Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

44 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Haploinsufficiency profiling by array of yeast heterozygous transposon disruption mutants grown in the presence of different synthetic compounds

ABSTRACT: A pool of 3633 tagged heterozygous transposon disruption mutants underwent haploinsufficiency profiling in the presence of different synthetic compounds to identify their cellular targets

ORGANISM(S): Saccharomyces cerevisiae

SUBMITTER: Lawrence Heisler

PROVIDER: E-MTAB-398 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Strain abundance assay of 3633 Candida albicans heterozygous transposon disruption mutants grown in YPD, SC, YNB or SLAD media

Project description:A pool of 3633 tagged heterozygous transposon disruption mutants underwent haploinsufficiency profiling in different media conditions (YPD, SC, YNB, and SLAD) to identify slow growing strains in these conditions.

2011-09-30 | E-TABM-1080 | biostudies-arrayexpress

DNA-targeted platinum-acridine anticancer agents

Project description:Yeast homozygous and essential heterozygous deletion mutants were screened against novel platinum-containing compounds

2012-08-28 | E-MTAB-1267 | biostudies-arrayexpress

Transcription profiling of Tripelennamine-treated sporulating yeast cells

Project description:This study newly identified Tripelennamine (TA) as an inhibitor of yeast meiosis and sporulation. To examine if and how exposure of sporulating yeast cells to TA influences the viability of the cells a homozygous deletion pool experiment was conducted.

2010-03-31 | E-MEXP-2535 | biostudies-arrayexpress

Evidence that TSC2 acts as a transcription factor and binds to and represses the promoter of Epiregulin

Project description:In order to identify the genes regulated by TSC2, gene expression profiling of two clones stably overexpressing TSC2 was performed. The gene expression profiles of two stable transfectant clones overexpressing the full-length TSC2 in KB cells were compared with the gene expression profile of a vector control clone carrying an empty plasmid.

2013-11-05 | E-GEOD-52061 | biostudies-arrayexpress

The P1 Transcription Factor Binding to the Genome

Project description:To determine which of the genes differentially expressed between P1-rr and P1-ww pericarps were immediate (direct) targets of P1, we conducted chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-Seq) using P1 polyclonal antibodies (alphaP1344) that recognize the non-conserved C-terminal region of P1 (Falcone Ferreyra et al., 2010), on pericarp chromatin. Comparison of pericarp chromatin inmunoprecipitated material P-rr_14DAP (P1 expressed) vs P-ww_14DAP (P1 not expressed) to determine P1 direct targets

2012-09-14 | E-GEOD-38587 | biostudies-arrayexpress

The maize pericarp transcriptome

Project description:P1 encodes an R2R3-MYB transcription factor responsible for the accumulation of insecticidal flavones in maize silks and red phlobaphene pigments in pericarps and other floral tissues, which contributed to making P1 an important visual marker since the dawn of modern genetics. We conducted RNA-Seq using pericarps at two different stages, 14 and 25 days after pollination (DAP). High-throughput sequencing using the Illumina platform resulted in the generation of ~20 million high quality reads, from which ~90% aligned to the recently completed maize genome sequence corresponding to ~5 million reads for each one of the four samples. Examination of two different RNA samples from two different stages of maize pericarp tissues.

2012-09-14 | E-GEOD-38413 | biostudies-arrayexpress

The maize silks transcriptome

Project description:P1 encodes an R2R3-MYB transcription factor responsible for the accumulation of insecticidal flavones in maize silks and red phlobaphene pigments in pericarps and other floral tissues, which contributed to making P1 an important visual marker since the dawn of modern genetics. We conducted RNA-Seq using from maize silks obtained at 2-3 days after emergence. High-throughput sequencing using the Illumina platform resulted in the generation of ~14 million high quality reads, corresponding to ~7 million reads for each sample, from which 76% aligned to the maize genome. Examination of two different RNA samples from maize silks obtained at 2-3 days after emergence

2012-09-14 | E-GEOD-38414 | biostudies-arrayexpress

Human esophageal squamous cell carcinoma cell lines with downregulated PTTG1

Project description:We conducted a comprehensive genome-wide interrogation to identify gene targets regulated by PTTG1 using a bead-array platform. The raw data and normalized logarithmic data were included in this subset. Keywords: siRNA, esophageal cells HSA/c and KYSE140 cells were transfected with three siRNA oligos (NTC, P1, P2) separately or without oligos (LF+) at day 0 and harvested at day 3. Total RNAs were extracted by the RNeasy kit (Qiagen) from the eight samples. After the RNA quality measurement by the Bioanalyzer 2100 (Agilent Technologies, Santa Clara, CA), each RNA sample (100 ng) was amplified with the Illumina TotalPrep RNA Amplification kit (Ambion, Austin, TX), hybridized with the Illumina Human RefSeq8 version 2 BeadChip with 20,589 transcript probes comprised of optimized 50 mer-oligonucleotides (Illumina, San Diego, CA), washed, and stained with Cy3-streptavidin (GE Healthcare) as per the manufacturesâ instructions. The arrays were scanned with the Illumina Beadarray Reader confocal scanner (Illumina) and the data were processed using the Illumina BeadStudio software (Illumina). The data were subjected to intensity-dependent normalization, and differentially expressed genes by PTTG1 downregulation were identified by the Significance Analysis of Microarrays (SAM) program.

2010-06-10 | E-GEOD-7447 | biostudies-arrayexpress

Monitoring of functional gene responses to biostimulation from TCE-contaminated sites using a functional microarray

Project description:This SuperSeries is composed of the following subset Series: GSE28606: Monitoring of functional gene responses to ERD (enhanced reductive dechlorination) from four TCE-contaminated sites GSE28608: Monitoring of functional gene responses to biostimulation from a TCE-contaminated site Refer to individual Series

2012-04-02 | E-GEOD-28609 | biostudies-arrayexpress

Monitoring of functional gene responses to biostimulation from a TCE-contaminated site

Project description:A functional microarray targeting 24 genes involved in chlorinated solvent biodegradation pathways has been developed and used to monitor the gene expression in a contaminated site (site B) under ERD (enhanced reductive dechlorination) treatment. The microarray format provided by NimbleGen and used in this study is 12x135K. 4 M-BM-5g of labelled antisense mRNA from 3 groundwater samples were hybridized on the microarray. A 3-chip study was performed, each corresponding to hybridization with 4 M-BM-5g of labelled antisense mRNA retrieved from a monitoring well of a contaminated site (site B). Each probe (760nt) on the microarray was synthesized in eight replicates, and a total of 5,707 random probes was used to determine the background noise. Groundwater samples were collected from a contaminated site (site B) from three monitoring wells (P1, P2 and P3). P1: well located upstream to the contamination source. P2: well in the contamination source. P3 : well located downstream to the contamination source.

2012-04-02 | E-GEOD-28608 | 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