Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA-seq comparison: before/after MARIS protocol and library construction technique test

ABSTRACT: The aim of this experiment was to determine the amount of RNA-seq signal degradation that results from MARIS and to test how well 4 different RNA-seq library construction techniques perform on partially degraded RNA.

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Homo sapiens

SUBMITTER: Doug Melton

PROVIDER: E-MTAB-3424 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

RNA-seq of Ins+, Ucn3+/- cell populations within developmental mouse islets using MARIS

Project description:The aim of this experiment was to observe the transcriptional profile of individual populations of cells in mouse islets throughout development. MARIS was used to isolate Ins+ islet cells at E18.5 and P13, and further separate Ucn3- and Ucn3+ populations at the transition point P4 and P5.

2015-03-17 | E-MTAB-3418 | biostudies-arrayexpress

RNA-seq of Ins+ cells in human differentiation protocol across lines and isolated from human islets

Project description:The aim of this experiment was to observe the transcriptional profile of Ins+ cells in human cadaveric islets and at the terminal stage of our in vitro beta-cell differentiation protocol across both the Hues8 and H1 cell lines. One polyhormonal sample (Ins+/Gcg+) was also sorted for additional comparison.

2015-03-20 | E-MTAB-3429 | biostudies-arrayexpress

RNA-seq of Pdx1+ mouse Islet during development

Project description:The aim of this experiment was to observe the transcriptional profile of mouse islets during development (at timepoints E18.5, P10, Adult). RNA-seq was performed on the same RNA that was used for an earlier microarray. No MARIS sorting.

2015-03-16 | E-MTAB-3417 | biostudies-arrayexpress

MARIS: Method for Analyzing RNA following Intracellular Sorting [array]

2014-01-13 | GSE53941 | GEO

MARIS: Method for Analyzing RNA following Intracellular Sorting [RNA-seq]

2014-01-17 | GSE54178 | GEO

MARIS: Method for Analyzing RNA following Intracellular Sorting [array]

Project description:We've developed a new Method to Analyze RNA following Intracellular Sorting (MARIS) allowing us to carry out gene expression studies on cells sorted based on intracellular immunoflourescence. The purpose of this study is to determine the degree of bias that MARIS introduces on gene expression. We report Illumina microarray gene expression data from human embryonic stem cells differentiated to a stage in which insulin-expressing cells are present. Gene expression data using RNA isolated from live cells is compared to gene expression data using RNA isolated from MARIS processed cells (fixed, permeabilized, antibody stained and mock sorted) to determine the degree of correlation in gene expression between these two biologically identical samples. Human embryonic stem cells are differentiated to a stage in which insulin-expressing cells are present and split into two biologically identical samples. RNA is immediately isolated from one sample using the RNAeasy protocol (live sample). RNA is isolated from the second sample following MARIS (processed sample) with all cells collected after the sort in order to keep the cell type composition between the live and processed samples the same.

2014-01-13 | E-GEOD-53941 | biostudies-arrayexpress

MARIS: Method for Analyzing RNA following Intracellular Sorting [RNA-seq]

Project description:We've developed a new Method to Analyze RNA following Intracellular Sorting (MARIS) allowing us to carry out gene expression studies on cells sorted based on intracellular immunoflourescence. The purpose of this study is to determine the degree of bias that MARIS introduces on gene expression. We report RNA-seq gene expression data from human embryonic stem cells differentiated to a stage in which insulin-expressing cells are present. Gene expression data using RNA isolated from live cells is compared to gene expression data using RNA isolated from MARIS processed cells (fixed, permeabilized, antibody stained and mock sorted) to determine the degree of correlation in gene expression between these two biologically identical samples. Human embryonic stem cells are differentiated to a stage in which insulin-expressing cells are present and split into two biologically identical samples. RNA is immediately isolated from one sample using the RNeasy protocol (live sample). RNA is isolated from the second sample following MARIS (processed sample) with all cells collected after the sort in order to keep the cell type composition between the live and processed samples the same.

2014-01-17 | E-GEOD-54178 | biostudies-arrayexpress