Similar studies for GEO DataSets (Select 664) - GEO DataSets

Warning: The NCBI web site requires JavaScript to function. more...

Links from GEO DataSets

Items: 20

Select item 6641.

mRNA splicing factor mutant at permissive and restrictive temperatures

Analysis of mutant defective in dU2AF50 (large subunit of pre-mRNA splicing factor U2AF). Mutant examined after growth at permissive (25°C) and restrictive (30°C) temperatures in reference to wild type.

Organism:: Drosophila melanogaster

Type:: Expression profiling by array, count, 2 genotype/variation, 2 temperature sets

Platform:: GPL72
Series:: GSE1345
12 Samples

Download data

DataSet

Accession:: GDS664

ID:: 664

Select item 2000013452.

Differential gene expression in S284Y flies

(Submitter supplied) RNA were extracted from 5 adult male and 5 adult female dU2AF50 wt and mutant flies grown at either the permisive (25C) or restrictive (30C) temperature for 4 days. Keywords: other

Organism:: Drosophila melanogaster

Type:: Expression profiling by array

Dataset:: GDS664
Platform:: GPL72
12 Samples

Download data

Series

Accession:: GSE1345

ID:: 200001345

Select item 2000013443.

Nucleo-cytoplasmic mRNA distribution

(Submitter supplied) Nuclear and cytoplasmic RNA were extracted by hypotonic cell lysis from D.-mel2 cell knock down by RNAi against dU2AF50 or with non-specific dsRNA. Keywords: other

Organism:: Drosophila melanogaster

Type:: Expression profiling by array

Dataset:: GDS667
Platform:: GPL72
12 Samples

Download data

Series

Accession:: GSE1344

ID:: 200001344

Select item 2000013424.

U2AF associated RNA

(Submitter supplied) Genome wide identification of the RNAs associated with the Drosophila large U2AF subunit Keywords: repeat sample

Organism:: Drosophila melanogaster

Type:: Expression profiling by array

Platform:: GPL1203
5 Samples

Download data

Series

Accession:: GSE1342

ID:: 200001342

Select item 6675.

mRNA splicing factor knock-down and nucleo-cytoplasmic mRNA distribution

Examination of cytoplasmic and nuclear mRNA distribution in D.mel2 cell line after RNAi knock-down of dU2AF50 (large subunit of pre-mRNA splicing factor U2AF). dU2AF50 knock-down analyzed in reference to non-specific RNAi knock-down.

Organism:: Drosophila melanogaster

Type:: Expression profiling by array, count, 2 other, 2 protocol sets

Platform:: GPL72
Series:: GSE1344
12 Samples

Download data

DataSet

Accession:: GDS667

ID:: 667

Select item 2000060226.

Immunoprecipitation of U2AF65 associated mRNAs

(Submitter supplied) U2AF65 is an essential splicing factor involved in the 3'splice site recognition dureing the first steps of spliceosome assembly. In addition, this protein has nucleocytoplasmic shuttling activity and the Drosophila homologue has been implicated in mRNA export. We have used microarray hybridization coupled to RNA immunoprecipitation from HeLa cell cytoplasmic extracts using anti-U2AF65 antibodies to identify mRNA molecules associated with the U2AF65 splicing factor Sample preparation methods (Gama-Carvalho et al, 2006, submitted) Suspension HeLa cells were grown in DMEM, 10% FCS, Pen/Strep and split 1:2 the day before harvesting. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL570
6 Samples

Download data: CEL

Series

Accession:: GSE6022

ID:: 200006022

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000060217.

Immunoprecipitation of PTB65 associated mRNAs

(Submitter supplied) PTB is multifunctional RNA binding protein reported to be involved in splicing, 3' -end processing, stability and translational regulation. Sample preparation methods (Gama-Carvalho et al, 2006, submitted) Suspension HeLa cells were grown in DMEM, 10% FCS, Pen/Strep and split 1:2 the day before harvesting. Post-nuclear cytoplasmic extracts were obtained as described (Herbert and Hecht 1999), using 5x107 cells/ml of lysis buffer. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL570
4 Samples

Download data: CEL

Series

Accession:: GSE6021

ID:: 200006021

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000715698.

Interactions of aCPs with Cytosine-rich Polypyrimidine Tracts Enhance Splicing of Cassette Exons

(Submitter supplied) Alternative splicing comprises a robust generator of mammalian transcriptome complexity. Splice site specification and activity are controlled by interactions of cis-acting determinants on a transcript with specific RNA binding proteins. A major subset of these interactions comprises interactions localized to the intronic U-rich polypyrimidine tract located immediately 5’ to the majority of splice acceptors. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL11154
6 Samples

Download data: TXT, XLSX

Series

Accession:: GSE71569

ID:: 200071569

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 2000001049.

total RNA from yra1-1 at 37C vs. Yra1 WT at 37C (yra1-1TS_v_Yra1WT)

(Submitter supplied) Comparison of cDNA from RNA of yra1-1 temperature-sensitive mutant to RNA from Yra1 wildtype strain both at the non-permissive temperature of 37C Keywords: repeat sample

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by array

Platform:: GPL220
6 Samples

Download data

Series

Accession:: GSE104

ID:: 200000104

Select item 20000010310.

total RNA from mex67-6 at 37C vs. Mex67 WT at 37C (mex67-5TS_v_Mex67WT)

(Submitter supplied) Comparison of cDNA from RNA of mex67-5 temperature-sensitive mutant to RNA from Mex67 wildtype strain both at the non-permissive temperature of 37C Keywords: repeat sample

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by array

Platform:: GPL220
6 Samples

Download data

Series

Accession:: GSE103

ID:: 200000103

Select item 20000010211.

zzYra1 co-IPed RNA vs. zzMex67 co-IPed RNA (zzYra1IP_v_zzMex67IP)

(Submitter supplied) Comparison of cDNA from RNA co-IPed with zzYra1 to cDNA from RNA co-IPed with zzMex67 Keywords: repeat sample

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by array

Platforms:: GPL221 GPL220
5 Samples

Download data

Series

Accession:: GSE102

ID:: 200000102

Select item 20000010112.

zzYra1 co-IPed RNA vs. Total RNA (zzYra1IP_v_TotalRNA)

(Submitter supplied) Comparison of cDNA from RNA IPed with zzYra1 to that from total RNA; resulting analysis gives Yra1 binding level relative to total abundance for each mRNA Keywords: repeat sample

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by array

Platforms:: GPL220 GPL221
5 Samples

Download data

Series

Accession:: GSE101

ID:: 200000101

Select item 20000010013.

zzMex67 co-IPed RNA vs. Total RNA (zzMex67IP_v_TotalRNA)

(Submitter supplied) Comparison of cDNA from RNA IPed with zzMex67 to that from total RNA; resulting analysis gives Mex67 binding level relative to total abundance for each mRNA Keywords: repeat sample

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by array

Platform:: GPL221
4 Samples

Download data

Series

Accession:: GSE100

ID:: 200000100

Select item 20000009914.

zzYra1 co-IPed RNA vs. zz co-IPed RNA (zzYra1IP_v_zzIP)

(Submitter supplied) Comparison of cDNA from RNA IPed with zzYra1 to that from RNA co-IPed with zz tag alone (control IP) Keywords: equivalent probe

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by array

Platforms:: GPL220 GPL221
5 Samples

Download data

Series

Accession:: GSE99

ID:: 200000099

Select item 20000009815.

zzMex67 co-IPed RNA vs. zz co-IPed RNA (zzMex67IP_v_zzIP)

(Submitter supplied) Comparison of cDNA from RNA IPed with zzMex67 to that from RNA co-IPed with zz tag alone (control IP) Keywords: repeat sample

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by array

Platforms:: GPL220 GPL221
4 Samples

Download data

Series

Accession:: GSE98

ID:: 200000098

Select item 20008684616.

Global Regulation of Alternative RNA Splicing by the SR-Rich Protein RBM39

(Submitter supplied) RBM39 is extensively involved in alternative splicing of RNA and helps regulate transcript levels. RBM39 may modulate alternative splicing similarly to U2AF65 by either directly binding to RNA or recruiting other splicing factors, such as U2AF65.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL11154
3 Samples

Download data: XLS

Series

Accession:: GSE86846

ID:: 200086846

Select item 20008362017.

Comprehensive Analysis of Nucleocytoplasmic Dynamics of mRNA in Drosophila cells

(Submitter supplied) Eukaryotic mRNAs undergo a cycle of transcription, nuclear export, and degradation. A major challenge is to obtain a global, quantitative view of these processes. Here we measured the genome-wide nucleocytoplasmic dynamics of mRNA in Drosophila cells by metabolic labeling in combination with cellular fractionation. By mathematical modeling of these data we determined rates of transcription, export and cytoplasmic decay for >5,000 genes. more...

Organism:: Drosophila melanogaster

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17275
24 Samples

Download data: TXT

Series

Accession:: GSE83620

ID:: 200083620

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20005587218.

Detection of circRNA in Drosophila Fly heads and S2 cells using RNA-seq with or without RNaseR tretment

(Submitter supplied) We determined circRNA abundance in fly Heads and S2 cells by generating and analyzing high-throughput RNA-sequencing libraries prepared from rRNA-depleted RNA. In order to determine whether the observed sequencing reads are due to bona fide circRNAs, we pre-treated the RNA with RNAse-R before the rRNA-depletion procedure. Indeed, most of the identified circRNAs were more enriched in comparison to the canonical mRNA isoforms following the RNAse-R treatment. more...

Organism:: Drosophila melanogaster

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13304
19 Samples

Download data: BED

Series

Accession:: GSE55872

ID:: 200055872

PubMed Similar studies SRA Run Selector

Select item 20013553719.

TPR Knockdown Frac-Seq

(Submitter supplied) How splicing regulates the nuclear export of mRNAs has been a source of much debate. While splicing has been shown to enhance nuclear export, it has remained unclear whether mRNAs generated from intronless genes use specific machinery to promote their export. Here we investigate the role of the major nuclear pore basket protein, TPR, in regulating mRNA and lncRNA nuclear export. We provide evidence that TPR is required for the nuclear export of mRNAs and lncRNAs that are generated from intronless or intron-poor genes. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL18573
27 Samples

Download data: TXT

Series

Accession:: GSE135537

ID:: 200135537

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 20004614920.

Transcriptome analysis during somatic cell reprogramming

(Submitter supplied) By combining deep sequencing with high-throughput quantitative RT-PCR, we reveal that somatic splicing profiles are reorganized to pluripotent splicing profiles during reprogramming from mouse embryonic fibroblasts (MEFs) to induced pluripotent stem (iPS) cells. The splicing pattern in pluripotent stem cells resembles that in testis, and the regulatory regions have specific characters in length and sequence. more...