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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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BiQAnalyzer HT Resource Report Resource Website 10+ mentions |
BiQAnalyzer HT (RRID:SCR_008045) | BiQAnalyzer HT | software resource | Software that currently allows to process an amount of bisulfite sequencing reads obtained in one or several bisulfite sequencing experiments. | is listed by: OMICtools | OMICS_00631 | SCR_008045 | 2025-04-19 06:44:10 | 12 | ||||||||||
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University of Science and Technology of China; Hefei; China Resource Report Resource Website |
University of Science and Technology of China; Hefei; China (RRID:SCR_008038) | university | Public research university in Hefei, Anhui, China, under direct leadership of Chinese Academy of Sciences. Member of elite C9 League. Chinese state Class A Double First Class University. | nlx_90285 | http://www5.ustc.edu.cn/en/ | SCR_008038 | 2025-04-19 06:44:10 | 0 | |||||||||||
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University of Western Sydney; New South Wales; Australia Resource Report Resource Website |
University of Western Sydney; New South Wales; Australia (RRID:SCR_008156) | UWS | university | Western Sydney University is one of Australia's leading institutions. Ranked in the top 400 in the world. | is parent organization of: University of Western Sydney Labs and Facilities | nlx_155519 | SCR_008156 | University of Western Sydney | 2025-04-19 06:44:13 | 0 | |||||||||
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lobSTR Resource Report Resource Website 10+ mentions |
lobSTR (RRID:SCR_008030) | lobSTR | software resource | A software tool for profiling Short Tandem Repeats (STRs) from high throughput sequencing data. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: Massachusetts Institute of Technology; Massachusetts; USA; |
PMID:22522390 | OMICS_00109, biotools:lobstr | https://bio.tools/lobstr | SCR_008030 | lobSTR - Profiling STRs in personal genomes | 2025-04-19 06:44:09 | 45 | ||||||
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Institute for Neural Computation Resource Report Resource Website |
Institute for Neural Computation (RRID:SCR_008068) | institution | The Institute for Neural Computation (INC) is an organized research unit of the University of California at San Diego with 44 members representing 14 research disciplines, devoted to the research and development of a new generation of massively parallel computers through a coherent and cohesive plan of research spanning the areas of neuroscience, visual science, cognitive science, artificial intelligence, mathematics, economics and social science, and computer engineering. INC is a leading center in the field of neural computation, initiating joint research projects, providing special facilities for carrying out research, coordinating the training of young investigators, and offering special activities through its Industrial Affiliates Program. The INC also supports training programs for graduate students and postdoctoral fellows in Cognitive Neuroscience (NIH) and Computational Neurobiology (NFS). | economics, artificial intelligence, cognitive neuroscience, cognitive science, computational neurobiology, computer engineering, mathematics, neuroscience, parallel computer, social science, visual science | has parent organization: University of California at San Diego; California; USA | nif-0000-10510 | SCR_008068 | UCSD INC | 2025-04-19 06:44:11 | 0 | |||||||||
|
Systems Biology Workbench Resource Report Resource Website |
Systems Biology Workbench (RRID:SCR_008059) | SBW | software resource | An open source framework for systems biology connecting heterogeneous software applications written in diverse programming languages and running on different platforms-to communicate and use each others'' capabilities via a fast binary encoded-message system. It uses a broker-based, distributed, message-passing architecture, supports many languages including Java, C++, Perl & Python, and runs under Linux,OSX & Win32. Many biological modeling and simulation tools are a part of SBW, including JDesigner and Jarnac. | simulation, systems biology, bioinformatics | is listed by: 3DVC | DARPA ; DOE |
nif-0000-10441 | http://www.sys-bio.org/index.htm | SCR_008059 | 2025-04-19 06:44:10 | 0 | |||||||
|
University of Sheffield; South Yorkshire; United Kingdom Resource Report Resource Website 1+ mentions |
University of Sheffield; South Yorkshire; United Kingdom (RRID:SCR_008056) | university | Founded in 1905, the University of Sheffield is one of the UK''s leading Russell Group universities with an outstanding record in both teaching and research. |
is affiliated with: OpenMinTeD is parent organization of: ZCre |
Crossref funder ID:501100000858, nlx_151620, ISNI:0000 0004 1936 9262, grid.11835.3e, Wikidata:Q823917 | https://ror.org/05krs5044 | SCR_008056 | University of Sheffield | 2025-04-19 06:44:10 | 6 | |||||||||
|
UCHIME Resource Report Resource Website 1000+ mentions |
UCHIME (RRID:SCR_008057) | UCHIME | software resource | An algorithm for detecting chimeric sequences. |
is listed by: OMICtools is listed by: SoftCite |
OMICS_01115 | SCR_008057 | 2025-04-19 06:44:10 | 1662 | ||||||||||
|
Species 2000 Resource Report Resource Website 1+ mentions |
Species 2000 (RRID:SCR_008231) | nonprofit organization | Species 2000 is a federation of database organizations working closely with users, taxonomists and sponsoring agencies. The goal of the Species 2000 project is to create a validated checklist of all the world''s species (plants, animals, fungi and microbes). This is being achieved by bringing together an array of global species databases covering each of the major groups of organisms. Each database covers all known species in the group, using a consistent taxonomic system. The participating databases are widely distributed throughout the world and currently number 52. The existing global species databases presently account for some 60% of the total known species, so substantial investment in new databases will be needed for full coverage of all taxa to be achieved. | fungus, animal, global, microbe, organism, plant, specie, taxonomy, taxonomy and identification databases | has parent organization: University of Reading; Reading; United Kingdom | grid.438063.a, nif-0000-21377, ISNI: 0000 0001 0496 8228 | https://ror.org/04m098c22 | SCR_008231 | Species 2000 | 2025-04-19 06:44:15 | 7 | ||||||||
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Post-DVM Training Program on Animal Model Research for Veterinarians Resource Report Resource Website |
Post-DVM Training Program on Animal Model Research for Veterinarians (RRID:SCR_008303) | training resource | An institutional training program to train veterinarians in conducting research. The program trains veterinarians in acquiring the skills of a researcher as they undergo a specific M.S. or Ph.D program. The program urges graduates to take part in research concerning animal models of infectious diseases, immunology, and nutrition, among other health topics. | animal, biology, biomedical, comparative, disease, human, immunology, infectious, medicine, model, molecular, nutrition, physiology, research, toxicology, veterinarian | NIH | Must enroll in program | nif-0000-24382 | http://www.vetmed.vt.edu | SCR_008303 | Post-DVM Program on AMRV, Virginia-Maryland College of Veterinary Medicine | 2025-04-19 06:44:18 | 0 | |||||||
|
RJaCGH Resource Report Resource Website 1+ mentions |
RJaCGH (RRID:SCR_008381) | RJaCGH | software resource | Software for Bayesian analysis of CGH microarrays fitting Hidden Markov Chain models. | is listed by: OMICtools | GNU General Public License, v3 | OMICS_00731 | SCR_008381 | RJaCGH: Reversible Jump MCMC for the analysis of CGH arrays | 2025-04-19 06:44:20 | 1 | ||||||||
|
OnlineCall Resource Report Resource Website |
OnlineCall (RRID:SCR_008263) | OnlineCall | software resource | A fast basecalling scheme for Illumina''s Next Generation sequencing machines, specifically designed for GAII. | is listed by: OMICtools | OMICS_01153 | SCR_008263 | 2025-04-19 06:44:16 | 0 | ||||||||||
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Bioinformatic: Programs and Courses Resource Report Resource Website |
Bioinformatic: Programs and Courses (RRID:SCR_008379) | graduate program resource | This program is an international Bioinformatics course at KMUTT designed for students who desire focused training in the elements of computer science, biology and biochemistry needed for a successful career in this exciting new discipline. Students in this program will receive comprehensive training in genomics, algorithms for sequence analysis, database design and management, software engineering and programming (including web-based development). Each student will apply their skills to a practical project, where they will design and implement a solution to a real-world problem under the guidance of an experienced mentor in industry or academia. In order to receive a Masters degree, students must demonstrate mastery of the core subject matter (expected to maintain a minimum grade of B in all core courses) and reach a minimum TOEFL test score of 500 (paper) or 173 (computer) or equivalent prior to or on completion of the course. In 24 monhs students gain the knowledge and skills necessary to enter a career with industry or a career in research as a bioinformatics or biocomputing specialist. The program offers fifteen scholarships each year include tuition and fees plus an additional to cover living expenses for 24 months. :Keywords: Bioinformatics, Computer Science, Biology, Biochemistry, Genomics, Algorithms, Sequence, Analysis, Database, Design, Management, Software, Engineering, Programing, Industry, Academia, Master''s, : | nif-0000-30008 | http://www.bioinformatics.kmutt.ac.th/course.php | SCR_008379 | Bioinformatic | 2025-04-19 06:44:20 | 0 | ||||||||||
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IsaCGH Resource Report Resource Website |
IsaCGH (RRID:SCR_008375) | IsaCGH | software resource | Software to analyze CNV that will now normalize arrays CGH and it will visually integrate different genome annotations. | microarray, array cgh, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
OMICS_00727, biotools:isacgh | https://bio.tools/isacgh | SCR_008375 | 2025-04-19 06:44:20 | 0 | ||||||||
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University of Wollongong; New South Wales; Australia Resource Report Resource Website 1+ mentions |
University of Wollongong; New South Wales; Australia (RRID:SCR_008322) | UOW | university | Public research university in New South Wales, Australia which offers degree programs across a wide spectrum of disciplines, as well as providing research facilities to scientists | is parent organization of: University of Wollongong Labs and Facilities | nlx_155520 | SCR_008322 | Wollongong University, UWo, Wollongong, University of Wollongong, UWol | 2025-04-19 06:44:18 | 4 | |||||||||
|
Aging Intervention Foundation Resource Report Resource Website |
Aging Intervention Foundation (RRID:SCR_008288) | funding resource | A 501(c)(3) non-profit organization that gives out grants created to develop new therapies to control and reverse the causes of aging, as well as treat and prevent the diseases of aging. The goal is to eventually control the processes of aging, reverse their effects, and stay younger longer and ultimately create indefinite youthful, happy and productive lifespan using innovative scientific methods that are under development today in biotech companies and research labs around the world. The foundation also offers education on what we can do now to stay younger, live longer and be happier while new therapies are being developed. | Aging | nif-0000-24032 | SCR_008288 | AIF | 2025-04-19 06:44:17 | 0 | ||||||||||
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Conical: The Computational Neuroscience Class Library Resource Report Resource Website |
Conical: The Computational Neuroscience Class Library (RRID:SCR_008318) | software resource | CONICAL is a C++ class library for building simulations common in computational neuroscience. Currently its focus is on compartmental modeling, with capabilities similar to GENESIS and NEURON. Future classes may support reaction-diffusion kinetics and more. A key feature of CONICAL is its cross-platform compatibility; it has been fully co-developed and tested under Unix, DOS, and Mac OS. Any C++ compiler which adheres to the emerging ANSI standard should be able to compile the CONICAL classes without modification. It is intended to encourage the rapid development of simulator software, especially on non-Unix systems where such software is sorely lacking. The present focus of the CONICAL library of C++ classes is compartmental modeling. A model neuron is built out of compartments, usually with a cylindrical shape. When small enough, these open-ended cylinders can approximate nearly any geometry, just as the stack of cylinders approximates a cone in the logo above. While any compartment has passive electrical properties (like a simple resistor-capacitor circuit), more interesting properties require the use of active ion channels whose conductance varies as a function of the time or membrane voltage. A standard Hodgkin-Huxley ion channel is included as one of the built-in CONICAL object types. Most of the voltage-gated ion channels in the literature can be directly implemented merely by setting the parameters of this class. For extensibility, this class is derived from several layers of more general classes. Connections between neurons can be implemented in several ways. For a gap junction (i.e., simple electrical connection), a passive current (or pair of currents, one in each direction) can be used. Synapses are more complex objects, but used in a similar fashion. The Alpha-function synapse is a very popular model of synaptic transmission, and is a basic CONICAL class. More complex (and realistic) synapses can be built using the Markov-model synapse. (A Markov model can be used on its own for other purposes as well.) In addition to classes directly related to neural modeling, CONICAL contains several other useful object types. These include a current injector, and a column-oriented output stream for storing data in table form. | c++, computational, diffusion, kinetic, modeling, neural, neuron, neuroscience, reaction, simulation, model, compartmental model |
is listed by: 3DVC has parent organization: University of California at San Diego; California; USA |
nif-0000-24684 | SCR_008318 | Conical | 2025-04-19 06:44:18 | 0 | |||||||||
|
Abgent Resource Report Resource Website 50+ mentions |
Abgent (RRID:SCR_008393) | commercial organization | Antibody supplier. | antibody, peptide, synthesis, protein, primary antibody, reagent, peptide synthesis, cell signaling, post-translational modification, stem cell, neuronal development, neurodegenerative disease, gene regulation, development, autophagy, apoptosis, stem cell, phosphorylation, cell function, gene, regulation, research, library, human, kinome, cdna clone, rnai, tissue, cell | is listed by: ScienceExchange | nif-0000-30051, SciEx_4353 | https://www.abcepta.com/ | SCR_008393 | Abgent Antibodies and Peptides, Abcepta | 2025-04-19 06:44:21 | 66 | ||||||||
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Institute of Neuroinformatics Resource Report Resource Website 1+ mentions |
Institute of Neuroinformatics (RRID:SCR_008331) | institution | The mission of the Institute is to discover the key principles by which brains work and to implement these in artificial systems that interact intelligently with the real world. The Institute of Neuroinformatics is built of many people covering a wide range of disciplines and research areas. The major research projects and areas are listed below. - Behavior and Cognition: At the Institute of Neuroinformatics researchers investigate in Behavior and Cognition on various levels, ranging from neuronal circuit models of learning and adaptation over psychophysical experiments for color constancy up to modeling complex behavioral tasks such as exploration and goal-directed navigation. - Computation in Neural Circuits: By examining the brains of cats, rats and monkeys, and by making simulations of the cortex, INI hopes to learn how this circuit performs such widely different tasks. This knowledge might lead to advances in how computers are designed, and will certainly lead to advances in the subtlety and power of medical neuroscience. - Neurotechnologies: INI aims to harness the principles of biological computation, which can be expected to have a major impact on the technology market as autonomous intelligence pervades equipment, vehicles, buildings, utilities and clothing. Sponsors: INI is supported by European Union (EU), Gerbert Ruf Stiftung, Neuroscience Center (ZNZ), Swiss Confederation (KTI), Swiss Federal Institute of Technology Zurich (ETH), Swiss National Science Foundation (SNF), University of Zurich (UZH), and VW Stiftung | adaptation, artificial system, autonomous, behavior, biological, brain, cat, circuit, cognition, color, computation, constancy, cortex, intelligence, learning, medical, model, monkey, neural, neuroinformatics, neuronal, neuroscience, neurotechnology, psychophysical, rat, researcher, simulation, technology | has parent organization: University of Zurich; Zurich; Switzerland | nif-0000-24788 | SCR_008331 | INI | 2025-04-19 06:44:19 | 5 | |||||||||
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Multiple-Path Particle Dosimetry Model Resource Report Resource Website 10+ mentions |
Multiple-Path Particle Dosimetry Model (RRID:SCR_001486) | MPPD | software resource | Computational model that can be used for estimating human and rat airway particle dosimetry. The model is applicable to risk assessment, research, and education. The MPPD model calculates the deposition and clearance of monodisperse and polydisperse aerosols in the respiratory tracts of rats and human adults and children (deposition only) for particles ranging in size from ultrafine (0.01 micrometers) to coarse (20 micrometers). The models are based on single-path and multiple-path methods for tracking air flow and calculating aerosol deposition in the lung. The single-path method calculates deposition in a typical path per airway generation, while the multiple-path method calculates particle deposition in all airways of the lung and provides lobar-specific and airway-specific information. Within each airway, deposition is calculated using theoretically derived efficiencies for deposition by diffusion, sedimentation, and impaction within the airway or airway bifurcation. Filtration of aerosols by the nose and mouth is determined using empirical efficiency functions. The MPPD model includes calculations of particle clearance in the lung following deposition. | model, computational model, particle dosimetry, risk assessment, adult human, child, aerosol, deposition, clearance, lung | is related to: The Hamner Institute for Health Sciences: BMDExpress and The multiple-path particle dosimetry | PMID:8566482 | Registration required | nlx_152744 | SCR_001486 | Multiple Path Particle Dosimetry Model | 2025-04-19 06:40:30 | 11 |
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