Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

41 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNAi targeting HnRNPH in Tbrucei

ABSTRACT: Cells with inducible RNAi were cultured with or without tetracycline for 3 days. The original cells are published as PMID: 23666624, and were examined using microarrays. These are new RNASeq data.

INSTRUMENT(S): NextSeq 550

ORGANISM(S): Trypanosoma brucei brucei

SUBMITTER: Christine Clayton

PROVIDER: E-MTAB-11312 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

RNAi of TbNMD3 in procyclic form Trypanosoma brucei lines

Project description:A procyclic form Trypansome brucei RNAi line (PTT parental line, transfected with pALC14 incorporating a TbNMD3 gene fragment) capable of inducing depletion of TbNMD3 was analysed for mRNA expression by RNAseq Cells were grown for 72 hours in culture; RNAi was induced in cells by the addition of 1 microgram/ml of tetracycline

2015-04-28 | E-GEOD-67246 | biostudies-arrayexpress

Effect of ZC3H28 depletion (RNAi) in Trypanosoma brucei bloodstream forms

Project description:Bloodstream-form trypanosomes with inducible RNAi targeting ZC3H28 were incubated with the tetracycline inducer for 10h, cells without tetracycline were used as controls. This experiment was done in triplicates. In another similar experiment, bloodstream-form trypanosomes with inducible RNAi targeting ZC3H28 were incubated with the tetracycline inducer for 14h, 16h, and 24h. Cells without tetracycline (named ''no tet'' or ''0h'') were used as controls. This experiment was done in duplicates.

2021-07-31 | E-MTAB-10751 | biostudies-arrayexpress

RNAseq of Trypanosoma brucei 427 bloodstream forms after depleting RBSR2 using RNAi

Project description:RBSR2-TAP expressing cells were transfected with RNAi targeting RBSR2. 3 independent clones were used and RNAi was induced for 24 hours with 100ng/ml tetracycline. Cell lines expressing RBSR2-CTAP with no RNAi construct were used as controls. These are actually paired-end reads, file names ending _1 are one strand and _2 are the other strand.

2022-04-29 | E-MTAB-11648 | biostudies-arrayexpress

Effect of CFB2 depletion in Trypanosoma brucei

Project description:Bloodstream-form trypanosomes with inducible RNAi targeting CFB2 were incubated with the tetracycline inducer for 9h, or were untreated. Wild-type cells were also included as extra controls.

2020-11-01 | E-MTAB-9700 | biostudies-arrayexpress

RNAseq of Trypanosoma brucei 427 bloodstream forms after depleting RBSR1 using RNAi.

Project description:RBSR1-CTAP expressing cells were transfected with RNAi targeting RBSR1. 3 independent clones were used and RNAi was induced for 24 hours with 100ng/ml tetracycline. PolyA enriched samples are paired-end reads, file names ending _1 are one strand and _2 are the other strand. rRNA depleted sample are single end reads.

2022-04-29 | E-MTAB-11627 | biostudies-arrayexpress

RNAi knock-down of VSG in T. brucei for 1 or 3 days

Project description:As an additional strategy for investigating T. brucei transcriptome responsiveness, the mRNA of a highly important protein, the variant surface glycoprotein (VSG) the major surface protein in the bloodstream stage, was suppressed with RNAi. VSG RNAi results in arrest of cell cycle progression in the bloodstream stage. In addition, the mRNA of a highly important protein for endocytosis, the clathrin heavy chain (CLH), was suppressed with RNAi. CLH knockdown leads to a complete block to endocytosis. We hypothesized that if trypanosomes were able to sense alterations in trafficking and respond to these changes, then depletion of these ORFs by RNAi would be expected to elicit a response at the transcriptome level. part 1: 2 biological replicates of SMB cells transfected with the VSG- RNAi vector grown under normal conditions (non-induced), and 2 replicates of the same cells treated with 1 ug/ml tetracycline (induced) for 24hr, as well as dye swaps were used. part 2: 2 biological replicates of SMB cells transfected with the VSG- RNAi vector grown under normal conditions (non-induced), and 2 replicates of the same cells treated with 1 ug/ml tetracycline (induced) for 3 days, as well as dye swaps were used. part 3: 3 biological replicates of SMB cells transfected with the CLH- RNAi vector grown under normal conditions (non-induced), and 3 replicates of the same cells treated with 1 ug/ml tetracycline (induced), as well as dye swaps were used.

2008-06-26 | E-MEXP-1528 | biostudies-arrayexpress

RNAi targeting ZC3H20 in differentiating EATRO1125 Trypanosoma brucei

Project description:RNAi was induced for 24h at the same tie as differentiation was induced.

2019-06-02 | E-MTAB-7995 | biostudies-arrayexpress

Gene expression profiling of the effect of elevated TRIB3 expression on the transcriptional response to glucose deprivation

Project description:Gene expression profiling of HEK293-derived cell lines that are stably transfected with either a tetracycline-inducible TRIB3 expression construct (TRIB3-293 cells), tetracycline-inducible ATF4 expression construct (ATF4-293 cells) or the corresponding empty vector (Vector-293 cells). Samples from tetracycline-treated and tetracycline-untreated cell cultures were collected after a 24-hour (TRIB3-293 cells, Vector-293) or 4-hour (ATF4-293) incubation in growth medium either with or without glucose.

2016-02-09 | E-MTAB-3318 | biostudies-arrayexpress

ZC3H5 RNAi RNAseq

Project description:ZC3H5 RNAi RNAseq

| PRJEB38366 | ENA

Expression data from inducible ES stable cell lines

Project description:In order to identify the effects of the induction of the gene of interest on the mouse ES transcriptome, we performed Affymetrix Gene-Chip hybridization experiments for the different inducible cell lines Transcriptome analysis of the inducible transgenic mouse ES cell lines For the analysis on the different inducible cell lines, total RNA was extracted from three biological replicates grown in medium deprived of Tetracycline for 17 and 24 hours; RNA extracted from un-induced clones was used as control. Total RNA extracted from parental cell line EBRTcH3 (EB3) was used as additional control.

2012-12-03 | E-GEOD-32015 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data