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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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iiV (internet image Viewer) Resource Report Resource Website |
iiV (internet image Viewer) (RRID:SCR_013615) | data processing software, data visualization software, software application, software resource | :iiV is an interactive brain imaging data display tool written in Java. It displays 3-D data set as slices perpendicular to the 3 major axis. Individual slice voxels are mapped thru a linear scaling, threshold and color table to displayable pixel values. Any number of slices from any number of data files may be arranged, annotated, overlaid, cropped, zoomed and rotated. iiV maintains the original data internally for mouse selection and display of original voxel values. If input locations map to a real world valued coordinates that mapping may be applied to display selected voxel locations in real coordinates. Slices may also include tracking crosshairs and automatically update to display the same region of the brain as selected in another slice. iiV includes a fairly complete set of editing commands including selection, drag, group, delete, and undo/redo commands. It also includes a script language for saving and reloading of the interactive display and creating animated demos. iiV supports reading ANALYZE, ECAT, ECAT7, DICOM, GIF, JPEG, PPM, Stimulate SDT, and raw data formats and saving what is displayed as scripts, GIF and PPM files. : | has parent organization: University of Minnesota Twin Cities; Minnesota; USA | nif-0000-00312 | SCR_013615 | iiV (internet image Viewer) | 2026-08-14 09:26:47 | 0 | ||||||||||
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NeuroServ Resource Report Resource Website |
NeuroServ (RRID:SCR_013617) | data processing software, software application, data analysis software, software resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented on July 15, 2013. A Java-based tool for managing and sharing MRI/DTI datasets, and related subject and protocol metadata. Data entry, data access, general query, reporting, analysis, and administrative operations occur through browser-based forms. NeuroServ works with a webserver (Tomcat) and a backend database (e.g., Postgres); a schema and over 40 forms are provided in the distribution. Support for DTI includes entry of multi-orientation raw DWI files, semi-automated normalization to the B0 image and quality filtering. Planned extensions include full DTI processing through image production and data sharing using the SSC incremental visiblity model. | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-00334 | SCR_013617 | NeuroServ | 2026-08-14 09:26:58 | 0 | ||||||||||
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ImmuQuest Resource Report Resource Website 10+ mentions |
ImmuQuest (RRID:SCR_013461) | commercial organization, reagent supplier, antibody supplier, material resource | An Antibody supplier | nlx_152390 | SCR_013461 | ImmuQuest Ltd. | 2026-08-14 09:26:40 | 30 | |||||||||||
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The MNI AutoReg Software Package Resource Report Resource Website 1+ mentions |
The MNI AutoReg Software Package (RRID:SCR_013621) | data processing software, software application, image processing software, software resource | Web site last updated August 26, 1998 Automatic method for comparing different MRI datasets by visual inspection of equivalent anatomical planes. Implementation is based on multi-scale, three dimensional (3D) cross-correlation, to register a given volumetric data set to an average MRI brain (n > 300) aligned with the Talairach stereotaxic coordinate system. : | nif-0000-00328 | SCR_013621 | MNI_AutoReg | 2026-08-14 09:26:47 | 1 | |||||||||||
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Sigpath Resource Report Resource Website 1+ mentions |
Sigpath (RRID:SCR_013620) | database, data processing software, data or information resource, software application, software resource | SigPath is a prototype of an information system for cell signaling pathways and networks. A primary emphasis of SigPath is that biochemical information can be stored both at the qualitative and quantitative levels. When information is stored quantitatively, SigPath can assist users in generating quantitative models that can be used to simulate how the concentrations of the molecules involved in a model change over time. For background, design goals, tutorials, and contact information, visit the SigPath Project Pages :Gs pathway, LSD_binds_serotonin 2AR, MAPK cascade, EGFR signaling and MAP kinase cascade, EGF receptors, mGluR activation : | has parent organization: Cornell University; New York; USA | nif-0000-00413 | http://icb.med.cornell.edu/services/sp-prod/sigpath/mainMenu.action | SCR_013620 | Sigpath | 2026-08-14 09:26:58 | 1 | |||||||||
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Swant Resource Report Resource Website 10+ mentions |
Swant (RRID:SCR_013622) | commercial organization, reagent supplier, antibody supplier, material resource | An Antibody supplier | nlx_152474 | SCR_013622 | Swant Inc. | 2026-08-14 09:26:42 | 12 | |||||||||||
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Syracuse Biomaterials Institute Resource Report Resource Website |
Syracuse Biomaterials Institute (RRID:SCR_013626) | organization portal, data or information resource, graduate program resource, portal | Welcome to the Syracuse Biomaterials Institute! We are a new, interdisciplinary institute focused on research in biomaterials, smart medical devices, and biological/tissue-engineered constructs. Biomaterials are natural and synthetic substances designed to treat, augment, or replace tissues and organs of the human body as treatments to disease or injury. An outgrowth of the long-standing Biomaterials Group in the Biomedical and Chemical Engineering Department, the Syracuse Biomaterials Institute (SBI) was launched in Fall, 2007, through strategic investments by Syracuse University, New York State Foundation for Science, Technology and Innovation (NYSTAR), and private donations. SBI is a cohesive collection of highly collaborative faculty spanning eight (8) academic units, including faculty from SUNY Upstate Medical University and SUNY College of Environmental Science and Forestry. Our researchers are engaged in a wide spectrum of problems, ranging from fundamental studies of the biochemical and physical processes controlling cell functions to the development of new technologies for biomedical applications. In addition to our collaborative research and teaching activities, we are excited to be designing our future SBI home, planned for Fall 2009, that will collocate our research groups and central laboratory facilities. :jobs board, postdoctoral training program, graduate training program, portal : | nif-0000-00406 | http://biomaterials.syr.edu/index.html | SCR_013626 | Syracuse Biomaterials Institute | 2026-08-14 09:26:47 | 0 | ||||||||||
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EISEN LAB Resource Report Resource Website 100+ mentions |
EISEN LAB (RRID:SCR_013508) | organization portal, data or information resource, laboratory portal, portal | Welcome to Michael Eisens lab in the Howard Hughes Medical Institute (HHMI) at University of California at Berkeley (UCB) and the Lawrence Berkeley National Lab (LBNL). We are part of the Department of Molecular and Cell Biology of UCB and the Genomics Division of LBNL, and the. We are located in Stanley Hall on the Berkeley campus.Our lab applies computational and experimental genomic approaches to study how genome sequences specify organismal form and function. We are particularly interested in the regulation of gene expression, and focus on how the information that specifies when and where genes are expressed is encoded in genome sequences, the role that regulated gene expression plays in animal development and the response of microbes to their environments, and how variation in and evolution of gene expression contributes to phenotypic variation and the remarkable diversity of life on Earth. This site contains a more detailed description of our research projects, an introduction to members of the lab, reprints of all of our publications, free downloadable and web-based software. Sponsor. Experimental work described here was supported by a Howard Hughes Medical Institute Investigator award to MBE and by National Institutes of Health (NIH) grant GM704403 to MBE and MDB. Computational analyses were supported in by NIH grant HG002779 to MBE. Work at Lawrence Berkeley National Laboratory was conducted under Department of Energy contract DE-AC02-05CH11231. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript. | has parent organization: University of California at Berkeley; Berkeley; USA | nif-0000-30508 | http://rana.lbl.gov/EisenSoftware.htm | SCR_013508 | EISEN LAB | 2026-08-14 09:26:40 | 143 | |||||||||
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Abnova Corporation Resource Report Resource Website 10+ mentions |
Abnova Corporation (RRID:SCR_013592) | commercial organization, reagent supplier, antibody supplier, material resource | An Antibody supplier | nlx_152248 | SCR_013592 | 2026-08-14 09:26:42 | 21 | ||||||||||||
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Theoretical and Computational Biophysics Group (TCBG) Resource Report Resource Website 10+ mentions |
Theoretical and Computational Biophysics Group (TCBG) (RRID:SCR_013598) | database, image processing software, data processing software, data or information resource, software application, software resource | The Theoretical and Computational Biophysics Group (TCBG), an NIH Resource for Macromolecular Modeling and Bioinformatics, was founded by Professor Klaus Schulten in 1989 and is located at the Beckman Institute of the University of Illinois at Urbana-Champaign (UIUC). The group is led by Professor Klaus Schulten (Physics, Biophysics, Chemistry) with Professors Laxmikant Kale (Computer Science), Zaida Luthey-Schulten (Chemistry) and Alek Aksimentiev (Physics), and with the Resource''s assistant director Dr. Emad Tajkhorshid (Biophysics). Research and development activities of the TCBG center on the structure and function of supramolecular systems in the living cell, and on the development of new algorithms and efficient computing tools for structural biology. :The TCBG brings the most advanced molecular modeling, bioinformatics, and computational technologies to bear on questions of biomedical relevance. We extend, refine and deliver these technologies in response to experimental progress and emerging needs of the wide biomedical research community. We magnify the impact of our work through direct collaboration with experimental researchers, the distribution of cutting-edge and user-friendly software, and via extensive training, service, and dissemination efforts. :cell, algorithm, simulation software, membrane potential, genome, molecule, ion channel, chromatin, Image Processing software, data Data visualization software, simulation software; Membrane Biophysics, Mechanobiology, Nanoengineering, Bioenergetics, Neurobiology, Molecular Dynamics, cellular membrane, osmotic pressure, proteins (use protein), Gatekeeper Protein, membrane, mechanosensitive channel of small conductance (MscS), Visual Molecular Dynamics (VMD), Quantum Biology, quantum chemistry, Molecular Dynamics Simulator, Nanoscale Imaging, cellular membrane tension, bacterial cell, electron paramagnetic measurements, computer modeling, atomic detail, computational microscope, Lipoproteins [high density lipoproteins (HDL)], Petascale Computing, Macromolecular Modeling, Bioinformatics, supramolecular systems, living cell, algorithms (use algorithm), computing tools, structural biology, molecular modeling, computational technologies, membrane proteins, structural information, molecular visualization, Molecular modeling tools, structural information, bioinformatics databases, molecular dynamics simulations, interactive modeling, collaborations, theoretical, experimental researchers, light energy, electrical membrane potentials (use membrane potential, add term as syn), synthesis of ATP, photosynthetic systems, storage and control of genetic information, classical and quantum dynamical motion of biopolymers, numerical experiments, non-equilibrium statistical mechanics, elasticity theory, theory of disordered systems, collaborative environment, Software Development, cells (use cell), molecular graphics viewer, static and dynamic structures, DNA sequencing, genomes (use genome), direct manipulation and observation, single molecules (use molecule), bioenergetic proteins, nanotechnology, steered/interactive molecular dynamics, dissemination, coarse-graining methods, residue-based and shape-based coarse graining, CG, polymeric systems, Computational Environment, Training, Workshops, Tutorials, Case Studies, Classes, research, Highly Cited, compute power, visualization equipment, desktop workstations, lipid bilayers, allow passage of ions across the membrane (use ion channel), mechanotransduction, membrane tension, 3-D graphics, built-in scripting, animating, analyzing, ideal DNA interbasepair helical parameters, plugin, nucleosomes, antialiasing, depthcueing, Molecular Representations, analysis and Data visualization software (use Image Processing software, and data Data visualization software, add terms as syn.), computer simulations (use simulation software), photosynthetic systems, computational clusters : | has parent organization: University of Illinois at Urbana-Champaign; Illinois; USA | nif-0000-00420 | SCR_013598 | TCBG | 2026-08-14 09:26:58 | 19 | ||||||||||
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Iterative dual-regression with sparse prior Resource Report Resource Website |
Iterative dual-regression with sparse prior (RRID:SCR_014128) | data processing software, software application, data analysis software, software resource | Software which aims to better estimate the neuronal activation of an individual using the results of an independent component analysis (ICA) method applied to a temporally concatenated group of functional magnetic resonance imaging (fMRI) data (i.e., Tc-GICA method). This approach employs iterative LS solutions to refine both the individual SPs and TCs with an additional a priori assumption of sparseness in the SPs (i.e., minimally overlapping SPs) based on L(1)-norm minimization. | data analysis software, neuronal activation, independent component analysis, ica, fmri |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Korea University; Seoul; South Korea |
PMID:22939873 | Available for download | SCR_014128 | 2026-08-14 09:26:47 | 0 | |||||||||
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Cancer Nanotechnology Laboratory (caNanoLab) Resource Report Resource Website 1+ mentions |
Cancer Nanotechnology Laboratory (caNanoLab) (RRID:SCR_013717) | caNanoLab | data repository, storage service resource, portal, data or information resource, service resource | Data sharing portal designed to facilitate information sharing across international biomedical nanotechnology research community to expedite and validate use of nanotechnology in biomedicine. | nanotechnology, biomedical |
is recommended by: National Library of Medicine is recommended by: NIDDK Information Network (dkNET) |
r3d100010574 | https://cananolab.nci.nih.gov/caNanoLab/#/searchSample, https://wiki.nci.nih.gov/display/caNanoLab/caNanoLab+FAQ#caNanoLabFAQ-HowdoIsubmitdataintocaNanoLab? | SCR_013717 | caNanoLab, Cancer Nanotechnology Laboratory, Cancer Nanotechnology Laboratory (caNanoLab) | 2026-08-14 09:26:48 | 3 | |||||||
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ARRS GoldMiner Resource Report Resource Website |
ARRS GoldMiner (RRID:SCR_013716) | image collection, data or information resource | An image repository that provides access to published, peer-reviewed medical images from biomedical journals. | image repository, medical image, peer review | PMID:17238591 | Public, Free | SCR_013716 | 2026-08-14 09:26:59 | 0 | ||||||||||
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RunMyCode Resource Report Resource Website 1+ mentions |
RunMyCode (RRID:SCR_014011) | data or information resource, storage service resource, service resource, database | A database and storage service resource which allows users to create, view, share, and download information from companion websites. RunMyCode allows users to create companion websites for their scientific publications. Users can share and download computer code and data from companion websites made with RunMyCode. Any software and data format is compatible with RunMyCode. | database, storage service resource, companion website, code |
is listed by: Connected Researchers is related to: Exec&Share is related to: Exec&Share is related to: Connected Researchers |
Alfred P. Sloan Foundation ; HEC Paris ; National Center for Scientific Research ; University of Orleans ; COlumbia University |
Free, Public, The community can contribute to this resource | r3d100010418 | SCR_014011 | 2026-08-14 09:27:00 | 4 | ||||||||
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L-Neuron Resource Report Resource Website 1+ mentions |
L-Neuron (RRID:SCR_014132) | software application, simulation software, software resource | A program which creates anatomically realistic virtual neurons using the formalism of the Lyndenmayer systems to implement sets of neuroanatomical rules discovered by several research groups. The program algorithms read in experimental data - in the form of statistical distributions - to generate virtual structures. L-Neuron samples the values of the parameters within these statistical distributions in a stochastic (random) fashion during dendritic growth. | simulation softare, virtual neuron, neuronal modeling |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: George Mason University; Virginia; USA |
Available to the research community | http://krasnow1.gmu.edu/cn3/L-Neuron/home.htm | SCR_014132 | L Neuron | 2026-08-14 09:26:52 | 5 | ||||||||
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Academic Karma Resource Report Resource Website 1+ mentions |
Academic Karma (RRID:SCR_014017) | service resource, production service resource | A peer review management system which encourages timely and high quality peer review by using a credit system. Reviewers complete reviews using a general webform on academickarma.org, and if that review is submited to an editor within ten days, the reviewer is awarded a certain amount of points (karma credits). The author and editor both receive the review. Editors can use Academic Karma to identify specialized reviewers for future reference. A reviewer's personal profile, which includes the amount of karma credits they've received, is connected to their ORCID account and publication record for an overview of the reviewer's work. | peer review, peer review management, service resource, prodution service resource |
uses: ORCID - Open Researcher and Contributor ID is listed by: Connected Researchers is related to: Connected Researchers is related to: ORCID - Open Researcher and Contributor ID |
Free, Available to the research community | SCR_014017 | 2026-08-14 09:26:45 | 1 | ||||||||||
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JournalReviewer Resource Report Resource Website 1+ mentions |
JournalReviewer (RRID:SCR_014014) | data or information resource, software resource, database, collaboration tool | A database which allows researchers to view and comment on the logistics of scientific journals' review processes. JournalReviewer collects and aggregates feedback from users who have submitted manuscripts to journals in order to provide information for others considering journal submissions. Statistics such as turnaround rate, review length and quality, journal recommendations, and desk reject plausabilities are compiled from commentors' ratings. | database, review, journal review, review logistics, collaboration tool |
is listed by: Connected Researchers is related to: Connected Researchers |
Free, Public, The community can contribute to this resource | SCR_014014 | 2026-08-14 09:26:44 | 1 | ||||||||||
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Lightweight Data Pipeline Resource Report Resource Website |
Lightweight Data Pipeline (RRID:SCR_014135) | data processing software, software application, software resource, workflow software | A lightweight framework for setting up dependency-driven processing pipelines. The tool is essentially a configurable shell script (sh/bash), which can be included in other scripts and primarily provides a small number of utility functions for dependency checking and NFS-safe file locking for cluster processing. | workflow software, framework, processing pipeline, configurable shell script, cluster processing |
is used by: NCANDA: Data Integration Component is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) |
NIAAA U01 AA021697; NIBIB R01 EB008381 |
Available to the research community | SCR_014135 | 2026-08-14 09:26:52 | 0 | |||||||||
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Journalysis Resource Report Resource Website |
Journalysis (RRID:SCR_014015) | data or information resource, software resource, database, collaboration tool | A database where researchers can read and post reviews of publishing experiences with scientific journals. When writing comments, reviewers are adivsed to provide facts where possible, be specific, be honest, check the review, and offer constructive criticism when writing a negative report. Journalysis collates submitted reviews and data for each journal and provides useful summary information (metrics). Authors wanting to find out more about specific journals can search its databases and find the best journal for their next manuscript submission. Journals can use these reviews and metrics to demonstrate high publishing standards, or to improve standards where reviews may be negative. | database, review, journal review, review logistics, collaboration tool |
is listed by: Connected Researchers is related to: Connected Researchers |
Free, Public, The community can contribute to this resource | SCR_014015 | 2026-08-14 09:27:00 | 0 | ||||||||||
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CMIND PY Resource Report Resource Website |
CMIND PY (RRID:SCR_014097) | software toolkit, image analysis software, data processing software, software application, software resource | A python toolbox for analysis of MRI images. It relies on calls to a number of widely tested algorithms from the FMRIB software library (FSL) and the advanced normalization tools (ANTS) to provide analysis of simultaneously acquired ASL/BOLD fMRI data. It was developed for analyzing the datasets collected as part of the Cincinnati MR Imaging of NeuroDevelopment (C-MIND) project. | python, toolbox, software toolkit, image analysis software, mri |
uses: FSL uses: ANTS - Advanced Normalization ToolS is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) |
Public | https://research.cchmc.org/c-mind-db/py-doc/html/ | SCR_014097 | CMIND-PY | 2026-08-14 09:26:51 | 0 |
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