Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Transcription profiling of S. cerevisiae single transcription factor deletions

ABSTRACT: Study expression effects of single transcription factor deletions.

ORGANISM(S): Saccharomyces cerevisiae

SUBMITTER: H. Craig Mak

PROVIDER: E-MEXP-351 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Publications

Validation and refinement of gene-regulatory pathways on a network of physical interactions.

Yeang Chen-Hsiang CH Mak H Craig HC McCuine Scott S Workman Christopher C Jaakkola Tommi T Ideker Trey T

Genome biology 20050701 7

As genome-scale measurements lead to increasingly complex models of gene regulation, systematic approaches are needed to validate and refine these models. Towards this goal, we describe an automated procedure for prioritizing genetic perturbations in order to discriminate optimally between alternative models of a gene-regulatory network. Using this procedure, we evaluate 38 candidate regulatory networks in yeast and perform four high-priority gene knockout experiments. The refined networks suppo ...[more]

PMID: 15998451

Similar Datasets

Project description:Title : Characterization of genes differentially expressed in roots of transgenic arabidopsis lines expressing the p25 protein of beet necrotic yellow vein virus. Biological question : Rhizomania ("crazy root") is a severe disease of sugar beet caused by beet necrotic yellow vein virus (BNYVV), which is transmitted by the soil-inhabiting fungus Polymyxa betae. Symptoms of virus infection are characterized by a constricted tap root and a massive proliferation of fine rootlets that often undergo necrosis. BNYVV RNA-3 encodes a 25 kDa (p25) which is an important determinant of leaf symptom phenotype. It also governs BNYVV invasion of the plant root system and induction of rootlet proliferation in sugar beet. In order to obtain a better understanding of molecular aspects of disease development in roots and to characterize specific host genes involved in response to viral infection, transgenic Arabidopsis overexpressors of p25 viral protein was obtained and better characterized. It was shown that transgenic plants that efficiently expressed p25 protein produced more lateral roots. Comparative analysis (microarray) was performed between wild type Arabidopsis roots and transgenic Arabidopsis roots expressing p25 protein, in order to identify Arabidopsis genes differentially expressed in response to p25 viral protein. Experiment description: Seeds were surface sterilized, chilled at 4C for 4 days, and then germinated and grown on square Petri plates containing sterilized Murashige and Skoog (MS) medium with 1% sucrose. Such stock plates were arranged vertically in plastic racks and placed into growth chamber. After 5 days, plants were transferred carefully onto fresh MS medium big round plates. On each plate, 60 Wild Type (WT) plantlets were transferred on the half right of the plate, and 60 transgenic plantlets (B, E or T lines) were transferred on the half left of the plate. Plates were arranged horizontally and placed into growth chamber. Experiment 1 : 5 plates containing WT0A control plants and B0A transgenic plants. Experiment 2 : 5 plates containing WT1 control plants and B transgenic plants. 5 plates containing WT2 control plants and E transgenic plants. 5 plates containing WT3 control plants and T transgenic plants. Plants were harvested after 7 days (experiment 1) or 12 days (experiment 2), and WT roots or transgenic roots were pooled and conserved at -80C.

Dataset Information

Transcription profiling of S. cerevisiae single transcription factor deletions

Publications

Validation and refinement of gene-regulatory pathways on a network of physical interactions.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure