assay
The technology used to generate the data in this file. For multimodal datasets with concomitant profiling of biospecimen select all assays that apply. e.g., the GEX files from a CITE-seq experiment should be labeled with both ‘scRNASeq’ and ‘CITESeq’.
Valid value descriptions created by ChatGPT 4o
| Valid Values | Description | Source |
|---|---|---|
| ASAPSeq | ATAC with Select Antigen Profiling by sequencing. A multimodal high-throughput single-cell method that simultaneously measures protein levels and chromatin accessibility. | General knowledge |
| CE-MS | Capillary Electrophoresis-Mass Spectrometry. An analytical technique combining capillary electrophoresis with mass spectrometry to separate and identify molecules, often used in proteomics and metabolomics. | General knowledge |
| CITESeq | Cellular Indexing of Transcriptomes and Epitopes by Sequencing. A method that enables simultaneous measurement of protein and RNA expression in single cells by using oligonucleotide-labeled antibodies. | Wikipedia |
| CosMX | A spatial molecular imaging platform that provides high-plex in situ analysis at cellular and subcellular resolution, enabling rapid quantification and visualization of RNA and protein analytes in tissue samples. | NanoString |
| CyTOF | Cytometry by Time-Of-Flight. A mass cytometry technique that uses metal-tagged antibodies to detect multiple parameters in single cells, allowing for high-dimensional analysis of cell populations. | Wikipedia |
| GenePS SeqFISH | ||
| H&E | Hematoxylin and Eosin Staining. A widely used staining technique in histology to distinguish between different tissue structures by staining nuclei blue (hematoxylin) and cytoplasm and extracellular matrix pink (eosin). | General knowledge |
| LC-MS/MS | Liquid Chromatography-Tandem Mass Spectrometry. An analytical technique combining liquid chromatography with tandem mass spectrometry to separate and identify compounds in complex mixtures, commonly used in proteomics and metabolomics. | General knowledge |
| NULISA | ||
| Olink Explore HT | ||
| Olink Flex | ||
| Olink Focus | ||
| Olink Reveal | ||
| Olink Target 48 | ||
| Olink Target 96 | ||
| RNASeq | A next-generation sequencing technique used to analyze the quantity and sequences of RNA in a sample, providing insights into gene expression and transcriptome profiling. | General knowledge |
| SNP array | ||
| SomaScan | A proteomics platform that uses modified DNA aptamers to measure protein concentrations in biological samples, enabling large-scale protein biomarker discovery. | General knowledge |
| VDJSeq | A sequencing method focused on profiling the variable (V), diversity (D), and joining (J) gene segments of immune receptors, providing insights into immune diversity and clonality. | General knowledge |
| Visium | ||
| WES | Whole Exome Sequencing. A genomic technique for sequencing all the protein-coding regions (exons) of genes in a genome, used to identify genetic variants associated with diseases. | General knowledge |
| WGS | Whole Genome Sequencing. A comprehensive method for sequencing the entire DNA content of an organism's genome, providing detailed information on genetic variations. | General knowledge |
| Xenium | A spatial transcriptomics platform that enables high-resolution mapping of gene expression within tissue sections, providing insights into spatial gene activity. | General knowledge |
| feature barcode sequencing | A method that allows for the simultaneous measurement of multiple modalities, such as gene expression and protein levels, in single cells by using barcoded antibodies or other markers. | General knowledge |
| flow cytometry | A technology used to analyze the physical and chemical characteristics of cells or particles as they flow in a fluid stream through a beam of light, enabling multiparametric analysis of cell populations. | General knowledge |
| imaging mass cytometry | A technique that combines mass spectrometry with imaging to analyze multiple protein expressions in tissue sections at subcellular resolution, providing spatial and quantitative data. | Springer |
| imaging mass spectrometry | An analytical technique that combines imaging and mass spectrometry to visualize the spatial distribution of molecules, such as metabolites and proteins, within biological samples. | General knowledge |
| kiloplex | ||
| multiplexed ELISA | Multiplexed Enzyme-Linked Immunosorbent Assay. An assay technique that allows for the simultaneous detection and quantification of multiple analytes (e.g., proteins, antibodies) in a single sample, increasing throughput and efficiency. | General knowledge |
| scRNASeq | Single-cell RNA-sequencing. A technique that profiles gene expression at the single-cell level, providing insights into cellular heterogeneity and function within complex tissues. | General knowledge |
| scVDJSeq | A method that sequences the variable regions of immune receptor genes in single cells, enabling analysis of immune repertoire diversity and clonality. | General knowledge |
| serial IHC | ||
| snATACSeq | Single-nucleus Assay for Transposase-Accessible Chromatin using Sequencing. A method that profiles chromatin accessibility in isolated nuclei, providing insights into gene regulatory elements and epigenetic landscapes at single-cell resolution. | General knowledge |
| snRNASeq | Single-nucleus RNA Sequencing. A technique that profiles gene expression in isolated nuclei from tissues, useful for studying cells that are difficult to dissociate or in preserved samples. | General knowledge |