Cell biology

ISA-Tab

The Investigation/Study/Assay (ISA) tab-delimited (TAB) format is a general purpose framework with which to collect and communicate complex metadata (i.e. sample characteristics, technologies used, type of measurements made) from 'omics-based' experiments employing a combination of technologies.

Created by core developers from the University of Oxford, ISA-TAB v1.0 was released in November 2008.

MIBBI (Minimum Information for Biological and Biomedical Investigations)

A common portal to a group of nearly 40 checklists of Minimum Information for various biological disciplines. The MIBBI Foundry is developing a cross-analysis of these guidelines to create an intercompatible, extensible community of standards.

The concept was realized initially through the joint efforts of the Proteomics Standards Initiative, the Genomic Standards Consortium and the MGED RSBI Working Groups. The latest project to register with MIBBI is the MIABie guidelines for reporting biofilm research, as of January 2012.

Minimum Information about any (x) Sequence (MIxS)

MIxS currently consists of three separate checklists; MIGS for genomes, MIMS for metagenomes, and MIMARKS for marker genes. To create a single entry point to all minimum information checklists from the GSC and to the environmental packages, we created an overarching framework, the MIxS standard (publication in Nature Biotechnology). MIxS includes the technology-specific checklists from the previous MIGS and MIMS standards, provides a way of introducing additional checklists such as MIMARKS, and also allows annotation of sample data using environmental packages.

OME-TIFF (Open Microscopy Environment TIFF)

A specification of how to embed OME-XML metadata within a TIFF or BigTIFF image file.

OME-XML (Open Microscopy Environment XML)

OME-XML is a vendor-neutral file format for biological image data, with an emphasis on metadata supporting light microscopy. It can be used as a data file format in its own right, or as a way of encoding metadata within a TIFF or BigTIFF file (for which purpose there is the OME-TIFF specification).

The standard is maintained by the Open Microscopy Environment Consortium, and was last updated in June 2012.

REMBI (Recommended Metadata for Biological Images)

Recommended Metadata for Biological Images (REMBI) provides guidelines for metadata for biological images to enable the FAIR sharing of scientific data. REMBI is the result of the bioimaging community coming together to develop metadata standards that describe the imaging data itself, together with supporting metadata such as those describing the biological study and sample.

SNRNASM ISA-Tab

An ISA-Tab-based standard for reporting the results of single nucleotide resolution nucleic acid structure mapping experiments.