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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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COBRApy Resource Report Resource Website 100+ mentions |
COBRApy (RRID:SCR_012096) | software resource | Software Python package that provides support for basic COnstraint-Based Reconstruction and Analysis (COBRA) methods. | software package, mac os x, unix/linux, windows, python, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: SourceForge |
PMID:23927696 DOI:10.1186/1752-0509-7-74 |
OMICS_05190, biotools:cobrapy | https://bio.tools/cobrapy | https://sources.debian.org/src/python3-cobra/ | SCR_012096 | COBRA for Python | 2026-08-01 12:04:32 | 311 | ||||||
|
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 | 2026-08-01 12:04:35 | 11 | ||||||||||
|
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 | 2026-08-01 12:04:32 | 170 | |||||||||
|
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 | 2026-08-01 12:04:33 | 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 | 2026-08-01 12:04:35 | 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 | Protein Similarity Scanner | 2026-08-01 12:04:34 | 1 | |||||||
|
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 | 2026-08-01 12:04:28 | 2 | ||||||||
|
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 | 2026-08-01 12:04:32 | 32 | ||||||||
|
ToxAlert Resource Report Resource Website 1+ mentions |
ToxAlert (RRID:SCR_014907) | software resource | Software tool for high-throughput toxicity prediction; it assists in the early and quick identification of toxic drug candidates. ToxAlert provides probability percentages for different toxicity endpoints such as oncogenicity, mutagenicity, teratogenicity, neurotoxicity or cell toxicity. | toxicity prediction, modeling, oncogenicity, mutagenicity, teratogenicity, neurotoxicity, cell toxicity | Commercial | SCR_014907 | 2026-08-01 12:05:18 | 2 | |||||||||||
|
LTQ-Orbitrap Fusion Tribrid Mass Spectrometer Resource Report Resource Website 1+ mentions |
LTQ-Orbitrap Fusion Tribrid Mass Spectrometer (RRID:SCR_014992) | Mass spectrometer that combines quadrupole, ion trap, and Orbitrap mass analysis. | mass spectrometer, quadrupole, ion trap, orbitrap, thermofisher scientific, proteomic, compound | Available for purchase, Commercially available | SCR_014992 | Orbitrap Fusion Tribrid Mass Spectrometer | 2026-08-01 12:05:11 | 9 | |||||||||||
|
Nikon: Eclipse FN1 Microscope Resource Report Resource Website 1+ mentions |
Nikon: Eclipse FN1 Microscope (RRID:SCR_014995) | instrument resource | Fixed-stage microscope for electrophysiological research. Features include open design, noise reduction, 16x objective lens, and water dipping objective with depth induced aberration correction. | microscope, electrophysiology, fixed-stage, nikon, hardware, instrument, equipment, USEDit | is listed by: USEDit | Commercially available, Available for purchase | https://drive.google.com/file/d/1doal81AS1pADxa06FHxhIM9lgZye2wvv/view?usp=drivesdk | https://downloads.microscope.healthcare.nikon.com/phase4/literature/Brochures/Fn1-2CE-MRQH-8.pdf | SCR_014995 | Eclipse FN1 | 2026-08-01 12:05:20 | 7 | |||||||
|
Agilent: 2200 TapeStation Instrument Resource Report Resource Website 10+ mentions |
Agilent: 2200 TapeStation Instrument (RRID:SCR_014994) | instrument resource | Hardware system which automates RNA, DNA, and protein sample QC, including sample loading, separation, and imaging. | rna, dna, protein sample qc, quality control, agilent, hardware, instrument, equipment, USEDit | https://drive.google.com/file/d/1E6jznqjHFiDbbTFiJ1ccNsZnhp_YzD5s/view?usp=drivesdk | https://www.agilent.com/cs/library/usermanuals/public/G2964-90000_TapeStation_USR_ENU.pdf | http://www.genomics.agilent.com/en/TapeStation-System/2200-TapeStation-Instrument/?cid=AG-PT-181&tabId=AG-PR-1004 | SCR_014994 | Agilent 2200 TapeStation, Agilent 2200 TapeStation system | 2026-08-01 12:05:20 | 17 | ||||||||
|
Economic Commission for Latin America and the Caribbean Resource Report Resource Website 1+ mentions |
Economic Commission for Latin America and the Caribbean (RRID:SCR_014998) | ECLAC, CEPAL | Regional commission of the United Nations with the purpose of contributing to the economic development of Latin America, coordinating actions directed towards this end, reinforcing economic ties among countries and with other nations, and promoting social development. | economic development, social development, regional information, information system |
is parent organization of: CEPALSTAT hosts: CEPALSTAT |
United Nations | SCR_014998 | Comision Economica para America Latina y el Caribe, Economic Commission for Latin America and the Caribbean (ECLAC) | 2026-08-01 12:05:11 | 2 | |||||||||
|
METAPC Resource Report Resource Website 1+ mentions |
METAPC (RRID:SCR_014916) | software resource | Software program to predict metabolic and degradation products of chemicals. METAPC has dictionaries on mammalian metabolism, aerobic microbial degredation, anerobic microbial degredation, and photo degredation. | metabolic, mammalian metabolism, aerobic microbial degredation, anerobic microbial degredation, photo degredation | Commercial | SCR_014916 | 2026-08-01 12:05:19 | 1 | |||||||||||
|
bcl2fastq Resource Report Resource Website 1000+ mentions |
bcl2fastq (RRID:SCR_015058) | software processing resource | Conversion software developed by Illumina that both demultiplexes data and converts BCL files generated by Illumina sequencing systems to standard FASTQ file formats for downstream analysis. | bcl file, illumina, sequencing, fastq, conversion software | Restricted | http://emea.support.illumina.com/downloads/bcl2fastq-conversion-software-v2-20.html | SCR_015058 | bcl2fastq2, bcl2fastq2 Conversion Software v2.20 | 2026-08-01 12:05:11 | 3756 | |||||||||
|
Osteogenesis Imperfecta Foundation Resource Report Resource Website 1+ mentions |
Osteogenesis Imperfecta Foundation (RRID:SCR_015034) | OIF | institution | Foundation for improving the quality of life for people affected by OI through treatment and cure research, education, awareness, and mutual support. OIF lists personal resources for individuals affected by osteogenesis imperfecta as well as professional and clinical resources for researchers. | osteogenesis imperfecta, bone disease, brittle bone, patient support, cure research | Osteogenesis imperfecta | U.S. Combined Federal Campaign ; Medical Research Charities ; National Health Council ; NORD ; PAG ; Rare Clinical Diseases Research Network |
Public | grid.423291.f, ISNI: 0000 0000 9148 0660, Crossref funder ID: 100003227 | https://ror.org/05a6emh10 | SCR_015034 | Osteogenesis Imperfecta Foundation (OIF) | 2026-08-01 12:05:12 | 1 | |||||
|
CDC Laboratory Quality Assurance and Standardization Programs Resource Report Resource Website 50+ mentions |
CDC Laboratory Quality Assurance and Standardization Programs (RRID:SCR_015000) | gold standard | Standardization program which helps assure the quality of laboratory test data and results so patients, healthcare providers, researchers, and public health officials can be confident that laboratory test results they receive are accurate. CDC services include reference materials, proficiency testing, training, guideline creation, and consultations. Quality assurance and standardization programs can be can be customized by and for users and laboratories. | standardization program, quality assurance, lab test data, accurate data | has parent organization: Centers for Disease Control and Prevention | Available to the research community | SCR_015000 | 2026-08-01 12:05:20 | 83 | ||||||||||
|
BZ 9000 Fluorescence Microscope Resource Report Resource Website 10+ mentions |
BZ 9000 Fluorescence Microscope (RRID:SCR_015486) | Microscope system performs fluorescence, bright-field and phase-contrast imaging on various specimen holders. The system allows users to switch between four fluorescent channels, automatically adjusting the filter and exposure time while preserving the longevity of the specimen. | microscope, fluorescence microscope, fluorescence microscopy | Commercially available | https://www.photonics.com/Product.aspx?PRID=47416 | SCR_015486 | BZ-9000 Fluorescence Microscope | 2026-08-01 12:05:15 | 11 | ||||||||||
|
Spectrum Labs Resource Report Resource Website 1+ mentions |
Spectrum Labs (RRID:SCR_015488) | Commercial organization which supplies products for bioseparation and cell line management. | filtration, filtration product, bioseparation | SCR_015488 | Spectrum Labs Inc | 2026-08-01 12:05:16 | 7 | ||||||||||||
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MareNostrum Resource Report Resource Website 1+ mentions |
MareNostrum (RRID:SCR_015737) | software resource | Operating software for a supercomputer in Spain. The software is maintained and updated by the Centro Nacional de Supercomputación (Barcelona Supercomputing Center) and is used for research projects on climate change, gravitational waves, a vaccination against AIDS, new radiation treatments to fight cancer, and other subjects. | supercomputer, operating system, petaflop, research project, research software | Available to affiliated researchers | SCR_015737 | 2026-08-01 12:05:28 | 6 |
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