You are encouraged to contribute to the database. | proteomics, peptide, mass spectrometry, annotation, eukaryotic, genome, peptide sequence, high-throughput mass spectrometry, ensembl, peptideprophet, protein sequence, blood plasma, protein, eukaryotic cell, dna, bio.tools, FASEB list |
is used by: NIF Data Federation is used by: ProteomeXchange is recommended by: NIDDK Information Network (dkNET) is recommended by: National Library of Medicine is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases is listed by: Biositemaps is listed by: re3data.org is listed by: bio.tools is listed by: Debian is related to: Ensembl is related to: ProteomeXchange is related to: NIH Data Sharing Repositories is related to: Integrated Manually Extracted Annotation has parent organization: Institute for Systems Biology; Washington; USA |
NCI ; NHGRI ; NIGMS |
PMID:20013378 PMID:23215161 PMID:16381952 PMID:15642101 |
Public, The community can contribute to this resource, Acknowledgement requested | nif-0000-03266, r3d100010889, biotools:peptideatlas | https://bio.tools/peptideatlas, https://doi.org/10.17616/R3BK61 | SCR_006783 | SciCrunch Registry | Peptide Atlas, PeptideAtlas | 2026-10-24 12:45:49 | 511 |
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