Searching the RRID Resource Information Network
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
Knowtator Resource Report Resource Website 10+ mentions |
Knowtator (RRID:SCR_012099) | software resource | A general-purpose text annotation tool that is integrated with the Prot����g���� knowledge representation system. | plugin |
is listed by: OMICtools has parent organization: SourceForge |
OMICS_05234 | SCR_012099 | SciCrunch Registry | 2026-09-26 02:15:02 | 11 | ||||||||||
|
BioSpace Resource Report Resource Website 500+ mentions |
BioSpace (RRID:SCR_012010) | BioSpace | data or information resource, job resource, narrative resource | Online community for industry news and careers for life science professionals. | biotechnology, pharmaceutical, career, clinical, academic, biomedical, medical device | is listed by: OMICtools | The community can contribute to this resource | OMICS_01828 | SCR_012010 | SciCrunch Registry | 2026-09-26 02:15:01 | 510 | ||||||||
|
PBJelly Resource Report Resource Website 100+ mentions |
PBJelly (RRID:SCR_012091) | software resource | Software that automates the finishing process using long sequence reads in a reference-guided assembly process. | standalone software, roche, pacific biosciences |
is listed by: OMICtools has parent organization: SourceForge |
PMID:23185243 | OMICS_05098 | SCR_012091 | SciCrunch Registry | 2026-09-26 02:15:02 | 172 | |||||||||
|
AHA Resource Report Resource Website 1+ mentions |
AHA (RRID:SCR_012090) | software resource | Contigs from a draft assembly generated by a different assembler can be joined using PacBio long reads. | standalone software | is listed by: OMICtools | PMID:22750883 | GNU General Public License | OMICS_05096 | SCR_012090 | SciCrunch Registry | 2026-09-26 02:15:02 | 1 | ||||||||
|
NetCoffee Resource Report Resource Website 1+ mentions |
NetCoffee (RRID:SCR_012095) | software resource | A fast and accurate algorithm which allows to find a global alignment of multiple protein-protein interaction networks. | standalone software, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: Google Code |
PMID:24336806 | GNU General Public License | biotools:netcoffee, OMICS_05172 | https://bio.tools/netcoffee | SCR_012095 | SciCrunch Registry | 2026-09-26 02:15:02 | 3 | |||||||
|
PSimScan Resource Report Resource Website 1+ mentions |
PSimScan (RRID:SCR_012094) | software resource | A flexible open source protein similarity search software tool which provides a significant gain in speed compared to BLASTP at the price of controlled sensitivity loss. | standalone software |
is listed by: OMICtools has parent organization: Google Code |
PMID:23505522 | GNU General Public License | OMICS_05143 | SCR_012094 | SciCrunch Registry | Protein Similarity Scanner | 2026-09-26 02:15:02 | 1 | |||||||
|
TFClass Resource Report Resource Website 10+ mentions |
TFClass (RRID:SCR_012018) | TFClass | controlled vocabulary, data or information resource, database, ontology | Database that classifies human transcription factors based on the characteristics of their DNA-binding domains. It comprises six levels (superclasses, classes, families, subfamilies, genera and factor species), two of which are optional (subfamilies and factor species). The full classification can also be obtained as html document and as ontology in obo-format., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | transcription factor, dna-binding domain, obo | is listed by: OMICtools | BMBF ; European Union FP7 LipidomicNet 202272; European Union FP7 SysCol 258236; DFG FKZ0315890B |
PMID:23180794 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01864 | SCR_012018 | SciCrunch Registry | Classification of Human Transcription Factors | 2026-09-26 02:15:01 | 13 | |||||
|
ShrinkSeq Resource Report Resource Website 1+ mentions |
ShrinkSeq (RRID:SCR_012022) | ShrinkSeq | software resource | Software for detecting differential features across the entire spectrum, including the lower counts. | rna-seq, r |
is listed by: OMICtools has parent organization: VU University; Amsterdam; Netherlands |
PMID:22988280 | OMICS_01961 | SCR_012022 | SciCrunch Registry | 2026-09-26 02:15:01 | 2 | ||||||||
|
TSPM.R Resource Report Resource Website |
TSPM.R (RRID:SCR_012021) | TSPM.R | software resource | Software using a statistical approach, based on a two-stage Poisson model, for modeling RNA sequencing data and testing for biologically important changes in gene expression. | r, rna-seq, gene expression | is listed by: OMICtools | OMICS_01960 | SCR_012021 | SciCrunch Registry | 2026-09-26 02:15:01 | 0 | |||||||||
|
GenomeJack Resource Report Resource Website 10+ mentions |
GenomeJack (RRID:SCR_012026) | GenomeJack | software resource | A genome browser specialized in next-generation sequencing data. | next-generation sequencing, genome, browser, analysis | is listed by: OMICtools | Free, Public | OMICS_02143 | SCR_012026 | SciCrunch Registry | 2026-09-26 02:15:01 | 35 | ||||||||
|
Standalone hamming Resource Report Resource Website |
Standalone hamming (RRID:SCR_012025) | Standalone hamming | software resource | Software for decoding error-correcting barcodes. | python, numpy, pyrosequencing, primer, ribosomal rna, dna barcoding, hamming code |
is listed by: OMICtools has parent organization: University of Colorado Boulder; Colorado; USA |
PMID:18264105 | OMICS_02117 | SCR_012025 | SciCrunch Registry | 2026-09-26 02:15:01 | 0 | ||||||||
|
Purdue University Labs and Facilities Resource Report Resource Website |
Purdue University Labs and Facilities (RRID:SCR_012231) | Purdue Labs and Facilities, Purdue Labs & Facilities | access service resource, core facility, data or information resource, portal, service resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 24,2024. Portal, Core facility |
is listed by: ScienceExchange is related to: Purdue X-Ray Crystallography Facility |
THIS RESOURCE IS NO LONGER IN SERVICE | SciEx_1093 | SCR_012231 | SciCrunch Registry | Purdue University Labs & Facilities | 2026-09-26 02:15:03 | 0 | ||||||||
|
Golden Helix Incorporated Resource Report Resource Website 100+ mentions |
Golden Helix Incorporated (RRID:SCR_012191) | Golden Helix | commercial organization | Specializes in sequence and array-based SNP and copy number analysis, genetic association software, and analytic services. Their technologies empower scientists to determine the genetic causes of disease, transform drug discovery, develop genetic diagnostics, and advance the quest for personalized medicine. | resource, portal, analysis, software |
is listed by: ScienceExchange is parent organization of: Golden Helix GenomeBrowse is parent organization of: SNP and Variation Suite SNP Analysis is parent organization of: SNP and Variation Suite CNV Analysis is parent organization of: SNP and Variation Suite |
Available to external user | SciEx_10349 | http://www.goldenhelix.com/Services, http://www.scienceexchange.com/facilities/golden-helix-inc | SCR_012191 | SciCrunch Registry | Golden Helix Inc., GoldenHelix.com | 2026-09-26 02:15:03 | 170 | ||||||
|
OyaGen Resource Report Resource Website |
OyaGen (RRID:SCR_012236) | OyaGen | access service resource, commercial organization, core facility, service resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on December 6,2022. OYAGEN is a biotechnology company formed on September 5, 2003, for the purpose of discovering, developing, and commercializing novel pharmaceutical therapies that seek to exploit RNA editing and DNA editing enzymes. OyaGen holds exclusive rights to important technologies originating from the University of Rochester Medical Center (URMC), the Thomas Jefferson University (TJU), and Oregon Health Science Center. | is listed by: ScienceExchange | THIS RESOURCE IS NO LONGER IN SERVICE | SciEx_11240 | SCR_012236 | SciCrunch Registry | OyaGen Inc. | 2026-09-26 02:15:03 | 0 | ||||||||
|
GenoSIGHT Resource Report Resource Website |
GenoSIGHT (RRID:SCR_012119) | software resource | An adaptive imaging cytometry software environment. | standalone software |
is listed by: OMICtools has parent organization: SourceForge |
PMID:25210731 | OMICS_05634 | SCR_012119 | SciCrunch Registry | 2026-09-26 02:15:02 | 0 | |||||||||
|
MSImageViewer Resource Report Resource Website |
MSImageViewer (RRID:SCR_012121) | software resource | Software for the conversion of data acquired with the FlashQuant (MALDI version of ABSciex 4000) into MS images. | standalone software | is listed by: OMICtools | Free, Public | OMICS_05672 | SCR_012121 | SciCrunch Registry | 2026-09-26 02:15:02 | 0 | |||||||||
|
Cell motility Resource Report Resource Website |
Cell motility (RRID:SCR_012120) | software resource | An open source Java application that provides a clear and concise analysis workbench for large amounts of cell motion data. | applet, java, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: Google Code |
PMID:16762054 | Apache License, v2 | biotools:cell-motility, OMICS_05660 | https://bio.tools/cell-motility | SCR_012120 | SciCrunch Registry | Cell_motility | 2026-09-26 02:15:02 | 0 | ||||||
|
GlycanBuilder Resource Report Resource Website 1+ mentions |
GlycanBuilder (RRID:SCR_012123) | software resource | An intuitive and flexible software tool for building and displaying glycan structures. | standalone software |
is listed by: OMICtools has parent organization: Google Code |
PMID:23109548 | GNU Lesser General Public License | OMICS_05681 | SCR_012123 | SciCrunch Registry | 2026-09-26 02:15:02 | 6 | ||||||||
|
GlycReSoft Resource Report Resource Website 10+ mentions |
GlycReSoft (RRID:SCR_012122) | software resource | A software package for automated recognition of glycans from LC/MS data. | software package |
is listed by: OMICtools has parent organization: Google Code |
PMID:23049804 | GNU General Public License | OMICS_05674 | SCR_012122 | SciCrunch Registry | 2026-09-26 02:15:02 | 29 | ||||||||
|
ISDTool Resource Report Resource Website |
ISDTool (RRID:SCR_012125) | software resource | Software that implements a computational model for predicting immunosuppressive domains (ISDs). The software could be used to identify typical ISDs in retroviruses including HERV, HTLV, HIV, STLV, SIV and MLV. | standalone software, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: SourceForge |
PMID:25008418 | OMICS_05696, biotools:isdtool | https://bio.tools/isdtool | SCR_012125 | SciCrunch Registry | 2026-09-26 02:15:03 | 0 |
Can't find your Tool?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. Alternatively, please register your tool with the SciCrunch Registry by adding a little information to a web form, logging in will enable users to create a provisional RRID, but it not required to submit.
Welcome to the dkNET Resources search. From here you can search through a compilation of resources used by dkNET and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that dkNET has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on dkNET then you can log in from here to get additional features in dkNET such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
If you are logged into dkNET you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the facets that you can filter the data by.
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
Email: info_at_ dknet.org
