Tag: assay

Investigation Study Assay Tabular (ISA-Tab) describes the ISA Abstract Model reference implementation specified using the ISA-Tab format. ISA-Tab files are tab separated value (tsv) files, with specific labeled column structures. The ISA model consis ...

PubChem is organized as three linked databases within the NCBI's Entrez information retrieval system. These are PubChem Substance, PubChem Compound, and PubChem BioAssay. PubChem also provides a fast chemical structure similarity search tool. More in ...

The aim of MIQE is to provide authors, reviewers and editors with specifications for the minimum information that must be reported for a qPCR experiment in order to ensure its relevance, accuracy, correct interpretation and repeatability.

Using Simple Omnibus Format in Text (SOFT), researchers can readily upload and download data. The resource is text-based so can be compatible with simple spreadsheets and data applications. A SOFT file can simultaneously contain both tabulated data a ...

MetaboLights is a database for metabolomics studies, their raw experimental data and associated metadata. The database is cross-species and cross-technique and it covers metabolite structures and their reference spectra as well as their biological ro ...

The Ontology for Biomedical Investigations (OBI) is an ontology that provides terms with precisely defined meanings to describe all aspects of how investigations in the biological and medical domains are conducted. OBI fosters clear communication abo ...

The Experimental Factor Ontology provides a systematic description of many experimental variables available in EBI databases, and for external projects such as the NHGRI GWAS catalogue. It combines parts of several biological ontologies, such as anat ...

NeuroML is a model description language developed in XML (extensible Markup Language) that was created to facilitate data archiving, data and model exchange, database creation, and model publication in the neurosciences. One of the goals of the Neuro ...

LOINC is a common language (set of identifiers, names, and codes) for clinical and laboratory observations. LOINC is a catalog of measurements, including laboratory tests, clinical measures like vital signs and anthropomorphic measures, standardized ...

MIAPE attempts to define the minimum set of information about whole proteomics experiments that would be required by a public repository.

The BioAssay Ontology (BAO) describes chemical biology screening assays and their results including high-throughput screening (HTS) data for the purpose of categorizing assays and data analysis.

The BioSamples database aggregates sample information for reference samples (e.g. Coriell Cell lines) and samples for which data exist in one of the EBI's assay databases such as ArrayExpress, the European Nucleotide Archive or PRIDE. It provides lin ...

MIMIx is a community guideline advising the user on how to fully describe a molecular interaction experiment and which information it is important to capture. The document is designed as a compromise between the necessary depth of information to desc ...

nmrCV is a MSI-sanctioned NMR controlled vocabulary, created within the COSMOS EU project, to support the nmrML data standard for nuclear magnetic resonance data in metabolomics with standardized meaningful data descriptors. This CV is the successor ...

The Evidence and Conclusion Ontology (ECO) contains terms that describe types of evidence and assertion methods. ECO terms are used in the process of biocuration to capture the evidence that supports biological assertions (e.g. gene product X has fun ...

The NCBI BioSample database stores submitter-supplied descriptive information, or metadata, about the biological materials from which data stored in NCBI’s primary data archives are derived. NCBI’s archives host data from diverse types of samples fro ...

Minimum Information About an RNAi Experiment Tabular (MIARE) is a set of reporting guidelines that describes the minimum information that should be reported about an RNAi experiment to enable the unambiguous interpretation and reproduction of the res ...

Sharing of microarray data within the research community has been greatly facilitated by the development of the disclosure and communication standards MIAME and MAGE-ML by the FGED Society. However, the complexity of the MAGE-ML format has made its u ...

MIATA (Minimal Information About T cell Assays) enables an objective and thorough interpretation of published results from T cell assays. Due to the high similarity between T cell assays and NK cell assays the concept has been expanded to include the ...

These reporting guidelines were developed by the Committee on Best Practices in Data Analysis and Sharing (COBIDAS) of the Organization for Human Brain Mapping.

Minimum Information about a Cardiac Electrophysiology Experiment (MICEE) is a reporting standard developed by an international group of leading experimental teams comprising an explicit minimum set of information deemed necessary for reproduction and ...

The Experimental Conditions Ontology is designed to represent the conditions under which physiological and morphological measurements are made both in the clinic and in studies involving humans or model organisms.

MIAPAR is intended to be used as a guideline for experimentalists who wish to unambiguously describe protein affinity reagents and their protein targets (including but not limited to Ab/Ag interactions). It specifies the minimum amount of information ...

Minimum Information About an RNAi Experiment (MIARE) is a set of reporting guidelines that describes the minimum information that should be reported about an RNAi experiment to enable the unambiguous interpretation and reproduction of the results. MI ...

GelML is a data exchange format for describing the results of gel electrophoresis experiments. GelML is developed as a HUPO-PSI working group.

This module identifies the minimum information required to report the use of a mass spectrometer in a proteomics experiment, sufficient to support both the effective (re-)interpretation and (re-) assessment of the data and the potential reproduction ...

The Information Artifact Ontology (IAO) is an ontology of information entities, originally driven by work by the OBI digital entity and realizable information entity branch.

Please note: We cannot find an up-to-date website or official reporting guideline document for this resource. As such, we have marked it as Uncertain. Please contact us if you have any information on the current status of this resource.

This module identifies the minimum information required to report the use of protein and peptide identification and characterisation software to analyse the data produced by mass spectrometry experiments, sufficient to support both the effective inte ...

The minimum information about a biofilm experiment (MIABiE) initiative has arisen from the need to find an adequate and scientifically sound way to control the quality of the documentation accompanying the public deposition of biofilm-related data, p ...

The Minimum Information About a Cellular Assay (MIACA) was developed as an information guideline and a modular Cellular Assay Object Model (CA-OM) that is capable of covering the range of cellular assays possible and which is the basis for efficient ...

MIMPP is a reporting guideline for the minimum information that should be reported about a mouse phenotyping procedure to enable unambiguous interpretation and comparison of the data and to allow the data to be shared through communal resources.

This module identifies the minimum information required to report the use of quantification techniques in a proteomics experiment, sufficient to support both the effective interpretation and assessment of the data and the potential recreation of the ...

SigMol is a specialized repository of quorom sensing signaling molecules (QSSMs) in prokaryotes. SigMol harbors information on QSSMs pertaining to different quorum sensing signaling systems namely acylated homoserine lactones (AHLs), diketopiperazine ...

This module identifies guidelines for the minimum information to report about the use of n- dimensional gel electrophoresis in a proteomics experiment.

Reporting requirements for the evaluation of recombinant protein functionality – MIPFE version 0.1. Please note: We cannot find an up-to-date website for this resource. As such, we have marked it as Uncertain. Please contact us if you have any inform ...

This ontology is used to describe the experimental conditions within cognitive/behavioral experiments, primarily in humans. CogPO is a framework for the formal representation of the cognitive paradigms used in behavioral experiments, driven by cognit ...

This module identifies the minimum information required to report an informatics analysis performed with gel electrophoresis images, in a manner compliant with the aims as laid out in the ‘MIAPE Principles’ document.

MIAPE - Column Chromatography (MIAPE-CC) is one module of the Minimal Information About a Proteomics Experiment (MIAPE) documentation system. MIAPE is developed by the Proteomics Standards Initiative of the Human Proteome Organisation (HUPO-PSI). It ...

Functional genomics experiments present many challenges in data archiving, sharing and querying. As the size and complexity of data generated from such experiments grows, so does the requirement for standard data formats. To address these needs, the ...

“MIAPE – Capillary Electrophoresis” (MIAPE-CE) is one module of the Minimal Information About a Proteomics Experiment (MIAPE) documentation system. MIAPE is developed by the Proteomics Standards Initiative of the Human Proteome Organisation (HUPO-PSI ...

The Tox Biology Checklist was created to describe information that should be included with data derived from a biological study. The exact details of the checklist information depend on the study design and the nature of the subjects used in the stud ...

These are preliminary guidelines describing the Minimum Information About a Peptide-Array Experiment (MIAPepAE). Described is a checklist of data and meta-data that should accompany a peptide-array experiment. The guidelines are maintained by the res ...

The SRA data model contains the following objects: Study: information about the sequencing project Sample: information about the sequenced samples Experiment: information about the libraries, platform; associated with study, sample(s) and run(s) Run: ...

ISA-TAB-Nano specifies the format for representing and sharing information about nanomaterials, small molecules and biological specimens along with their assay characterization data (including metadata, and summary data) using spreadsheet or TAB-deli ...

This module represents the formalised opinion of the authors and the CARMEN consortium, which identifies the minimum information required to report the use of electrophysiology in a neuroscience study, for submission to the CARMEN system

Standards for “Minimum Information about a Animal Spinal Cord Injury Experiment” (MIASCI) facilitates bioinformatic efforts and allow investigators to more accurately replicate and extend studies.

Currently, there are more than 20 human cell information storage sites around the world. However, reproducibility and data exchange among different laboratories or cell information providers are usually inadequate or nonexistent because of the lack o ...

This ontology is used to model scientific investigation, especially Genome-Wide Association Studies (GWAS), to discover genetic susceptibility factors to disease, such as Diabetes. It models the genetic variants, polymorphisms, statistical measuremen ...

MINiML (MIAME Notation in Markup Language, pronounced 'minimal') is a data exchange format optimized for microarray gene expression data, as well as many other types of high-throughput molecular abundance data. MINiML assumes only very basic relation ...

STRENDA DB is a storage and search platform supported by the Beilstein-Institut that incorporates the STRENDA Guidelines in a user-friendly, web-based system. If you are an author who is preparing a manuscript containing functional enzymology data, S ...

The JERM provides a framework to describe SEEK assets and the relationships between assets and the experiments that created them. All assets are related to the scientists that created them and the projects they originate from, so the model captures p ...

The Chromium Epigenomics Toxicology (EpiCrDB) database contains a variety of epigenomics experimental assays relating to research on how Cr(VI) perturbs chromatin organization and dynamics. This data is used in reseach into how its toxicity may be at ...

CiteAb is the largest citation-ranked antibody search engine and provides a simple way to find antibodies that work. We use the number of citations as a transparent method to rank antibodies. Powerful filters allow a user to further hone a search bas ...

MicrO is an ontology of microbiological terms, including prokaryotic qualities and processes, material entities (such as cell components), chemical entities (such as microbiological culture media and medium ingredients), and assays. The ontology was ...

The Plant Experimental Assay Ontology (PEAO) was created to describe experimental procedures within plant research, regardless of the scientific questions that prompted the assays. This ontology models entities from three distinct realms (biological, ...

Minimal information for Chemosensitivity Assays (MICHA) is both a web tool to aid annotation of drug sensitivity screens and a guideline for defining the minimal information required to: capture critical drug sensitivity assay components, allow the F ...

CHMO, the chemical methods ontology, describes methods used to collect data in chemical experiments, such as mass spectrometry and electron microscopy; prepare and separate material for further analysis, such as sample ionisation, chromatography, and ...

FuGEFlow represents a collaborative effort to develop of flow cytometry experimental workflow description based on the FuGE model. The Functional Genomics Experiment data model (FuGE) describes common aspects of comprehensive, high-throughput experim ...

A structured controlled vocabulary of sample preparation, visualization and imaging methods used in biomedical research.

BenchSci is a free platform designed to help biomedical research scientists quickly and easily identify validated antibodies from publications. Using various filters including techniques, tissue, cell lines, and more, scientists can find out publishe ...

Investigation Study Assay JSON (ISA-JSON) describes the ISA Abstract Model reference implementation specified using the JavaScript Object Notation (JSON) format, a text format for serializing structured data. The ISA model consists of three core enti ...

The purpose of the Neurophysiology Data Translation Format (NDF) is to provide a means of sharing neurophysiology experimental data and derived data between services and tools developed within the CARMEN project. This document specifies the NDF. The ...

iSpyBio is an intelligent and unbiased search engine for Life scientists. It ranks reagents by the number of data such as publications, reviews, characterization images and tested applications. It displays over 500,000 reagents such as antibodies, pr ...