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GenomicsDNA binding activities of the C-clamp
Investigated the DNA binding specificity of the C-clamp of dnTCF1E Used a doxycycline inducible system to investigate the role of the C-clamp in the genome-wide binding of dnTCF1E. Induced dnTCF1EWT and dnTCF1Emut (C-clamp mutant that is null for C-clamp DNA binding) over 2 time points (2 hours and...
ORGANISM(S): Homo sapiens 
2014-12-04 | E-GEOD-53536 | biostudies-arrayexpress
TranscriptomicsCLAMP Protein Binding Microarray (PBM) experiment
To investigate the DNA binding specificity of the CLAMP protein, we have designed a custom PBM to interrogate the binding of CLAMP to DNA sequences extracted from the Drosophila melanogaster genome. Specific regions were extracted based on ChIP-seq data, motif occurence and proximity to gene transcr...
ORGANISM(S): Drosophila melanogaster 
2016-07-17 | E-GEOD-83442 | biostudies-arrayexpress
TranscriptomicsSynergistic interactions between CLAMP and MSL complex facilitate Drosophila dosage compensation
ChIP-seq and mRNA-seq experiments were performed to understand the role of the CLAMP protein in dosage compensation ChIP-seq experiments compared the binding profiles of CLAMP in male and female cells and mRNA-seq data to define the role of CLAMP in regulating genes on the X-chromosome
ORGANISM(S): Drosophila melanogaster 
2013-07-15 | E-GEOD-39271 | biostudies-arrayexpress
GenomicsExpansion of GA dinucleotide repeats increases the density of CLAMP binding sites on the X-chromosome to promote Drosophila dosage compensation [ChIP-Seq]
ChIP-seq was performed to compare binding the genome-wide binding profile of the CLAMP transcription factor in two different Drosophila species. ChIP seq experiments compare the binding profile of CLAMP in female larvae to identify conservation of its binding sequence.
ORGANISM(S): Drosophila melanogaster 
2016-07-17 | E-GEOD-83435 | biostudies-arrayexpress
ProteomicsImmunoprecipitation of CLAMP-HA and CLAMPΔPRD-HA from the parasite T. gondii
Apicomplexan parasites discharge specialized organelles called rhoptries upon host cell contact to mediate invasion. The events that drive rhoptry discharge are poorly understood, yet essential to sustain the apicomplexan parasitic life cycle. Rhoptry discharge appears to depend on proteins secreted...
ORGANISM(S): Toxoplasma gondii GT1 
2023-10-30 | PXD044091 | Pride
Rhoptry secretion. Toxoplasma gondii Clamp 
GenomicsEffect of a KRAS peptide nucleic acid clamp on the Ion Torrent sequencing protocol
To test whether the addition of a peptide nucleic acid (PNA) clamp, which binds WT KRAS at codon 12, can increase the efficacy of mutation detection for KRASG12D within a targeted NGS setting. We tested the effect of clamping the wild-type KRAS sequence in a reference standard (Tru-Q 7, 1.3% Tier fr...
ORGANISM(S): Homo sapiens 
2017-07-29 | E-MTAB-5718 | biostudies-arrayexpress
GenomicsIdentifying splicing targets of CLAMP by mRNA-sequencing
Identifying splicing targets of CLAMP by mRNA-sequencing
PRJNA909765 | ENA
GenomicsRNAseq S2 Clamp RNAi knockdown
RNAseq S2 Clamp RNAi knockdown
PRJEB112555 | ENA
ProteomicsPatch-Clamp Proteomics of Single Neurons in Tissue Using Electrophysiology and Subcellular Capillary Electrophoresis Mass Spectrometry
In this project, we enabled mass spectrometry based proteomics characterization of single neurons in sections of the mouse brain. We accessed cells in a whole-cell patch clamp configuration and aspirated a portion of the neuronal soma into the patch clamp probe. The collected aspirate was expelled ...
ORGANISM(S): Mus musculus (Mouse) 
2022-02-18 | PXD028040 | Pride
Electrophysiology Mass spectrometry Nervous system Bottom-up proteomics Capillary electrophoresis Whole-cell patch-clamp Mouse 
GenomicsThe zinc-finger protein CLAMP promotes gypsy chromatin insulator function in Drosophila: differential ChIP-seq of CP190 and CLAMP under CP190 knockdown
The zinc-finger protein CLAMP promotes gypsy chromatin insulator function in Drosophila: differential ChIP-seq of CP190 and CLAMP under CP190 knockdown
PRJNA486507 | ENA
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