Similar studies for GEO DataSets (Select 200123445) - GEO DataSets

(Submitter supplied) To determine the genomic binding sites for the Aspergillus fumigatus transcription factor AtrR, we utilized three different strains. One was the wild-type AfS35 which contains a wild-type copy of atrR but lacks any HA tag. The other two are both derived from AfS35 but contain a 3X HA tag replacing the stop codon of atrR. These strains are SPF89 and SPF112, respectively. SPF89 uses the wild-type atrR promoter to drive expression of the epitope-tagged allele while SPF112 uses the much strong hspA promoter to drive production of the same protein.

Organism:: Aspergillus fumigatus Af293

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL25869
6 Samples

Download data: WIG

Series

Accession:: GSE123159

ID:: 200123159

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2002676514.

RNA-seq analysis of AtrR-regulated gene expression in Aspergillus fumigatus cells in response to voriconazole.

(Submitter supplied) Aspergillus fumigatus transcription factor AtrR is a critical determinant of the azole resistance phenotype of this organism. AtrR positively regulates expression of a range of genes involved in azole resistance including the ATP-binding cassette transporter-encoding locus abcG1 (cdr1B/abcC) as well as the gene that encodes the enzymatic target of azole drugs cyp51A. Homology searches of A. fumigatus AtrR against a range of fungal species identified highly conserved 25 amino acid region in the carboxy-terminus. more...

Organism:: Aspergillus fumigatus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL23160
21 Samples

Download data: BIGWIG, XLSX

Series

Accession:: GSE267651

ID:: 200267651

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Select item 2002299135.

FfmA

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Aspergillus fumigatus

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL23160
17 Samples

Download data: BIGWIG

Series

Accession:: GSE229913

ID:: 200229913

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Select item 2002299126.

RNA-seq analysis of doxycycline-regulated gene expression in Aspergillus fumigatus cells containing a dox off-ffmA fusion gene.

(Submitter supplied) To determine the genes responsive to FfmA in A. fumigatus, a doxycycline-repressible (dox off) gene fusion to the ffmA coding sequence was constructed. This strain was designated SPF182. These cells were grown for 16 hours in the absence of doxycycline and then shifted into medium containing doxycycline (+dox) or untreated (-dox). After 8 additional hours, the cells were harvested and total RNA prepared. more...

Organism:: Aspergillus fumigatus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL23160
9 Samples

Download data: BIGWIG

Series

Accession:: GSE229912

ID:: 200229912

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Select item 2002299117.

ChIP-seq analysis of FfmA binding in Aspergillus fumigatus

(Submitter supplied) Two strains were analyzed by ChIP-seq to determine the genomic binding sites for the Aspergillus fumigatus transcription factor FfmA. A wild-type strain (AfS35) was subjected to ChIP-seq analysis using an antibody directed against the wild-type version of the FfmA protein. An strain containing an epitope-tagged version (FLAG-ffmA) of the ffmA gene under control of a doxycycline off (dox off) promoter was also analyzed by ChIP-seq. more...

Organism:: Aspergillus fumigatus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL23160
8 Samples

Download data: BIGWIG

Series

Accession:: GSE229911

ID:: 200229911

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Select item 2001299668.

The genome-scale binding profile of the CCAAT-binding complex in Aspergillus fumigatus

(Submitter supplied) The CCAAT-binding complex (CBC) is a heterotrimetric transcription factor conserved in all eukaryotes. The CBC specifically interacts with the pentanucleotide motif known as the CCAAT box, which is one of the most ubiquitous cis-acting elements on the eukaryotic promoters. In Aspergillus fumigatus, the CBC consists of three subunits HapB, HapC, and HapE, which are all required for specific binding to the target sequences. more...

Organism:: Aspergillus fumigatus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL23160
8 Samples

Download data: BIGWIG

Series

Accession:: GSE129966

ID:: 200129966

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Select item 2001334919.

The Negative Cofactor 2 complex is a master regulator of drug resistance in Aspergillus fumigatus

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Aspergillus fumigatus

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL23160
26 Samples

Download data: BIGWIG

Series

Accession:: GSE133491

ID:: 200133491

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Select item 20013346410.

The Negative Cofactor 2 complex is a master regulator of drug resistance in Aspergillus fumigatus [RNA-seq]

(Submitter supplied) The Negative cofactor 2 (NCT) complex is an evolutionally conserved heterodimeric transcription factor. In Aspergillus fumigatus, the NCT complex consists of two subunits NctA and NctB. Through a genome-wide screening of a transcription factor null mutant strains, we found that loss of the NCT complex leads to a multi-drug resistance phenotype including the azoles (itraconazole, voriconazole and posaconazole) as well as the salvage therapeutic amphotericin B, and terbinafine. more...

Organism:: Aspergillus fumigatus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL23160
18 Samples

Download data: TXT

Series

Accession:: GSE133464

ID:: 200133464

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20012996711.

The Negative Cofactor 2 complex is a master regulator of drug resistance in Aspergillus fumigatus [ChIP-seq]

Organism:: Aspergillus fumigatus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL23160
8 Samples

Download data: BIGWIG

Series

Accession:: GSE129967

ID:: 200129967

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Select item 20014855712.

Characterization of Aspergillus fumigatus NsdC transcription factor (RNA polII ChIP-seq)

(Submitter supplied) We use ChIP-seq technique to access RNA polymerase II enrichment in wild type and nsdC A. fumigatus null mutant before and after calcium exposure

Organism:: Aspergillus fumigatus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL23160
8 Samples

Download data: BW

Series

Accession:: GSE148557

ID:: 200148557

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20019395613.

Use of Bulk Segregant Analysis for Determining the Genetic Basis of Azole Resistance in the Opportunistic Pathogen Aspergillus fumigatus

(Submitter supplied) Genome sequence data results are reported from experimental and bioinfomatic work using the technique 'Bulk Segregant Analysis' to determine the genetic basis of observed resistance to the azole antifungal compound itraconazole in the opportunistic fungal pathogen Aspergillus fumigatus.

Organism:: Aspergillus fumigatus

Type:: Genome variation profiling by high throughput sequencing

Platform:: GPL31245
18 Samples

Download data: VCF

Series

Accession:: GSE193956

ID:: 200193956

PubMed Full text in PMC Similar studies

Select item 20017913214.

Heterogeneity in the transcriptional response of the human pathogen Aspergillus fumigatus to the antifungal agent caspofungin

(Submitter supplied) The transcription factor CrzA influences cell wall organization in the pathogenic fungus Aspergillus fumigatus, and also binds to the promoter regions of chitin synthase genes upon exposure to the antifungal drug caspofungin. To gain an overview of the genes directly regulated by CrzA, the CrzA binding sites were determined genome-wide by ChIP-seq

Organism:: Aspergillus fumigatus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL23160
4 Samples

Download data: BW

Series

Accession:: GSE179132

ID:: 200179132

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Select item 20019398415.

Next Generation Sequencing Facilitates Quantitative Analysis of N. crassa Wild Type, stk-17ko and stk-17com Transcriptomes treated with or without ketoconazole

(Submitter supplied) STK-17, a kinase that responses to azoles transcriptionally, is required for azole resistance. By analyzing and comparing the transcriptomes from samples of N. crassa Wild Type, stk-17ko and stk-17com strain treated with or without ketoconazole, the biological processes that would be affected by stk-17 deletion was revealled.

Organism:: Neurospora crassa

Type:: Expression profiling by high throughput sequencing

Platform:: GPL29089
18 Samples

Download data: XLSX

Series

Accession:: GSE193984

ID:: 200193984

PubMed Full text in PMC Similar studies

Select item 20005983916.

Genomic targets sites of the Candida glabrata transcription factor Pdr1

(Submitter supplied) Pdr1 is the major regulator of azole resistance in the fungal pathogen Candida glabrata. Earlier experiments demonstrated that expression of Pdr1 itself is increased when cells lose their mitochondrial genome (rho0). Here we use chromatin immunoprecipitation coupled with highthroughput sequencing (ChIP-seq) to map the genomic binding sites for Pdr1 in both normal and rho0 cells. These data provide the first look at genes that are likely to represent the direct targets of Pdr1 in this important pathogen.

Organism:: Nakaseomyces glabratus CBS 138

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL19002
9 Samples

Download data: WIG

Series

Accession:: GSE59839

ID:: 200059839

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20001543217.

Transcriptome analysis of Aspergillus fumigatus delta crzA mutant upon 10 and 30 minutes treatment with CaCl2 (200 mM)

(Submitter supplied) CRZ is a C2H2 zinc finger transcription factor activated by calcineurin, a protein phosphatase activated by calcium-calmodulin, in different stress conditions related with calcium cell accumulation. CRZ binds to a specific element on the promoter region of genes called CDRE (calcineurin-dependent response element) shown to be sufficient for calcium- and calcineurin-dependent gene expression. In order to investigate which pathways are involved under calcium stress conditions, we determined the transcriptional profile of A. more...

Organism:: Aspergillus fumigatus

Type:: Expression profiling by array

Platforms:: GPL6085 GPL8346
4 Samples

Download data: TXT

Series

Accession:: GSE15432

ID:: 200015432

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20006197418.

ChIP-seq analyses of the Aspergillus fumigatus SREBP SrbA

(Submitter supplied) The Aspergillus fumigatus sterol regulatory element binding protein (SREBP) SrbA belongs to the basic Helix-Loop-Helix (bHLH) family of transcription factors and is crucial for antifungal drug resistance and virulence. The latter phenotype is especially striking, as loss of SrbA results in complete loss of virulence in murine models of invasive pulmonary aspergillosis (IPA). How fungal SREBPs mediate fungal virulence is unknown, though it has been suggested that lack of growth in hypoxic conditions accounts for the attenuated virulence. more...

Organism:: Aspergillus fumigatus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL18295
6 Samples

Download data: TXT

Series

Accession:: GSE61974

ID:: 200061974

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20012996919.

The fungal CCAAT-binding complex and HapX display highly variable but evolutionary conserved synergetic promoter-specific DNA recognition

(Submitter supplied) To sustain iron homeostasis, microorganisms have evolved fine-tuned mechanisms for uptake, storage and detoxification of the essential metal iron. In the human pathogen Aspergillus fumigatus, the fungal-specific bZIP-type transcription factor HapX coordinates adaption to both iron starvation and iron excess and is thereby crucial for virulence. Previous studies indicated that a HapX homodimer interacts with the CCAAT-binding complex (CBC) to cooperatively bind bipartite DNA motifs; however, the significance of the HapX and CBC interaction and the mode of HapX-DNA recognition had not been resolved. more...

Organism:: Aspergillus fumigatus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL23268
12 Samples

Download data: BIGWIG

Series

Accession:: GSE129969

ID:: 200129969

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20012312220.

Transcript levels of genes in both the wild type SN148 and the crz1/crz1 mutant with or without 0.2M CaCl2 treatment

(Submitter supplied) We report the expression levels of transcripts for two alleles of 6,211 genes in log-phase growing cells of the wild type SN148 and the crz1/crz1 with or without 0.2M CaCl2 treatment.We find that as compared to the wild type cells without 0.2M CaCl2 treatment, there are 828 genes upregulated in the wild type cells with 0.2M CaCl2 treatment.

Organism:: Candida albicans

Type:: Expression profiling by high throughput sequencing

Platform:: GPL23041
4 Samples

Download data: XLSX

Series

Accession:: GSE123122

ID:: 200123122

PubMed Full text in PMC Similar studies SRA Run Selector

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