Terminology Service < Semantic Lookup Platform

All terms in EFO

Label	Id	Description
10x scATAC-seq	EFO_0030007	[A single cell ATAC-seq method for profiling of chromatin accessibility. For library construction, single cells or single nuclei are isolated into droplets using 10x Chromium technnolgy.]
CITE-seq (cell surface protein profiling)	EFO_0030008	[The use of CITE-seq technology with the purpose of quantifying cell surface protein expression in addition to transcriptomic readout in single cells.]
cervix epithelium	UBERON_0004801	[An epithelium that is part of a uterine cervix [Automatically generated definition].]
fallopian tube	UBERON_0003889	[Initial section of the oviduct through which the ova pass from the ovary to the uterus.]
spatial transcriptomics	EFO_0008994	[assay that allows visualization and quantitative analysis of the transcriptome with spatial resolution in individual tissue sections]
immune sequencing	EFO_0030006	[A sequencing assays that collects a multitude of genetic sequences for B Cell Receptors (BCRs) and T Cell Receptors (TCRs) within a tissue (these loci show large amounts of somatic mutations).]
Capture-C	EFO_0007691	[Capture-C combines 3C and next-gen sequencing with oligonucleotide capture technology (OCT). OCT allows for hundreds of regions of interest to be isolated from a sample using specially designed RNA in solution. In Capture-C, a standard 3C experiment is performed; however the 3C ligated fragments are sonicated at the end. This allows the OCT protocol to enrich for the selected regions of interest. These enriched fragments are then sequenced. By performing an OCT, the cost and scale of the sequencing is greatly reduced, allowing many more samples to be processed, hence higher-throughput and improves the genomic resolution]
CITE-seq (sample multiplexing)	EFO_0030009	[The use of CITE-seq technology with the purpose of multiplexing single-cell samples from different sources.]
cell hashing	EFO_0030077	[A single cell library construction process that involves labelling cells with sample-specific oligonucleotides, typically through antibody- or lipid-based reagents, such that cells from distinct samples can be pooled together for single-cell sequencing. This multiplexed approach increases throughput, eliminates batch effects, and enables detection of multiplets.]
Danio rerio larval stage	EFO_0007695	[Zebrafish have the ability to regenerate their fins, skin, heart, lateral line hair cells, and, during their larval stages, brain.]
larval stage	UBERON_0000069	[A distinct juvenile stage many animals undergo before metamorphosis into adults. Animals with indirect development such as insects, amphibians, or cnidarians typically have a larval phase of their life cycle.]
10x feature profiling	EFO_0030010	[10x feature barcode technology is a method for adding extra channels of information to cells by running single-cell gene expression in parallel with other assays. This is done by generating additional sequencing libraries within the same droplet containing a single cell. The readout of these libraries are known oligonucleotides that are coupled to cell surface proteins antibodies or sgRNAs.]
Hereditary cerebral hemorrhage with amyloidosis, Icelandic type	Orphanet_100008	[Hereditary cerebral hemorrhage with amyloidosis (HCHWA), Icelandic type is a form of HCHWA (see this term) characterized by an age of onset of 20-30 years, systemic amyloidosis and recurrent lobar intracerebral hemorrhages.]
RIP	EFO_0005033	[RNA Immunoprecipitation (RIP) is an experimental process used to investigate the interaction between proteins and RNA in the cell via the immunoprecipitation with an antibody that targets the protein of interest. By isolating the protein, the RNA will also be isolated as it is bound to the protein. The purified RNA-protein complexes can be separated by performing an RNA extraction and the identity of the RNA can be determined by cDNA sequencing or RT-PCR.]
10x feature barcode (cell surface protein profiling)	EFO_0030011	[The use of 10x Genomics feature barcode technology with the purpose of quantifying cell surface protein expression in addition to transcriptomic readout in single cells.]
input DNA	EFO_0005031	[Label for the immunoprecipitate when control assays are used for ChIP-seq experiments. Means that non-ChIP genomic DNA has been used to identify and adjust for sequencing biases.]
5C	EFO_0007692	[5C stands for "Chromosome conformation capture carbon copy". It is an extension of the original 3C technique that studies 3-dimensional organisation and interaction of chromatin in a cell. It detects interactions among all loci by ligating universal primers to all fragments. As a result, the whole genome is covered, albeit at a relatively low coverage. The 5C technique overcomes the junctional problems at the intramolecular ligation step and is useful for constructing complex interactions of specific loci of interest. ]
eye movement measurement	EFO_0007699	[quantification of some aspect of eye movement]
GBA carrier status	EFO_0007698	[quantification of the presence or absence of a mutation in the gene for Glucocerebrosidase (GBA) in an individual]
aortic root size	EFO_0005037	[The aortic root size is the size of the part of the ascending aorta beginning at the aortic annulus and extending to the sinotubular junction]