Similar studies for GEO DataSets (Select 200073117) - GEO DataSets

Select item 2000731171.

Evaluation of DNA-binding preferences of non-metazoan C2H2 zinc finger proteins by PBM

(Submitter supplied) The largest and most diverse class of eukaryotic transcription factors contain Cys2-His2 zinc fingers (C2H2-ZFs). Here, we have explored the diversity of sequence preferences of C2H2-ZF proteins in non-metazoan organisms using PBM experiments.

Organism:: Physcomitrium patens; Schizophyllum commune; Toxoplasma gondii; Arabidopsis thaliana; Schizosaccharomyces pombe; Histoplasma capsulatum; Puccinia graminis; Rhizopus delemar; Batrachochytrium dendrobatidis; Neurospora crassa; synthetic construct; Dictyostelium discoideum

Type:: Other

Platform:: GPL11260
86 Samples

Download data: TXT

Series

Accession:: GSE73117

ID:: 200073117

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000764962.

Multiparameter functional diversity of human C2H2 zinc finger proteins

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

Organism:: Homo sapiens

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

Platform:: GPL11154
252 Samples

Download data: TXT

Series

Accession:: GSE76496

ID:: 200076496

PubMed Full text in PMC Similar studies

Select item 2000764953.

Multiparameter functional diversity of human C2H2 zinc finger proteins [RNA-Seq]

(Submitter supplied) C2H2 zinc finger proteins represent the largest and most enigmatic class of human transcription factors. Their C2H2 arrays are highly variable, indicating that most will have unique DNA binding motifs. However, most of the binding motifs have not been directly determined. We have determined the binding sites and motifs of 119 C2H2 zinc finger proteins and the expression pattern of 80 cell lines overexpressing C2H2 zinc finger proteins in order to study the role of C2H2 zinc finger proteins in gene regulation.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL11154
92 Samples

Download data: TXT

Series

Accession:: GSE76495

ID:: 200076495

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

Select item 2000764944.

Identification of in vivo binding sites of human GFP-tagged C2H2-ZF proteins

(Submitter supplied) The largest and most diverse class of eukaryotic transcription factors contain Cys2-His2 zinc fingers (C2H2-ZFs), each of which typically binds a DNA nucleotide triplet within a larger binding site. Frequent recombination and diversification of their DNA-contacting residues suggests that these zinc fingers play a prevalent role in adaptive evolution. Very little is known about the function and evolution of the vast majority of C2H2-ZFs, including whether they even bind DNA. more...

Organism:: Homo sapiens

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

Platform:: GPL11154
160 Samples

Download data: TXT

Series

Accession:: GSE76494

ID:: 200076494

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000583415.

Identification of in vivo binding sites of human C2H2-ZF proteins

(Submitter supplied) The largest and most diverse class of eukaryotic transcription factors contain Cys2-His2 zinc fingers (C2H2-ZFs), each of which typically binds a DNA nucleotide triplet within a larger binding site. Frequent recombination and diversification of their DNA-contacting residues suggests that these zinc fingers play a prevalent role in adaptive evolution. Very little is known about the function and evolution of the vast majority of C2H2-ZFs, including whether they even bind DNA. more...

Organism:: Homo sapiens

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

Platform:: GPL11154
39 Samples

Download data: BED

Series

Accession:: GSE58341

ID:: 200058341

PubMed Similar studies SRA Run Selector

Select item 2000525236.

Large-scale characterization of DNA binding landscape of eukaryotic C2H2 zinc fingers

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below. Cys2-His2 zinc finger (C2H2-ZF) proteins represent the largest class of putative human transcription factors (TFs). However, it is unknown whether most C2H2-ZFs even bind DNA, or what sequences they bind. Using a combination of bacterial one-hybrid (B1H) assays, protein-binding microarrays (PBMs), and ChIP-seq, we have found that most natural C2H2-ZFs bind DNA both in vitro and in vivo. more...

Organism:: Homo sapiens; synthetic construct

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

Platforms:: GPL15228 GPL11260 GPL11154
734 Samples

Download data: BED, TXT

Series

Accession:: GSE52523

ID:: 200052523

Select item 2000525217.

Highly parallel identification of sequence preferences for eukaryotic C2H2 zinc finger domains using a bacterial 1-hybrid assay

(Submitter supplied) The largest and most diverse class of eukaryotic transcription factors contain Cys2-His2 zinc fingers (C2H2-ZFs), each of which typically binds a DNA nucleotide triplet within a larger binding site. Frequent recombination and diversification of their DNA-contacting residues suggests that these zinc fingers play a prevalent role in adaptive evolution. Very little is known about the function and evolution of the vast majority of C2H2-ZFs, including whether they even bind DNA. more...

Organism:: synthetic construct

Type:: Other

Platform:: GPL15228
403 Samples

Download data: TXT, XLSX

Series

Accession:: GSE52521

ID:: 200052521

PubMed Similar studies SRA Run Selector

Select item 2000525208.

Evaluation of DNA-binding preferences of C2H2 zinc finger domains by PBM

(Submitter supplied) The largest and most diverse class of eukaryotic transcription factors contain Cys2-His2 zinc fingers (C2H2-ZFs), each of which typically binds a DNA nucleotide triplet within a larger binding site. Frequent recombination and diversification of their DNA-contacting residues suggests that these zinc fingers play a prevalent role in adaptive evolution. Very little is known about the function and evolution of the vast majority of C2H2-ZFs, including whether they even bind DNA. more...

Organism:: synthetic construct

Type:: Other

Platform:: GPL11260
292 Samples

Download data: TXT

Series

Accession:: GSE52520

ID:: 200052520

Select item 2000831169.

The C2H2-ZF transcription factor Zfp335 recognizes two consensus motifs using separate zinc finger arrays

(Submitter supplied) The complexities of DNA recognition by transcription factors with multiple Cys2-His2 zinc fingers (C2H2-ZFs) remain poorly studied. We previously reported a mutation (R1092W) in the C2H2-ZF transcription factor Zfp335 which led to selective loss of binding at a subset of targets, although the basis for this was unclear. We show that Zfp335 binds DNA and drives transcription via recognition of two distinct consensus motifs by separate ZF clusters, and identify the specific motif interaction disrupted by R1092W. more...

Organism:: Homo sapiens

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

Platform:: GPL11154
6 Samples

Download data: BW, NARROWPEAK

Series

Accession:: GSE83116

ID:: 200083116

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20005833310.

Genome-wide profiling of Zfp335 binding sites in thymocytes

(Submitter supplied) The generation of naïve T lymphocytes is critical for immune function yet the mechanisms governing their maturation remain incompletely understood. We have identified a mouse mutant, bloto, that harbors a hypomorphic mutation in the zinc finger protein Zfp335. Mutant blt/blt mice exhibit a naïve T cell deficiency due to an intrinsic developmental defect that begins to manifest in the thymus and continues into the periphery, affecting T cells that have recently undergone thymic egress. more...

Organism:: Mus musculus

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

Platform:: GPL13112
6 Samples

Download data: BIGWIG, TXT

Series

Accession:: GSE58333

ID:: 200058333

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20005829311.

Zinc finger protein Zfp335 is required for formation of the naïve T cell compartment

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

Organism:: Mus musculus

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

Platforms:: GPL17777 GPL13112
18 Samples

Download data: BIGWIG, CEL, TXT

Series

Accession:: GSE58293

ID:: 200058293

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20005828912.

Gene expression profiling of recent thymic emigrants (RTEs) from a mouse strain with an ENU-induced mutation in Zfp335

(Submitter supplied) The generation of naïve T lymphocytes is critical for immune function yet the mechanisms governing their maturation remain incompletely understood. We have identified a mouse mutant, bloto, that harbors a hypomorphic mutation in the zinc finger protein Zfp335. Mutant blt/blt mice exhibit a naïve T cell deficiency due to an intrinsic developmental defect that begins to manifest in the thymus and continues into the periphery, affecting T cells that have recently undergone thymic egress. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL17777
6 Samples

Download data: CEL

Series

Accession:: GSE58289

ID:: 200058289

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20005828813.

Gene expression profiling of mature CD4 SP thymocytes from a mouse strain with an ENU-induced mutation in Zfp335

(Submitter supplied) The generation of naïve T lymphocytes is critical for immune function yet the mechanisms governing their maturation remain incompletely understood. We have identified a mouse mutant, bloto, that harbors a hypomorphic mutation in the zinc finger protein Zfp335. Mutant blt/blt mice exhibit a naïve T cell deficiency due to an intrinsic developmental defect that begins to manifest in the thymus and continues into the periphery, affecting T cells that have recently undergone thymic egress. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL17777
6 Samples

Download data: CEL

Series

Accession:: GSE58288

ID:: 200058288

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20002572314.

Sequence specificity is obtained from the majority of modular C2H2 zinc-finger arrays

(Submitter supplied) C2H2 zinc fingers (C2H2-ZFs) are the most prevalent type of vertebrate DNA-binding domain, and typically appear in tandem arrays (ZFAs), with sequential C2H2-ZFs each contacting 3 (or more) sequential bases. C2H2-ZFs can be assembled in a modular fashion, providing one explanation for their remarkable evolutionary success. Given a set of modules with defined 3-base specificities, modular assembly also presents a way to construct artificial proteins with specific DNA-binding preferences. more...

Organism:: synthetic construct

Type:: Other

Platforms:: GPL11260 GPL11261
80 Samples

Download data: TXT

Series

Accession:: GSE25723

ID:: 200025723

PubMed Full text in PMC Similar studies Analyze with GEO2R

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