Terminology Service < Semantic Lookup Platform

All terms in EFO

Label	Id	Description
in situ oligo	EFO_0005073	[A type of reporter which is created using in situ methods.]
aminosilane substrate coating	EFO_0005070	[An array substrate coating formed using aminosilane.]
polylysine substrate coating	EFO_0005071	[An array substrate coating formed using polylysine.]
spotted double stranded DNA reporter	EFO_0005076	[An array reporter formed from directly spotting double stranded DNA on to the array surface.]
label-free quantification	EFO_0030054	[A proteomic profiling method that uses mass spectrometry to quantify the relative amount of each protein across multiple biological samples without the need for any prior sample labelling. The assay is run separately on each sample and involves digestion of the proteome into peptides, liquid chromatography with mass spectrometry, and then quantification via spectral counting (i.e., the number of matching spectra from MS/MS) or integration of the intensities of each peptide's peaks.]
spotted protein reporter	EFO_0005077	[Type of array reporter which is formed from proteins being spotted directly on to the array surface.]
16S metagenomic sequencing	EFO_0030055	[An amplicon sequencing approach targeting the variable regions of the 16S ribosomal RNA gene. This is commonly used to quantify the abundance of different microbial taxa in an environmental sample, based on how frequently a taxa's specific rRNA sequence is observed in the sequencing data.]
spotted antibody reporter	EFO_0005074	[Type of array reporter which is formed from antibodies being spotted directly on to the array surface.]
nuclear RNA	EFO_0030052	[An RNA extract that is the output of an extraction process in which RNA molecules found in the nucleus, including mRNA precursors (pre-mRNA), are extracted.]
spotted colony reporter	EFO_0005075	[Type of array reporter formed from colonies (such as bacteria) are spotted directly on to the array surface.]
pseudo-bulk aggregation of single-cell expression data	EFO_0030053	[A processed matrix generation method that involves combining single-cell expression values from multiple cells in the same biological sample. Aggregation is typically performed by summation of count data for cells of the same (inferred) type. The aggregated expression profiles can then be used in the same manner as bulk RNA-seq data, especially in differential expression analyses.]
processed matrix generation	EFO_0030023	[A data transformation process involved in generating a processed matrix from sequence data and/or count matrices, including demultiplexing samples, quality control, normalization, data correction, and feature selection.]
transcription profiling by NanoString	EFO_0030058	[The NanoString nCounter gene expression system uses multiplexed probe hybridization to capture and count individual mRNA transcripts. Transcripts for each gene are targeted by a pair of gene-specific probes - a biotinylated capture probe to capture the transcript on a streptavidin-coated slide, and a reporter probe containing a color-coded pattern of fluorescent segments. Imaging of the slide can then identify each captured transcript.]
10x multiome	EFO_0030059	[Simultaneous profiling of gene expression and open chromatin from the same cell.]
single-cell RNA sequencing	EFO_0008913	[A protocol that provides the expression profiles of single cells via the isolation and barcoding of single cells and their RNA, reverse transcription, amplification, library generation and sequencing.]
spotted single stranded DNA PCR amplicon reporter	EFO_0005078	[An array reporter created by directly spotting a single stranded DNA PCR product on to the array surface.]
tandem mass spectrometry	EFO_0030056	[A mass spectrometry assay that combines two mass spectrometers together to analyze complex biomolecules such as peptides. The first instrument separates ionized molecules by their mass-to-charge ratio and filters for ions at a particular ratio. Once isolated, these ions are fragmented into smaller ions that are analyzed with the second instrument. The mass-charge filter and fragment spectra are then compared to a reference database to identify the original molecule.]
spotted single stranded oligo reporter	EFO_0005079	[An array reporter created by directly spotting single stranded oligonucleotides on to the array surface.]
Luminex multi-analyte profiling	EFO_0030057	[The Luminex technology is a bead-based assay for quantification of multiple analytes in a single sample. Beads are color-coded and coated with antibodies or oligonucleotide primers specific to different analytes. After incubation with the sample of interest, secondary antibodies/primers are added, and imaging of the beads can be used to quantify the abundance of each analyte.]
ras-related c3 botulinum toxin substrate 1 measurement	EFO_0020699	[The determination of the amount of ras-related c3 botulinum toxin substrate 1 in a sample]