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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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AnaSpec Resource Report Resource Website 1000+ mentions |
AnaSpec (RRID:SCR_002114) | biomaterial supply resource, material resource | Commercial supplier of antibodies, reagents, and dyes for research. | antibody supply company, reagent producer | Restricted | nlx_152270 | SCR_002114 | AnaSpec Inc, EGT Group | 2026-08-14 09:24:31 | 2089 | |||||||||
|
OpenMEEG Resource Report Resource Website 100+ mentions |
OpenMEEG (RRID:SCR_002510) | OpenMEEG | software application, software resource | A C++ package for low-frequency bio-electromagnetism solving forward problems in the field of EEG and MEG with very high accuracy. | algorithm, c++, eeg, meg, electrocorticography, eeg modeling, forward - inverse, macos, meg modeling, microsoft, modeling, posix/unix-like, windows, bioelectromagnetic |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: Debian is related to: Brainstorm has parent organization: National Institute for Research in Computer Science and Control; Brittany; France |
PMID:20819204 PMID:15638183 |
Free, Available for download, Freely available | nlx_155910 | http://www.nitrc.org/projects/openmeeg, https://sources.debian.org/src/libopenmeeg-dev/ | SCR_002510 | 2026-08-14 09:24:32 | 112 | ||||||
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Computational Morphometry Toolkit Resource Report Resource Website 10+ mentions |
Computational Morphometry Toolkit (RRID:SCR_002234) | CMTK | software toolkit, software application, software resource | A software toolkit for computational morphometry of biomedical images, CMTK comprises a set of command line tools and a back-end general-purpose library for processing and I/O. The command line tools primarily provide the following functionality: registration (affine and nonrigid; single and multi-channel; pairwise and groupwise), image correction (MR bias field estimation; interleaved image artifact correction; EPI unwarping), processing (filters; combination of segmentations via voting and STAPLE; shape-based averaging), statistics (t-tests; general linear model). CMTK is implemented in C++ with parallel processing using POSIX Threads (SMP), OpenMP (SMP), Grand Central Dispatch (SMP), and CUDA (GPU). Supported file formats include Analyze (r/w), NIFTI (r/w), Nrrd (r/w), DICOM (read), BioRad (read). Data exchange with other toolkits, such as ITK, FSL, AFNI, SPM, etc. is thus easily accomplished. | reusable library, analyze, anatomic, artifact removal, atlas application, c, c++, console (text based), cygwin, dicom, domain independent, format conversion, image display, image reconstruction, image-to-image, labeling, linear, linux, macos, microsoft, magnetic resonance, nifti-1, nrrd, posix/unix-like, principal component analysis, region of interest, registration, regression, resampling, segmentation, sh/bash, spatial transformation, statistical operation, sunos/solaris, two dimensional display, unix shell, visualization, warping, win32 (ms windows), windows, workflow |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: Debian has parent organization: neurodebian |
Free, Available for download, Freely available | nlx_155536 | http://www.nitrc.org/projects/cmtk, https://sources.debian.org/src/cmtk/ | SCR_002234 | Computational Morphometry Toolkit (CMTK) | 2026-08-14 09:24:33 | 38 | ||||||
|
STAPLE Resource Report Resource Website 100+ mentions |
STAPLE (RRID:SCR_002590) | STAPLE | software application, software resource | An algorithm for the Simultaneous Truth and Performance Level Estimation, which estimates a reference standard and segmentation generator performance from a set of segmentations. It has been widely applied for the validation of image segmentation algorithms, and to compare the performance of different algorithms and experts. It has also found application in the identification of a consensus segmentation, by combination of the output of a group of segmentation algorithms, and for segmentation by registration and template fusion., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | algorithm, analyze, c++, dicom, gifti, image display, linux, macos, microsoft, magnetic resonance, nifti, nrrd, posix/unix-like, quantification, rendering, segmentation, surface rendering, visualization, win32 (ms windows), windows, standard |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Harvard Medical School; Massachusetts; USA |
PMID:15250643 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_155994 | http://www.nitrc.org/projects/staple | SCR_002590 | Simultaneous Truth and Performance Level Estimation, STAPLE - Simultaneous Truth and Performance Level Estimation | 2026-08-14 09:24:41 | 142 | |||||
|
CLUSTAG Resource Report Resource Website 1+ mentions |
CLUSTAG (RRID:SCR_001816) | CLUSTAG | software application, software resource | Software application that uses hierarchical clustering and graph methods for selecting tag SNPs (single nucleotide polymorphisms). Cluster and set-cover algorithms are developed to obtain a set of tag SNPs that can represent all the known SNPs in a chromosomal region, subject to the constraint that all SNPs must have a squared correlation R2 > C with at least one tag SNP, where C is specified by the user. The program is implemented with Java, and it can run in Windows platform as well as the Unix environment. | gene, genetic, genomic, java, hierarchical clustering, single nucleotide polymorphism, windows, unix |
is listed by: Genetic Analysis Software has parent organization: Hong Kong Baptist University; Hong Kong; China |
PMID:15585525 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154273 | http://hkumath.hku.hk/web/link/CLUSTAG/CLUSTAG.html | SCR_001816 | CLUSTAG: Hierarchical Clustering and Graph Methods for Selecting Tag SNPs | 2026-08-14 09:24:22 | 1 | |||||
|
OpenBioinformatics.org Resource Report Resource Website 10+ mentions |
OpenBioinformatics.org (RRID:SCR_002229) | OpenBioinformatics.org | software repository, software resource | An open bioinformatis software repository with no tie to any organization or institution. Contact them to host your software. | bioinformatics, software |
is related to: PennCNV is parent organization of: ANNOVAR is parent organization of: GenGen |
Free, Available for download, Freely available | nlx_155524 | SCR_002229 | OpenBioinformatics.org: An open bioinformatis software repository | 2026-08-14 09:24:28 | 11 | |||||||
|
SharedCopy Resource Report Resource Website |
SharedCopy (RRID:SCR_002867) | software resource, web application, collaboration resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented on May 12, 2017. Web application for annotation and collaboration on web pages. Its features include the ability to highlight words, comment, and share annotated copies of the web page that can be annotated by other users. | web page annotation, annotation application | Free | nif-0000-02946 | http://sharedcopy.com/ | SCR_002867 | 2026-08-14 09:24:40 | 0 | |||||||||
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Nipype Resource Report Resource Website 500+ mentions |
Nipype (RRID:SCR_002502) | Nipype | software application, software resource | A package for writing fMRI analysis pipelines and interfacing with external analysis packages (SPM, FSL, AFNI). Current neuroimaging software offer users an incredible opportunity to analyze their data in different ways, with different underlying assumptions. However, this has resulted in a heterogeneous collection of specialized applications without transparent interoperability or a uniform operating interface. Nipype, an open-source, community-developed initiative under the umbrella of Nipy, is a Python project that solves these issues by providing a uniform interface to existing neuroimaging software and by facilitating interaction between these packages within a single workflow. Nipype provides an environment that encourages interactive exploration of algorithms from different packages (e.g., SPM, FSL), eases the design of workflows within and between packages, and reduces the learning curve necessary to use different packages. Nipype is creating a collaborative platform for neuroimaging software development in a high-level language and addressing limitations of existing pipeline systems. | magnetic resonance, python, workflow, analysis, pipeline, interface, data processing, neuroimaging |
is used by: Forward: Accurate finite element electromagnetic head models is used by: fMRIPrep is used by: NHP BIDS is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Neuroimaging in Python |
PMID:21897815 | Free, Available for download, Freely available | nlx_155901 | http://www.nitrc.org/projects/nipype | SCR_002502 | Nipype: Neuroimaging in Python Pipeline and Interfaces, NIPY Pipeline and Interfaces | 2026-08-14 09:24:32 | 942 | |||||
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GS-EM Resource Report Resource Website |
GS-EM (RRID:SCR_003992) | GS-EM | software application, software resource | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154366 | SCR_003992 | GenoSpectrum Expectation-Maximuzation | 2026-08-14 09:24:55 | 0 | ||||||||
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EDAR study: biomarkers for Alzheimer's disease Resource Report Resource Website 1+ mentions |
EDAR study: biomarkers for Alzheimer's disease (RRID:SCR_004445) | EDAR | biomaterial supply resource, material resource | A European collaborative study to develop and validate new biomarkers for Alzheimer's disease. Central in the project is the development of an assay for the measurement of beta amyloid oligomers in cerebrospinal fluid and plasma. In order to validate the assay for beta amyloid oligomers, cerebrospinal fluid and plasma will be repeatedly collected in subjects with Alzheimer's disease, other types of dementia, mild cognitive impairment, and control subjects. | portal, biomaterial supply resource, beta amyloid oligomer, alzheimer's disease, dementia, mild cognitive impairment, control subject, cerebral spinal fluid, plasma, serum |
is listed by: One Mind Biospecimen Bank Listing has parent organization: VU University; Amsterdam; Netherlands |
Alzheimer's disease, Dementia, Mild Cognitive Impairment | European Union FP6 | Consortium members | nlx_143737 | SCR_004445 | Early Diagnosis of AD and as marker of treatment response, Early Diagnosis of AD and as marker of treatment response (EDAR study), EDAR study, EDAR study: biomarkers for Alzheimer's disease | 2026-08-14 09:25:04 | 2 | |||||
|
NIH Toolbox 4-Meter Walk Gait Speed Test Resource Report Resource Website |
NIH Toolbox 4-Meter Walk Gait Speed Test (RRID:SCR_003632) | assessment test provider, material resource | Assessment test to measure gait speed where participants are asked to walk a short distance (4 meters) at their usual pace. Participants complete one practice and then two timed trials. Raw scores are recorded as the time in seconds required to walk 4 meters on each of the two trials, with the better trial used for scoring. The 4-Meter Walk Gait Speed Test is adapted from the 4-meter walk test in the Short Physical Performance Battery. The test takes approximately 3 minutes to administer (including instructions and practice). This test is recommended for ages 7-85. | motor, locomotion, gait, speed | has parent organization: NIH Toolbox - Assessment of Neurological and Behavioral Function | nlx_157782 | SCR_003632 | 4-Meter Walk Gait Speed Test | 2026-08-14 09:24:51 | 0 | |||||||||
|
NIH Toolbox 2-Minute Walk Endurance Test Resource Report Resource Website |
NIH Toolbox 2-Minute Walk Endurance Test (RRID:SCR_003631) | assessment test provider, material resource | Assessment test that measures sub-maximal cardiovascular endurance by recording the distance that the participant is able to walk on a 50-foot (out and back) course in 2 minutes. The participant's raw score is the distance in feet and inches walked in 2 minutes. The test is adapted from the American Thoracic Society's 6-Minute Walk Test Protocol. The test overall takes approximately 4 minutes to administer (with instructions and practice). This test is recommended for ages 3-85. | motor, endurance, cardiovascular | has parent organization: NIH Toolbox - Assessment of Neurological and Behavioral Function | nlx_157781 | SCR_003631 | 2-Minute Walk Endurance Test | 2026-08-14 09:24:54 | 0 | |||||||||
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OHSU Biolibrary Resource Report Resource Website |
OHSU Biolibrary (RRID:SCR_004282) | OHSU Biolibrary | biomaterial supply resource, material resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 9, 2023.A Joint Project between Oregon Clinical and Translational Research Institute (OCTRI) and the Knight Cancer Institute, the OHSU Biolibrary provides information on campus collections of biospecimens originating from OHSU patients. The Biolibrary Search Engine is a user-friendly, online search tool that allows OHSU researchers to search for suitable biospecimen samples. As of October 2010, the Biolibrary Search Engine contains data on over 500,000 biospecimens. The Search Engine accesses data from the OHSU Cancer Registry, the Department of Pathology, and the OCTRI Research Data Warehouse. You must be connected to the OHSU network to access the Search Engine. The Search Engine is accessible on Internet Explorer through WTS connection to the OHSU network. | tissue, biospecimen, formalin-fixed paraffin-embedded |
is listed by: One Mind Biospecimen Bank Listing has parent organization: Oregon Health and Science University; Oregon; USA |
THIS RESOURCE IS NO LONGER IN SERVICE | nlx_29846 | http://www.ohsu.edu/xd/research/centers-institutes/octri/current-projects/ohsu-biolibrary.cfm | SCR_004282 | Oregon Health and Science University Biolibrary, OCTRI - OHSU Biolobrary | 2026-08-14 09:25:00 | 0 | ||||||
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HipSci Resource Report Resource Website 100+ mentions |
HipSci (RRID:SCR_003909) | HipSci | biomaterial supply resource, material resource | A UK national induced pluripotent stem (iPS) cell resource that will create and characterize more than 1000 human iPSCs from healthy and diseased tissue for use in cellular genetic studies. Between 2013 and 2016 they aim to generate iPS cells from over 500 healthy individuals and 500 individuals with genetic disease. They will then use these cells to discover how genomic variation impacts on cellular phenotype and identify new disease mechanisms. Strong links with NHS investigators will ensure that studies on the disease-associated cell lines will be linked to extensive clinical information. Further key features of the project are an open access model of data sharing; engagement of the wider clinical genetics community in selecting patient samples; and provision of dedicated laboratory space for collaborative cell phenotyping and differentiation. | stem cell, genomic variation, cellular phenotype, disease mechanism, phenotype, disease, clinical data, clinical, genetics, male, female, cell line, induced pluripotent stem cell |
is listed by: One Mind Biospecimen Bank Listing has parent organization: European Bioinformatics Institute |
Healthy, Genetic disease | Wellcome Trust ; MRC |
Acknowledgement required, Free, Public | nlx_158252 | SCR_003909 | Human Induced Pluripotent Stem Cells Initiative | 2026-08-14 09:24:56 | 131 | |||||
|
NIH Toolbox Standing Balance Test Resource Report Resource Website |
NIH Toolbox Standing Balance Test (RRID:SCR_003628) | assessment test provider, material resource | A measure to assess static standing balance that involves the participant assuming and maintaining up to 5 poses for 50 seconds each. The sequence of poses is: eyes open on a solid surface, eyes closed on solid surface, eyes open on foam surface, eyes closed on foam surface, eyes open in tandem stance. Detailed stopping rules are in place to ensure participant safety with these progressively demanding poses. Postural sway is recorded for each pose using an accelerometer that the participant wears at waist level. This test takes approximately 7 minutes to administer and is recommended for ages 3-85. | motor, balance | has parent organization: NIH Toolbox - Assessment of Neurological and Behavioral Function | nlx_157779 | SCR_003628 | Standing Balance Test | 2026-08-14 09:24:49 | 0 | |||||||||
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NIH Toolbox Oral Reading Recognition Test Resource Report Resource Website |
NIH Toolbox Oral Reading Recognition Test (RRID:SCR_003622) | assessment test provider, material resource | Assessment test that measures the ability of patients to identify words and letters. The participant is asked to read and pronounce letters and words as accurately as possible. The test administrator scores them as right or wrong. For the youngest children, the initial items require them to identify letters (as opposed to symbols) and to identify a specific letter in an array of 4 symbols. The test is given in a computerized adaptive format and requires approximately 3 minutes. This test is recommended for ages 7-85, but is available for use as young as age 3, if requested. Separate but parallel reading tests have been developed in English and in Spanish. | cognition, language | has parent organization: NIH Toolbox - Assessment of Neurological and Behavioral Function | nlx_157774 | SCR_003622 | Oral Reading Recognition Test | 2026-08-14 09:24:51 | 0 | |||||||||
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Vitiligo Biobank Resource Report Resource Website |
Vitiligo Biobank (RRID:SCR_003863) | VBB | biomaterial supply resource, material resource | A non-profit collection of biological samples and detailed associated clinical data, designed to facilitate medical research into vitiligo, a devastating skin disease that is much neglected. They collect, store and analyze biological samples throughout the network of collaborators in 11 countries, using standard collection protocols and unified patient record, which are then made available to the scientific community and research organizations investigating pathogeneses, diagnostics, new treatments, and ultimately a cure for vitiligo. The core asset is a large collection of well-organized hair, blood, serum and DNA samples, integrated with comprehensive and anonymized patient records. | clinical, hair, blood, serum, dna, skin | is listed by: One Mind Biospecimen Bank Listing | Vitiligo | Application required, Cost recovery fee | nlx_158187 | http://vrfoundation.org/research-page/vitiligo-biobank | SCR_003863 | VitiligoBioBank.org | 2026-08-14 09:24:50 | 0 | |||||
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Source BioScience LifeSciences Resource Report Resource Website 50+ mentions |
Source BioScience LifeSciences (RRID:SCR_003344) | RZPD | biomaterial supply resource, material resource | Source BioScience LifeSciences are European leaders in DNA sequencing, genomic services, bioinformatic analyses and offers a comprehensive portfolio of genomic reagents and antibodies. Source BioScience LifeScience is a CPA, GLP/GCP accredited and Illumina NGS CSPro certified genomic service provider and distributes a comprehensive range of biological products to companies and institutions worldwide. Source BioScience is proud to announce that Source BioScience imaGenes has joined it's LifeSciences group. This will enable us to bring our customers one unified website with our complete range of Products, Clones and Services. We have merged our clone libraries together so that can now offer you over 20 million clones! Add to this our excellent sequencing service and our range of over 100,000 antibodies and Source BioScience LifeSciences is your ideal outsourcing partner. | clones, libraries, microarray, dna sequencing, rna interference, next generation sequencing, proteomics | is listed by: One Mind Biospecimen Bank Listing | Free, Freely available | nif-0000-31984 | https://sourcebioscience.com/ | SCR_003344 | imaGenes, Source BioScience imaGenes | 2026-08-14 09:24:47 | 72 | ||||||
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Mount Sinai Allograft Technologies Resource Report Resource Website |
Mount Sinai Allograft Technologies (RRID:SCR_003586) | biomaterial supply resource, material resource | Mount Sinai Allograft Technologies, a department of Mount Sinai Hospital formerly known as the The Rubinoff Bone Bank, has been a leader in advanced tissue innovations since 1972. We are committed to providing the highest quality bone and tissue allograft products as well as continued innovation in the development of allograft implants for transplantation. We are dedicated to meeting all surgical needs and to exceed all client expectations. We work closely with the Trillium Gift of Life Network to promote their mission of increasing donor awareness and to ensure that the wishes of Ontario donor families' are carried out with the utmost care and respect. Our allograft implants are 100% Ontario produced, human allograft tissues. To produce the safest and highest quality Canadian produced allograft implants, Mount Sinai Allograft Technologies leverages the expertise of a variety of medical experts, state-of-the art laboratory testing, proven bio-processing techniques, validated irradiation methods and preferred packaging systems. | is listed by: One Mind Biospecimen Bank Listing | nlx_12054 | SCR_003586 | The Rubinoff Bone Bank, Rubinoff Bone Bank | 2026-08-14 09:24:50 | 0 | ||||||||||
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Bone Bank Allografts Resource Report Resource Website |
Bone Bank Allografts (RRID:SCR_004432) | biomaterial supply resource, material resource | Bone Bank Allografts is the distributor of the SteriGraft line of high quality bone and soft tissue allografts to medical professionals. The company has been in existence for over 13 years and has helped doctors and their patients with over one hundred thousand successful transplantations. Bone and soft tissue allografts in the SteriGraft line are validated to a sterility assurance level (SAL) of 10(-6) in accordance with ISO 11137-2 Method 1. Bone Bank Allografts was founded in 1993 in response to a growing need for allograft tissue in South Texas. Since 1993, Bone Bank Allografts'' distribution network has grown to cover Texas, the country and the globe, fulfilling surgical needs for allograft tissue in more than 175,000 successful transplantations. Located in San Antonio, Texas, Bone Bank Allografts is dedicated to a just, equitable and fair distribution of cadaveric tissue to surgeons, hospitals, surgicenters and dental offices. Over the years, our customers have come to rely on the superior quality of our tissue products as well as the unmatched service of our well trained, certified Tissue Bank Specialists (CTBS) and our knowledgeable distribution staff. With accreditation from the American Association of Tissue Banks (AATB), registration with the U.S. Food and Drug Administration (FDA) and compliance with the FDA''s Good Tissue Practices, Bone Bank Allografts continues to pursue our mission: To enhance the quality of patient care by providing safe, high quality allograft tissues to health care professionals for transplant and research. Most recently, Bone Bank Allografts has taken the next important step in tissue banking by developing a powerful partnership with Texas Human Biologics (THB) in order to process donated human tissue. | bone allograft, soft tissue allograft, bone, soft tissue, allograft, tissue |
is listed by: One Mind Biospecimen Bank Listing works with: Texas Human Biologics |
nlx_43262 | https://www.bonebank.com/certifications/ | SCR_004432 | 2026-08-14 09:25:04 | 0 |
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