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GenomicsHuman embryonic stem cells HELP-tagging cytosine methylation data (Albert Einstein College of Medicine)
Background: To perform epigenome-wide association studies in human disease, assays need to be comprehensive and quantitative while remaining cost-effective. We explored how the strengths of prior tag-based cytosine methylation assays based on massively-parallel sequencing can be maximised analytica...
ORGANISM(S): Homo sapiens 
2010-04-12 | E-GEOD-19937 | biostudies-arrayexpress
UnknownA scalable strategy for high-throughput GFP tagging of endogenous human proteins.
Not available
S-EPMC4922190 | biostudies-literature
TranscriptomicsExpression Data from HNF4a RNAi Knockdown in HepG2 cells
HNF4a is an important liver transcription factor that regulates at least a thousand genes in the liver. Here we used expression profiling in HepG2 cells, a hepatocellular carcinoma cell line, in which HNF4a was knocked down by RNAi to identify some of those target genes. This dataset accompanies the...
ORGANISM(S): Homo sapiens 
2011-05-05 | E-GEOD-29084 | biostudies-arrayexpress
UnknownAll-in-one: a robust fluorescent fusion protein vector toolbox for protein localization and BiFC analyses in plants.
Not available
S-EPMC9129086 | biostudies-literature
OtherDirect Selection of an Allosteric RNA-Cleaving DNAzyme for a Protein Target: A Specific DNAzyme for Eosinophil Peroxidase to Monitor Airway Eosinopilia
In this project, in vitro selection was carried out to generate DNAzymes for Eosinophil peroxidase using a synthetic DNA library. Total 15 rounds of selections were carried out. The DNA molecules obtain in round 15, was applied in Illumina MiSeq deep sequencing which provided fastq files. Sequencing...
ORGANISM(S): synthetic construct 
2023-11-15 | GSE217946 | GEO
ProteomicsA Spatial Interactome Reveals the Protein Organization of the Algal CO2 Concentrating Mechanism
One-third of global CO2 fixation is mediated by eukaryotic algae. Nearly all algae enhance their carbon assimilation by operating a CO2 concentrating mechanism (CCM), built around a mysterious organelle called the pyrenoid. Here, we leveraged new tools to determine the localizations of 146 candidate...
ORGANISM(S): Chlamydomonas reinhardtii 
2018-01-24 | PXD007664 | Pride
Co2-concentrating mechanism Ccm Carbon-fixation Photosynthesis Pyrenoid 15n isotopic labelling Rubisco High-throughput fluorescence protein tagging Orbitrap Affinity purification mass spectrometry Chlamydomonas reinhardtii Interactome 
UnknownVersatile phenotype-activated cell sorting.
Not available
S-EPMC7608836 | biostudies-literature
TranscriptomicsBinding pattern and chromatin modifications induced by AML1/ETO in human hematopoietic stem/progenitor cells
The AML1/ETO fusion protein, which is present in 10% to 15% of cases of acute myeloid leukemia, is known to repress myeloid differentiation genes through DNA binding and recruitment of chromatin-modifying proteins and transcription factors in target genes. ChIP-chip analysis of human hematopoietic s...
ORGANISM(S): Homo sapiens 
2012-01-18 | E-GEOD-27663 | biostudies-arrayexpress
TranscriptomicsAntibody repertoire RNA-seq throughout key stages of mouse B-cell development (pre-B-cells, naive B cells, plasma cells)
We sought to investigate the extent of genetic and antigen-driven predetermination of antibody repertoires throughout B-cell development (pre-B cells, naive B cells, plasma cells). To this end, we used (i) an inbred model organism (mouse, C57BL/6J) to quantify genetic predetermination and (ii) cohor...
ORGANISM(S): Mus musculus 
2017-03-28 | E-MTAB-5349 | biostudies-arrayexpress
GenomicsGenome-wide DNA methylation analyses by the HELP assay
The HELP tagging assay was performed on purified genomic DNAs. The protocol was modified for NEBNext Multiplex Oligos for Illumina (NEB) from the original protocol4 (http://wasp.einstein.yu.edu/index.php/Protocol:HELP_tagging). Briefly, genomic DNA was digested by HpaII or MspI, the former only cutt...
ORGANISM(S): Mus musculus 
2015-09-10 | E-GEOD-51680 | biostudies-arrayexpress
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