title: Genometry L1000™ Expression Profiling
status: Public on Aug 22 2018
contact.city: Cambridge
contact.first: Justin
contact.last: Lamb
contact.state: MA
contact.address: 37 Spinelli Place
contact.country: USA
contact.institute: Genometry, Inc.
organism: Homo sapiens
description: L1000™ Expression Profiling is a high-throughput whole-genome gene-expression profiling assay based on the direct measurement of a reduced representation of the transcriptome and computational inference of the portion of the transcriptome not explicitly measured. The number of 'landmark' transcripts whose abundance is measured directly is nine hundred seventy eight (978). Eighty (80) additional invariant transcripts are also explicitly measured to enable scaling and normalization. Measurements of transcript abundance are made from crude cell lysates or purified total RNA in 384-well plate format with a combination of ligation-mediated amplification, optically-addressed microspheres, and flow cytometry. The inference model is trained on tens-of-thousands of public Affymetrix® GeneChip® gene-expression profiles. The resulting data are therefore denominated in the 22,268 (non-internal-control) features from the HG-U133A microarray. Landmark values are log-transformed, intra-sample scaled (against the invariant features), and intra-batch quantile normalized before the inference model is applied. A flag indicates whether a feature is measured ("LM") or inferred ("INF").
manufacture_protocol: amino-modified oligonucleotides are covalently attached to Luminex® MagPlex® Microspheres