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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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BioSpherix: ProOx C21 Controller Resource Report Resource Website 1+ mentions |
BioSpherix: ProOx C21 Controller (RRID:SCR_021131) | C21 | instrument resource | Compact O2 and CO2 Subchamber Controller used together with C-Chamber Incubator Subchamber from BioSpherix or chambers from other manufacturers. | Compact controller, Oxygen controller, CO2 controller, Subchamber Controller, BioSpherix, instrument, equipment, USEDit | is listed by: USEDit | Commercially Available | Model_Number_ProOx C21 | SCR_021131 | ProOx C21, ProOx C21 Oxygen and Carbon Dioxide Subchamber Controller | 2026-09-05 06:29:35 | 1 | |||||||
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Biofactoid Resource Report Resource Website 1+ mentions |
Biofactoid (RRID:SCR_021011) | data access protocol, data or information resource, knowledge environment resource, portal, project portal, software resource, web service | Web tool for creating digital profile of scientific discoveries in article and connecting them to related research. Authors describe molecular interactions supported by their results, letting researchers explore first hand account of article findings and connect to related articles and knowledge. Web based system for scientists to compose structured representation of networks of interactions between genes, their products, and chemical compounds, represented using power of formal ontology. | Knowledge management, molecular interactions, pathway, compose network structured representation, digital profile, connect related articles, formal ontology |
is related to: Biological Pathways Exchange is related to: Biological Pathways Exchange has parent organization: University of Toronto; Ontario; Canada has parent organization: Harvard University; Cambridge; United States has parent organization: University of Oregon; Oregon; USA |
DARPA Big Mechanism ; NHGRI U41HG006623 |
Free, Freely available | SCR_021011 | 2026-09-05 06:29:32 | 1 | |||||||||
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Applied Biosystems QuantStudio 12K Flex RT PCR Software Resource Report Resource Website 1+ mentions |
Applied Biosystems QuantStudio 12K Flex RT PCR Software (RRID:SCR_021096) | data acquisition software, data analysis software, data processing software, software application, software resource | Software supports QuantStudio12K Flex Real Time PCR System to open and analyze experiments. Enables to set up experiments, send experiments to instrument, control thermal cycling process in instrument, collect data and analyze collected data. | control instrument thermal cycling process, data collection, data analysis, QuantStudio12K Flex Real Time PCR System support | is used by: Thermo Fisher: Applied Biosystems: QuantStudio 12K Flex RealTime PCR System | Restricted | SCR_021096 | QuantStudio 12K Flex Real Time PCR Software, Applied Biosystems QuantStudio 12K Flex RT PCR Software | 2026-09-05 06:29:34 | 5 | |||||||||
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BioSpherix: ProOx 360 Controller Resource Report Resource Website 1+ mentions |
BioSpherix: ProOx 360 Controller (RRID:SCR_021130) | P360 | instrument resource | Versatile high infusion rate O2 controller.Controls Oxygen and may be used with BioSpherix C-Chamber Incubator Subchamber, C-Shuttle Glove Box, I-Glove Incubator Glove Box, Xvivo System Model X3 Cytocentric Cell Incubation and Handling Platfrom, or A-Chamber Animal Chamber. Featuring capability to infuse gas over range 1-140 SCFH, may be used together with chambers which are either home built or are available from other manufacturers. | Versatile high infusion rate O2 controller, O2 controller, Oxygen controller, BioSpherix, instrument, equipment, USEDit | is listed by: USEDit | Commercially Available | Model_Number_ProOx 360 | SCR_021130 | ProOx 360 High Infusion Rate O2 Controller, ProOx 360 | 2026-09-05 06:29:35 | 3 | |||||||
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ExpressionSuite Resource Report Resource Website 10+ mentions |
ExpressionSuite (RRID:SCR_021095) | data analysis software, data processing software, software application, software resource | Software tool to quantify relative gene expression across large number of genes and samples. Allows to analyze gene expression data on any current Applied Biosystems real time PCR instrument. | QuantStudio Real-Time PCR analysis, quantify relative gene expression, genes large number, analyze gene expression data, Applied Biosystems RT PCR instrument | Free, Available for download, Freely available | SCR_021095 | ExpressionSuite Software, ExpressionSuite v1.3 | 2026-09-05 06:29:34 | 11 | ||||||||||
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Multilayer Connectome of Caenorhabditis elegans Resource Report Resource Website |
Multilayer Connectome of Caenorhabditis elegans (RRID:SCR_021009) | data or information resource | Networks of extrasynaptic aminergic and peptidergic interactions in C. elegans | Networks, extrasynaptic aminergic interactions, peptidergic interactions, C.Elegans | DOI:10.1371/journal.pcbi.1005283 | Free, Freely available | SCR_021009 | 2026-09-05 06:29:32 | 0 | ||||||||||
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BioSpherix: ProOx 110 Controller Resource Report Resource Website 1+ mentions |
BioSpherix: ProOx 110 Controller (RRID:SCR_021129) | P110, ProOx 110 | instrument resource | Compact, versatile O2 controller.Controls Oxygen and may be used with either C-Chamber Incubator Subchamber or A-Chamber Animal Chamber from BioSpherix. May be used with home-built or other manufacturers chambers. | Compact O2 controller, controls Oxygen, BioSpherix, instrument, equipment, USEDit | is listed by: USEDit | Commercially Available | Model_Number_ProOx 110 | SCR_021129 | BioSpherix ProOx 110 Compact O2 Controller | 2026-09-05 06:29:35 | 3 | |||||||
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xProhet Resource Report Resource Website |
xProhet (RRID:SCR_021005) | data analysis software, data processing software, software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on March 15, 2021. Software tool for analysis of cross-linked peptides. | PMID:24356771 | THIS RESOURCE IS NO LONGER IN SERVICE | http://proteomics.ethz.ch/cgi-bin/xquest2_cgi/download.cgi | SCR_021005 | xQuest/xProhet | 2026-09-05 06:29:32 | 0 | |||||||||
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BioSpherix: ProCO2 120 Controller Resource Report Resource Website 1+ mentions |
BioSpherix: ProCO2 120 Controller (RRID:SCR_021127) | P120 | instrument resource | Controls CO2 levels for most physiologic concentrations and may be connected with either C-Chamber Incubator Subchambers or A-Chamber Animal Chambers from BioSpherix. May also be connected with chambers which are either home built or are available from other manufacturers. These include thermal incubators, flush boxes, culture chambers, glove boxes, and other semi sealed enclosures. | CO2 levels control, physiologic concentrations, BioSpherix, instrument, equipment, USEDit | is listed by: USEDit | Commercially available | Model_Number_ProCO2 120 | SCR_021127 | ProCO2 120, ProCO2 120 Compact CO2 Controller, ProCO2 120 Compact Controller | 2026-09-05 06:29:34 | 3 | |||||||
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immuneML Resource Report Resource Website 1+ mentions |
immuneML (RRID:SCR_021004) | analysis service resource, data or information resource, portal, production service resource, service resource | Open source Python platform for machine learning based analysis and classification of adaptive immune receptors and repertoires. Supported by ELIXIR Norway. | Immune receptor, machine learning, predicting immune status, predicting antigen specificity | DOI:10.1101/2021.03.08.433891 | Free, Available for download, Freely available | SCR_021007 | https://galaxy.immuneml.uio.no/, https://github.com/uio-bmi/immuneML | SCR_021004 | 2026-09-05 06:29:32 | 1 | ||||||||
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trRosetta Resource Report Resource Website 100+ mentions |
trRosetta (RRID:SCR_021181) | service resource, simulation software, software application, software resource | Software tool for fast and accurate protein structure prediction. Builds protein structure based on direct energy minimizations with restrained Rosetta. Restraints include inter-residue distance and orientation distributions, predicted by deep residual neural network. Homologous templates are included in network prediction to improve accuracy for easy targets. | protein structure, restraint-guided structure generation, protein structure prediction | uses: Rosetta | China Scholarship Council ; Fok Ying-Tong Education Foundation ; Key Laboratory for Medical Data Analysis and Statistical Research of Tianjin ; National Natural Science Foundation of China ; NIGMS R01 GM092802; NIH Office of the Director DP5 OD026389; Thousand Youth Talents Plan of China |
PMID:31896580 | Free, Freely available | https://github.com/gjoni/trRosetta | SCR_021181 | transformed restrained Rosetta | 2026-09-05 06:29:35 | 100 | ||||||
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BioSpherix: OxyCycler AT82NN Controller Resource Report Resource Website |
BioSpherix: OxyCycler AT82NN Controller (RRID:SCR_021188) | OxyCycler AT82NN | instrument resource | Provides either dynamic or static control of parts per million levels of nitric oxide (NO) and limits the undesirable elevation NO2 in animal models when used in combination with either one or two (1 or 2) A-Chamber Animal Chambers. | Nitric Oxide, Animal Chamber Controller, NO2 Limit Control, BioSpherix, USEDit | is listed by: USEDit | Commercially Available | Model_Number_AT82NN | SCR_021188 | OxyCycler AT82NN Nitric Oxide Animal Chamber Controller with NO2 Limit Control | 2026-09-05 06:29:36 | 0 | |||||||
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Traefik Resource Report Resource Website 1+ mentions |
Traefik (RRID:SCR_021221) | software resource | Software tool based on open source solutions to make deploying microservices easy. Used for deployment of modern IT environments. Allows to expose applications to network in dynamic environment.Traefik Stack by Traefik Labs Inc. as cloud native stack to help enterprises manage their entire network across data centers, on-premises servers and public clouds.Tools options include Traefik Proxy,Traefik Enterprise,Traefik Mesh,Traefik Pilot. | HTTP reverse proxy, load balancer, Golang, deploying microservices, Traefik Labs Inc, expose applications to network, dynamic environment | Restricted | https://github.com/traefik, https://github.com/traefik/traefik | SCR_021221 | 2026-09-05 06:29:36 | 3 | ||||||||||
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HDMF Common Schema Resource Report Resource Website |
HDMF Common Schema (RRID:SCR_021342) | data or information resource, narrative resource, standard specification | Software tool to define collection of common, reusable data structures that build foundation for modeling of advanced data formats and is integrated with HDMF.Provided data structures include DynamicTable, VectorData, VectorIndex, ElementIdentifiers, DynamicTableRegion, AlignedDynamicTable and CSRMatrix. | Schema, data standard, neurophysiology data standard, DynamicTable, VectorData, VectorIndex, ElementIdentifiers, DynamicTableRegion, AlignedDynamicTable, CSRMatrix |
is related to: Neurodata Without Borders is related to: Hierarchical Data Modeling Framework is related to: PyNWB is related to: MatNWB |
DOI:10.1109/BigData47090.2019.9005648 | Free, Available for download, Freely Available | https://hdmf-common-schema.readthedocs.io | SCR_021342 | hdmf common schema | 2026-09-05 06:29:38 | 0 | |||||||
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Neurodata Extensions Catalog Resource Report Resource Website 1+ mentions |
Neurodata Extensions Catalog (RRID:SCR_021340) | NDX Catalog | catalog, data or information resource, database, software application, software resource | Community led catalog of extensions to Neurodata Without Borders data standard. | Extensions catalog, NWB, Neurodata Without Borders, data standard, Neurodata Without Borders data standard, software tools catalog |
is related to: Neurodata Without Borders is related to: PyNWB is related to: Hierarchical Data Modeling Framework |
NIH | Free, Available for download, Freely Available | https://github.com/nwb-extensions | SCR_021340 | 2026-09-05 06:29:38 | 1 | |||||||
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BioSpherix: OxyCycler AT42N Controller Resource Report Resource Website |
BioSpherix: OxyCycler AT42N Controller (RRID:SCR_021187) | OxyCycler AT42N | instrument resource | Provides either dynamic or static control of parts per million levels of nitric oxide (NO) in animal models modeling when used in combination with either one or two (1 or 2) A-Chamber Animal Chambers. | Nitric Oxide, Animal Chamber Controller, BioSpherix, USEDit | is listed by: USEDit | Commercially Available | Model_Number_AT42N | SCR_021187 | OxyCycler AT42N Nitric Oxide Animal Chamber Controller | 2026-09-05 06:29:36 | 0 | |||||||
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HDMF Documentation Utilities Resource Report Resource Website |
HDMF Documentation Utilities (RRID:SCR_021341) | data or information resource, narrative resource, software library, software resource, software toolkit, standard specification | Software tool for generating documentation for data standard schema defined using HDMF specification language. Collection of CLIs, scripts and modules useful to generate NWB documentation. | Data standard schema, documentation utilitites, HDMF specification language, NWB documentation generation |
is related to: Hierarchical Data Modeling Framework is related to: Neurodata Without Borders |
Free, Available for download, Freely Available | SCR_021341 | 2026-09-05 06:29:38 | 0 | ||||||||||
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BioSpherix: OxyCycler A41OV Controller Resource Report Resource Website 1+ mentions |
BioSpherix: OxyCycler A41OV Controller (RRID:SCR_021182) | OxyCycler A41OV | instrument resource | Provides either dynamic or static control of O2 condition for animal modeling when used in combination with A-Chamber Animal Chamber. | Controller, O2 control, A-Chamber Animal Chamber, USEDit, BioSpherix | Commercially Available | https://raw.githubusercontent.com/SciCrunch/RRID-Instruments/refs/heads/main/PDF/SCR_021182.pdf | Model_Number_A41OV | SCR_021182 | OxyCycler A41OV, A41OV OxyCycler A41OV Dynamic O2 Animal Chamber Controller | 2026-09-05 06:29:35 | 1 | |||||||
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BioSpherix: OxyCycler A42OC Controller Resource Report Resource Website |
BioSpherix: OxyCycler A42OC Controller (RRID:SCR_021183) | OxyCycler A42OC | instrument resource | Provides either dynamic or static control of O2 and CO2 conditions for animal modeling when used in combination with one or two A-Chamber Animal Chamber(s). | O2 control, CO2 control, Animal Chamber, USEDit, BioSpherix | is listed by: USEDit | Commercially Available | Model_Number_A42OC | SCR_021183 | OxyCycler A42OC Controller | 2026-09-05 06:29:35 | 0 | |||||||
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RNAProt Resource Report Resource Website 1+ mentions |
RNAProt (RRID:SCR_021218) | simulation software, software application, software resource | Software tool for modelling RNA binding protein binding preferences. Used to predict RPB binding sites. Computational RBP binding site prediction framework based on recurrent neural networks. Includes functionalities from dataset generation over model training to evaluation of binding preferences and binding site prediction. | RBP, RNA Binding Protein, RNA sequences, protein binding preferences, predict RPB binding sites, neural networks |
is related to: Conda is related to: BioConda |
Free, Available for download, Freely available | SCR_021218 | 2026-09-05 06:29:36 | 1 |
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