Dataset features

Specifications


Application: Gene expression microarray analysis
Number of samples: 14
Release date: Jul 22 2016
Last update date: Jul 26 2018
Access: Public
Diseases: Amyloidosis, Multiple Myeloma, Neoplasms, Pyruvate Carboxylase Deficiency Disease
Genes: CDH1, GLIPR1
Dataset link Phenotypic, transcriptomic and genomic characterization of clonal plasma cells in light chain amyloidosis [Gene expression profiling]

Experimental Protocol


A total of 22 patients with confirmed diagnosis of AL based on the presence of amyloid-related systemic syndrome, positive amyloid tissue staining with Congo red, and evidence of PC clonality were studied. Samples were collected after informed consent was given, in accordance with local ethical committee guidelines and the Helsinki Declaration. GEP was performed in 9/22 AL cases with adequate RNA extracted from FACS-purified clonal PCs according to patient-specific aberrant phenotypes, and compared to that of normal PCs from 5 healthy individuals (FACSAriaIIb, BDB; ≥95% purity). RNA was hybridized to the Human Gene 1.0 ST Array (Affymetrix, Santa Clara, CA, USA) and normalization was carried using the expression console (Affymetrix) with the RMA algorithm which includes background correction, normalization and calculation of expression values (log2). Differentially expressed genes between classes were identified using the Significant Analysis of Microarrays (SAM) algorithm (http://www-stat.standford.edu/-tibs/SAM), and significant genes were selected based on the lowest q-value (<10-5).

Repositories


GEO

GSE73040

ArrayExpress

E-GEOD-73040

BioProject

PRJNA296102

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Contact


Bruno Paiva