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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Signal Resource Report Resource Website 500+ mentions |
Signal (RRID:SCR_014276) | data acquisition software, data analysis software, data processing software, software application, software resource | A sweep-based data acquisition and analysis software package. Its uses range from a simple storage oscilloscope to complex applications requiring stimulus generation, data capture, control of external equipment and custom analysis. A built-in script language automates tasks and provides additional tools for custom analyses and applications. Signal includes functions for specific application areas, including dynamic clamp, whole cell and patch clamp electrophysiology, and evoked response including control of magnetic and other stimulus devices. Video tutorials and a demo version of Signal is available on the main page. | sweep based, data acquisition software, data analysis software, | Pay for product | SCR_014276 | SciCrunch Registry | 2026-09-26 02:17:12 | 737 | |||||||||||
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Psykinematix Resource Report Resource Website 10+ mentions |
Psykinematix (RRID:SCR_014830) | data acquisition software, data analysis software, data processing software, software application, software resource, standalone software | Standalone solution dedicated to Visual Psychophysics running on Mac OS X. Psykinematix runs standard psychophysical protocols, presents complex stimuli, collects subject's responses, and analyzes results on the fly. It consists of a unique OpenGL-based software package that does not require any programming skill to create and run complex experiments. | psychophysics, visual psychophysics, standalone, mac, data analysis, data acquisition, experiment | Demo is available, Available for download, License required | SCR_014830 | SciCrunch Registry | 2026-09-26 02:17:16 | 21 | |||||||||||
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Yale School of Medicine Pharmacology Resource Report Resource Website |
Yale School of Medicine Pharmacology (RRID:SCR_010594) | data or information resource, department portal, organization portal, portal | The Department of Pharmacology at Yale University offers integrated and interdisciplinary opportunities for graduate study under the newly organized Program in Biological and Biomedical Sciences (BBS). Students entering the BBS program can take courses, participate in laboratory rotations, and perform thesis research with any of the more than 200 faculty members in the biological sciences at Yale located at the closely situated School of Medicine and Science Hill ends of campus. The faculty and students of the BBS program are organized into moderately-sized, interest-based Tracks to ensure individualized attention and maximize scientific interactions. Prospective students apply to the Track that best matches their interests, although there is complete freedom to work with faculty members in any Track or to switch Tracks after arrival at Yale. | has parent organization: Yale School of Medicine; Connecticut; USA | nlx_47908 | SCR_010594 | SciCrunch Registry | YSM Pharmacology | 2026-09-26 02:17:11 | 0 | ||||||||||
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National Institute on Drug Abuse Center for Genetic Studies Resource Report Resource Website 1+ mentions |
National Institute on Drug Abuse Center for Genetic Studies (RRID:SCR_013061) | NIDA Center for Genetic Studies | data or information resource, data repository, data set, service resource, storage service resource | Site for collection and distribution of clinical data related to genetic analysis of drug abuse phenotypes. Anonymous data on family structure, age, sex, clinical status, and diagnosis, DNA samples and cell line cultures, and data derived from genotyping and other genetic analyses of these clinical data and biomaterials, are distributed to qualified researchers studying genetics of mental disorders and other complex diseases at recognized biomedical research facilities. Phenotypic and Genetic data will be made available to general public on release dates through distribution mechanisms specified on website. | drug abuse, family, family structure, genetic analysis, genetics, addiction, age, biomaterial, cell line, citation, clinical, clinical status, data, diagnosis, dna, genotyping, human, mental disorder, mutation analysis, phenotype, publications, sex, clinical data, genotype, gene, GWAS |
is recommended by: National Library of Medicine is listed by: One Mind Biospecimen Bank Listing is related to: One Mind Biospecimen Bank Listing is related to: NIH Data Sharing Repositories has parent organization: Washington University School of Medicine in St. Louis; Missouri; USA has parent organization: Rutgers University; New Jersey; USA |
NIDA ; NIH Blueprint for Neuroscience Research |
Free, Freely available | nif-0000-00181 | https://zork5.wustl.edu//nida/ | http://zork.wustl.edu/nida/ | SCR_013061 | SciCrunch Registry | National Institute of Drug Abuse (NIDA) Human Genetics Initiative, NIDA Center for Genetic Studies | 2026-09-26 02:17:11 | 7 | ||||
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NIH-CIDI Lung Segmentation Tool Resource Report Resource Website 1+ mentions |
NIH-CIDI Lung Segmentation Tool (RRID:SCR_014150) | data processing software, image analysis software, segmentation software, software application, software resource | A segmentation tool for the segmentation of a lung from CT images. The sofware can be run in two modes: fully automatic and semi-automatic with manual seeding by the user. The software also allows the user to perform basic filtering operations and manual correction to the segmentation. The VTK-based rendering implementation, along with option to view in axial, coronal, and sagittal, provides the user with better visualization of the segmented lung. | segmentation software, lung, ct image, visualization |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: National Institutes of Health |
PMID:25570151 | Open source | SCR_014150 | SciCrunch Registry | CIDI-lung-seg, CIDI Lung Seg | 2026-09-26 02:17:12 | 1 | ||||||||
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Mendelspod Resource Report Resource Website |
Mendelspod (RRID:SCR_009027) | Mendelspod | blog, data or information resource, narrative resource, podcast | A collection of content, including podcasts and blogs, to advance life science research, connecting people and ideas in the life sciences. Mendelspod creates a space for probing conversations and deep insight into the topics and trends which shape the industry''s future and therefore our future as a species. The podcasts are engaging, thoughtful thirty minute shows twice a week on highly relevant topics to those working around the life sciences. Their format enables them to go in depth with scientists who are leaders in their field, or CEOs of high growth companies to explore trends and the latest technologies. At Mendelspod, they offer a front row seat to the revolution going on in biology, putting a human face on some complicated, highly technical topics. Here you can tune in to hear Steve Burrill give his ''state of the industry'' overview, or listen to George Church talk about art and science, or find out how the latest developments in NGS are helping in the war on cancer. The blogs cover the latest trends and products, and can be entertaining. Guest bloggers featured and welcomed. | genomics, personalized medicine, syn bio, biotech, pharma, health, life science, consulting, community building portal |
is used by: NIF Data Federation is used by: Integrated Blogs |
Protected by copyright, For personal, Non-commercial, Use, Or with written permission, Copyright notice must be retained | nlx_153912 | SCR_009027 | SciCrunch Registry | Mendelspod.com | 2026-09-26 02:17:10 | 0 | |||||||
|
SurfStat Resource Report Resource Website 100+ mentions |
SurfStat (RRID:SCR_007081) | SurfStat | data processing software, image analysis software, software application, software resource, software toolkit | A Matlab toolbox for the statistical analysis of univariate and multivariate surface data using linear mixed effects models and random field theory. | afni brik, analyze, linear, matlab, minc, modeling, magnetic resonance, nifti, os independent, regression, statistical operation, pet, random field theory |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: McGill University; Montreal; Canada |
Free | nlx_156000 | http://www.nitrc.org/projects/surfstat | SCR_007081 | SciCrunch Registry | 2026-09-26 02:17:09 | 260 | |||||||
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ICZN Resource Report Resource Website 10+ mentions |
ICZN (RRID:SCR_010241) | data or information resource, international standard specification, narrative resource, organization portal, portal, standard specification | An organization that acts as adviser and arbiter for the zoological community by generating and disseminating information on the correct use of the scientific names of animals. The ICZN is responsible for producing the International Code of Zoological Nomenclature - a set of rules for the naming of animals and the resolution of nomenclatural problems. | nlx_156873 | SCR_010241 | SciCrunch Registry | International Commission on Zoological Nomenclature | 2026-09-26 02:17:10 | 16 | |||||||||||
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University of Missouri Department of Medical Pharmacology and Physiology Resource Report Resource Website 1+ mentions |
University of Missouri Department of Medical Pharmacology and Physiology (RRID:SCR_007518) | data or information resource, department portal, organization portal, portal | The Department of Medical Pharmacology and Physiology has been known for outstanding programs in exercise physiology and cardiovascular physiology. The Department offers both Master of Science (MS) and Doctor of Philosophy (PhD) degree programs that provide students with excellent preparation for a variety of challenging and rewarding careers. The degrees offered are programs in Pharmacology or Physiology. The Medical Pharmacology and Physiology Department and its modern research and teaching facilities are on campus in the School of Medicine. The research laboratories of the faculty have excellent equipment and maintenance support. The award-winning Health Sciences Library, containing a wide variety of current journals and resource books, is located in the School of Medicine. Modern student computer stations are also available. Animal quarters and animal care are under the direction of qualified veterinarians. Other important University facilities include a nuclear reactor for providing short-lived radioisotopes and a campus-wide computer network. The Center for Gender Physiology manages four core facilities that provide animal models, equipment and expertise required to explore gender differences in physiological function. | nif-0000-02217 | http://mpp.missouri.edu/ | SCR_007518 | SciCrunch Registry | Missouri | 2026-09-26 02:17:09 | 9 | ||||||||||
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PLINK/SEQ Resource Report Resource Website 50+ mentions |
PLINK/SEQ (RRID:SCR_013193) | software application, software library, software resource, software toolkit | An open-source C/C++ library for working with human genetic variation data. The specific focus is to provide a platform for analytic tool development for variation data from large-scale resequencing projects, particularly whole-exome and whole-genome studies. However, the library could in principle be applied to other types of genetic studies, including whole-genome association studies of common SNPs. (entry from Genetic Analysis Software) | gene, genetic, genomic, c/c++, r, macos, linux, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian is related to: PLINK has parent organization: Harvard University; Cambridge; United States |
Open unspecified license | nlx_154213, biotools:plink-seq | https://bio.tools/plink-seq | SCR_013193 | SciCrunch Registry | 2026-09-26 02:17:11 | 77 | ||||||||
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University of Kentucky Alzheimer's Disease Center Resource Report Resource Website |
University of Kentucky Alzheimer's Disease Center (RRID:SCR_008767) | UK-ADC | data or information resource, disease-related portal, portal, topical portal | Alzheimer's Disease Center that serves as the focal point for all Alzheimer's disease-related activities at the University of Kentucky and the Commonwealth of Kentucky providing an environment and core resources that catalyze innovative research, outreach, education, and clinical programs. Their ADC plans to build on its historic strengths and capitalize on emerging opportunities to provide an infrastructure that supports research designed to translate knowledge into therapeutic strategies for AD. They focus on two interrelated themes: Transitions and Translation. Their overall emphasis is to more effectively bridge the gap between basic research and clinical studies by facilitating translational efforts. They also carefully characterize transitions across the spectrum of cognitive impairment (normal/ preclinical AD/ MCI/ dementia), with focus on definition of early disease, and continue to support neuropathology as the bedrock of our center. The Alzheimer Disease Center's 2006-2011 grant award from the National Institute on Aging consists of five cores: * Administrative Core * Clinical Core * Biostatistics and Data Management Core * Neuropathology Core * Education & Information Transfer Core | late adult human, brain, memory, clinic, alzheimer |
has parent organization: Sanders Brown Center on Aging has parent organization: University of Kentucky; Kentucky; USA is parent organization of: University of Kentucky's Alzheimer's Disease Center |
Cognitive impairment, Alzheimer's disease, Aging, Mild cognitive impairment, Dementia | NIA | nlx_144058 | http://www.mc.uky.edu/coa/clinicalcore/ADC%20home%20page.html | SCR_008767 | SciCrunch Registry | UK Alzheimer's Disease Center, University of Kentucky Alzheimer's Disease Center, Alzheimer's Disease Center at the University of Kentucky | 2026-09-26 02:17:10 | 0 | |||||
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Computational Neurobiology and Imaging Center Resource Report Resource Website 1+ mentions |
Computational Neurobiology and Imaging Center (RRID:SCR_013317) | CNIC | data or information resource, data set, portal, software resource, topical portal | Center to advance research and training in mathematical, computational and modern imaging approaches to understanding the brain and its functions. Software tools and associated reconstruction data produced in the center are available. Researchers study the relationships between neural function and structure at levels ranging from the molecular and cellular, through network organization of the brain. This involves the development of new computational and analytic tools for imaging and visualization of 3-D neural morphology, from the gross topologic characteristics of the dendritic arbor to the fine structure of spines and their synapses. Numerical simulations of neural mechanisms based on these structural data are compared with in-vivo and in-vitro electrophysiological recordings. The group also develops new theoretical and analytic approaches to exploring the function of neural models of working memory. The goal of this analytic work is to combine biophysically realistic models and simulations with reduced mathematical models that capture essential dynamical behaviors while reproducing the functionally important features of experimental data. Research areas include: Imaging Studies, Volume Integration, Visualization Techniques, Medial Axis Extraction, Spine Detection and Classification, Applications of Rayburst, Analysis of Spatially Complex Structures, Computational Modeling, Mathematical and Analytic Studies | brain, confocal, in-vitro, in-vivo, microscopy, morphology, morphometric, multi-photon, neural, neural function, neuron, simulation, stack, structure, synapse, topologic, variable, vessel, visualization, image, neuroscience, neurobiology, reconstruction, modeling, spatial, rayburst, spine, arbor, visual, tiling, imaging |
lists: NeuronStudio lists: Rayburst Open-Source Code lists: Volume Integration and Alignment System lists: Volume Integration and Alignment System Source Code lists: Polygonized Viewer lists: NeuroGL lists: TIFF Stack Sub-Sampler is related to: NeuroMorpho.Org is related to: Rayburst Open-Source Code is related to: Polygonized Viewer is related to: NeuroGL is related to: TIFF Stack Sub-Sampler is related to: NeuronStudio is related to: Volume Integration and Alignment System is related to: Volume Integration and Alignment System Source Code has parent organization: Icahn School of Medicine at Mount Sinai; New York; USA |
Aging | Howard Hughes Medical Institute ; NIDCD ; NIA ; NIMH |
nif-0000-10200 | http://www.mssm.edu/cnic/ | SCR_013317 | SciCrunch Registry | 2026-09-26 02:17:11 | 7 | ||||||
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MUSCLE Resource Report Resource Website 10000+ mentions |
MUSCLE (RRID:SCR_011812) | MUSCLE | alignment software, analysis service resource, data analysis service, data analysis software, data processing software, image analysis software, production service resource, service resource, software application, software resource | Multiple sequence alignment method with reduced time and space complexity.Multiple sequence alignment with high accuracy and high throughput. Data analysis service for multiple sequence comparison by log- expectation. | bio.tools |
is used by: TranslatorX is listed by: OMICtools is listed by: bio.tools is listed by: Debian is listed by: SoftCite is related to: PREFAB has parent organization: European Bioinformatics Institute |
PMID:15034147 PMID:15318951 DOI:10.1093/nar/gkh340 |
biotools:muscle, OMICS_00982 | https://bio.tools/muscle, http://www.drive5.com/muscle/, https://www.drive5.com/muscle/manual/, https://www.drive5, http://bioconductor.org/packages/release/bioc/html/muscle.html.com/muscle/manual/install.html, https://sources.debian.org/src/muscle/ | SCR_011812 | SciCrunch Registry | MUltiple Sequence Comparison by Log- Expectation | 2026-09-26 02:17:11 | 17169 | ||||||
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MoTrak Head Motion Tracking System Resource Report Resource Website 1+ mentions |
MoTrak Head Motion Tracking System (RRID:SCR_009607) | MoTrak | resource, software resource | Designed for use in an MRI simulator, MoTrak software uses Ascension Technology?s Flock of Birds. The sensor attaches to the subject?s head and determines the position of the head in space relative to the transmitter. The sensor records angular rotations as well as positional displacements from an initially calibrated position. This information is displayed and logged by the program in real-time, allowing observation of head motion in an MRI simulator. In the simulator, the participant can simultaneously be habituated to the MRI environment, while being trained to remain still via feedback from the MoTrak system. | experiment control, hardware, microsoft, magnetic resonance, training, win32 (ms windows), windows, windows vista, windows xp, instrument, equipment | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | nlx_155815 | http://www.nitrc.org/projects/motrak | SCR_009607 | SciCrunch Registry | MoTrak - Head Motion Tracking System | 2026-09-26 02:17:13 | 3 | |||||||
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Families of SMA Resource Report Resource Website 1+ mentions |
Families of SMA (RRID:SCR_010618) | FSMA | data or information resource, disease-related portal, funding resource, portal, topical portal | Families of Spinal Muscular Atrophy is dedicated to creating a treatment and cure by: - Funding and advancing a comprehensive research program; - Supporting SMA families through networking, information and services; - Improving care for all SMA patients; - Educating health professionals and the public about SMA; - Enlisting government support for SMA; - Embracing all touched by SMA in a caring community. Our vision is a world where Spinal Muscular Atrophy is treatable and curable. | spinal muscular atrophy | nlx_55141 | SCR_010618 | SciCrunch Registry | Families of Spinal Muscular Atrophy | 2026-09-26 02:17:14 | 5 | |||||||||
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EVidenceModeler Resource Report Resource Website 1000+ mentions |
EVidenceModeler (RRID:SCR_014659) | EVM | data analysis software, data processing software, sequence analysis software, software application, software resource | Software tool for automated eukaryotic gene structure annotation that reports eukaryotic gene structures as weighted consensus of all available evidence. Used to combine ab intio gene predictions and protein and transcript alignments into weighted consensus gene structures. Inputs include genome sequence, gene predictions, and alignment data (in GFF3 format). | sequence analysis software, framework, ab intio gene, gene prediction, protein alignment, transcript alignment, consensus gene structure | NIAID N01 AI30071; NLM R01 LM006845 |
PMID:18190707 | Free, Available for download, Freely available | SCR_017649 | SCR_014659 | SciCrunch Registry | 2026-09-26 02:17:12 | 1283 | |||||||
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CERMINE Resource Report Resource Website 1+ mentions |
CERMINE (RRID:SCR_008993) | CERMINE | analysis service resource, data analysis service, production service resource, service resource, software application, software library, software resource, software toolkit, text extraction software | Java library and a web service for extracting metadata and content from scientific articles in born-digital form. The system analyses the entire content of a PDF file containing a publication and attempts to extract information such as: the title of the article, journal information (title, etc.), bibliographic information (volume, issue, page numbers, etc.), authors and affiliations, keywords, abstract, bibliographic references and structured sections hierarchy. | java library, java, metadata extraction, page segmentation, content classification, bibliographic reference parsing, parse, extraction system, pdf |
is used by: Paperity is listed by: FORCE11 has parent organization: University of Warsaw; Warsaw; Poland |
National Centre for Research and Development Poland SP/I/1/77065/10 | GNU Affero General Public License, v3 | nlx_152512 | SCR_008993 | SciCrunch Registry | CERMINE - Content ExtRactor and MINEr, Content ExtRactor and MINEr | 2026-09-26 02:17:13 | 5 | ||||||
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PASA Resource Report Resource Website 1000+ mentions |
PASA (RRID:SCR_014656) | data analysis software, data processing software, sequence analysis software, software application, software resource | Gene structure annotation and analysis tool that uses spliced alignments of expressed transcript sequences to automatically model gene structures. It also incorporates gene structures based on transcript alignments into existing gene structure annotations. It is one component of a larger eukayotic annotation pipeline implemented at the Broad Institute. | gene structure, annotation, gene structure analysis tool, spliced alignment, transcript sequence, bio.tools |
is used by: BRO_annotation is listed by: Debian is listed by: bio.tools |
DOI:10.1093/nar/gkg770 | Available for download | biotools:PASA | https://bio.tools/PASA | SCR_014656 | SciCrunch Registry | Program to Assemble Spliced Alignments (PASA), Program to Assemble Spliced Alignments | 2026-09-26 02:17:16 | 1123 | ||||||
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UC Davis Genome Center Labs and Facilities Resource Report Resource Website 1+ mentions |
UC Davis Genome Center Labs and Facilities (RRID:SCR_012480) | UCD Genome Center Labs & Facilities, UCD Genome Center Labs and Facilities | access service resource, core facility, data or information resource, organization portal, portal, service resource, training service resource | Genome Center uses technologies to understand how heritable genetic information of diverse organisms functions in health and disease. Provides research facilities, service cores, and staff for genomics research and training. Core facilities for Bioinformatics,DNA Technologies and Expression Analysis, Metabolomics, Proteomics,TILLING Core,Yeast One Hybrid Services Core. | Heritable, genetic, information, diverse, organism, function, health, disease, core, facility, service, genomic, training, |
is listed by: ScienceExchange is related to: University of California at Davis Genome Center Proteomics Core Facility has parent organization: University of California at Davis; California; USA |
SciEx_227, SCR_012659, SciEx_756 | https://genomecenter.ucdavis.edu/ | http://www.scienceexchange.com/facilities/uc-davis-genome-center-uc-davis | SCR_012480 | SciCrunch Registry | University of California Davis Genome Center Labs and Facilities, UC Davis Genome Center Labs & Facilities, University of California Davis Genome Center Labs & Facilities | 2026-09-26 02:17:14 | 3 | ||||||
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University of North Carolina at Chapel Hill Labs and Facilities Resource Report Resource Website |
University of North Carolina at Chapel Hill Labs and Facilities (RRID:SCR_012447) | UNC Labs and Facilities, UNC Labs & Facilities | access service resource, core facility, service resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 16,2024. Portal, Core facility. |
is listed by: ScienceExchange is related to: University of North Carolina at Chapel Hill Nutrition and Obesity Research Center Diet and Physical Activity Core has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA |
THIS RESOURCE IS NO LONGER IN SERVICE | SciEx_1400 | SCR_012447 | SciCrunch Registry | University of North Carolina at Chapel Hill Labs & Facilities | 2026-09-26 02:17:11 | 0 |
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