ArticleScientific reports2014
Fully automated high-throughput chromatin immunoprecipitation for ChIP-seq: identifying ChIP-quality p300 monoclonal antibodies.
Article in Scientific reports, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed, 35 citations in OpenAlex.
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- Biomimetic mimicry of formaldehyde-induced DNA-protein crosslinks in the confined space of a metal-organic framework.Chemical science · 2022Article
- A plug and play microfluidic platform for standardized sensitive low-input chromatin immunoprecipitation.Genome research · 2021Article
- A parallelized, automated platform enabling individual or sequential ChIP of histone marks and transcription factors.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- KAT3-dependent acetylation of cell type-specific genes maintains neuronal identity in the adult mouse brain.Nature communications · 2020Article
- PIXUL-ChIP: integrated high-throughput sample preparation and analytical platform for epigenetic studies.Nucleic acids research · 2019Article
- Combination Targeting of the Bromodomain and Acetyltransferase Active Site of p300/CBP.Biochemistry · 2019Article
- Automated in situ chromatin profiling efficiently resolves cell types and gene regulatory programs.Epigenetics & chromatin · 2018Article
- Visual Servoing-Based Nanorobotic System for Automated Electrical Characterization of Nanotubes inside SEM.Sensors (Basel, Switzerland) · 2018Article
- RELACS nuclei barcoding enables high-throughput ChIP-seq.Communications biology · 2018Article
- High-intensity UV laser ChIP-seq for the study of protein-DNA interactions in living cells.Nature communications · 2017Article
- Article
- Standardizing chromatin research: a simple and universal method for ChIP-seq.Nucleic acids research · 2016Article
- Vision-based Nano Robotic System for High-throughput Non-embedded Cell Cutting.Scientific reports · 2016Article
- Occupancy of RNA Polymerase II Phosphorylated on Serine 5 (RNAP S5P) and RNAP S2P on Varicella-Zoster Virus Genes 9, 51, and 66 Is Independent of Transcript Abundance and Polymerase Location within the Gene.Journal of virology · 2016Article
- Fluorescence ImmunoPrecipitation (FLIP): a Novel Assay for High-Throughput IP.Biological procedures online · 2016Article
- Genome-wide epigenomic profiling for biomarker discovery.Clinical epigenetics · 2016Review
- Next-Generation Sequencing of a Single Domain Antibody Repertoire Reveals Quality of Phage Display Selected Candidates.PloS one · 2016Article
- Interferon regulatory factor 1 and histone H4 acetylation in systemic lupus erythematosus.Epigenetics · 2015Article
Corrections and comments
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Authors and funding
10 authors at 2 institutions in 1 country.
Funding
Abstract
Chromatin immunoprecipitation coupled with DNA sequencing (ChIP-seq) is the major contemporary method for mapping in vivo protein-DNA interactions in the genome. It identifies sites of transcription factor, cofactor and RNA polymerase occupancy, as well as the distribution of histone marks. Consortia such as the ENCyclopedia Of DNA Elements (ENCODE) have produced large datasets using manual protocols. However, future measurements of hundreds of additional factors in many cell types and physiological states call for higher throughput and consistency afforded by automation. Such automation advances, when provided by multiuser facilities, could also improve the quality and efficiency of individual small-scale projects. The immunoprecipitation process has become rate-limiting, and is a source of substantial variability when performed manually. Here we report a fully automated robotic ChIP (R-ChIP) pipeline that allows up to 96 reactions. A second bottleneck is the dearth of renewable ChIP-validated immune reagents, which do not yet exist for most mammalian transcription factors. We used R-ChIP to screen new mouse monoclonal antibodies raised against p300, a histone acetylase, well-known as a marker of active enhancers, for which ChIP-competent monoclonal reagents have been lacking. We identified, validated for ChIP-seq, and made publicly available a monoclonal reagent called ENCITp300-1.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.