GEO series

miRQC data for NanoString nCounter miRNA Expression Assays.

GSE49600 Homo sapiens (human) Non-coding RNA profiling 16 samples Submitted 2013/12/30 Platform GPL17537

At a glance

Non-coding RNA profiling · human · 16 samples

What it is: Non-coding RNA profilingLevels of RNAs that do not code for proteins, such as miRNA or lncRNA.
Organism: Homo sapiens (human)
Samples: 16 samples
Data you can get: A processed expression table (series matrix) and the array files, from NCBI.

Summary (written by the submitters)

nCounter miRNA Expression Assay data for all profiled miRQC samples prepared by the miRQC Consortium. In this study, we systematically compared 12 commercially available miRNA expression platforms by measuring an identical set of standardized positive and negative control samples, including human universal reference RNA, human brain RNA and titrations thereof, human serum samples, and synthetic spikes from miRNA family members with varying homology.

Read the full summary ↓

We developed novel and robust quality metrics to objectively assess platform performance of very different technologies such as small RNA sequencing, RT-qPCR and (microarray) hybridization. We assessed reproducibility, sensitivity, accuracy, specificity, and concordance of differential expression.

This dataset

Open GSE49600 in finder → Find more human datasets →

Download · which file do I need?

Direct links to NCBI, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.

1 · Just have a look

Processed table

The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need.

All supplementary files ↗

3 · The original raw files

Whole study · RAW.tar

Everything the authors deposited as one archive (GSE49600_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.

Whole study · RAW.tar ↓

Also filed as BioProject PRJNA214422. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 24973947) ↗

Samples in this study

The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.

+ 16 more — browse all 16 samples with per-sample file links →

Datasets on a similar topic

GSE55794 Nanostring nCounter human miRNA assay (v1) of eosinophilic esophagitis 11 samples shares nanostring, ncounter, mirna
GSE65819 Whole genome characterisation of chemoresistant ovarian cancer [NanoString miRNA] 121 samples shares nanostring, mirna
GSE39643 NanoString miRNA profiling of peripheral blood sorted CD14+CD16- monocytes from amyotrophic lateral sclerosis, multiple sclerosis and healthy control subjects 24 samples shares nanostring, mirna
GSE39642 NanoString nCounter immune-related gene expression in blood sorted CD14+CD16- monocytes from sALS, fALS and HC subjects 24 samples shares nanostring, ncounter
GSE76004 A 17-Gene Stemness Score for Rapid Identification of High-Risk AML Patients [NanoString] 307 samples shares nanostring
GSE146585 Functional genomics assays, including ChIP-seq, ATAC-seq, RNA-seq, GRO-seq, and in situ Hi-C, in the context of replicative senescence 223 samples shares assays
GSE292777 Incorporating Metabolic Competence into High-Throughput Profiling Assays 192 samples shares assays
GSE255174 The spatial transcriptomic landscape of fibrosing ILDs [Nanostring] 179 samples shares nanostring

Search all human datasets in GEO →

Share this dataset

Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.