2021
DOI: 10.1101/gr.260745.120
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A plug and play microfluidic platform for standardized sensitive low-input chromatin immunoprecipitation

Abstract: Epigenetic profiling by chromatin immunoprecipitation followed by sequencing (ChIP-seq) has become a powerful tool for genome-wide identification of regulatory elements, for defining transcriptional regulatory networks and for screening for biomarkers. However, the ChIP-seq protocol for low-input samples is laborious, time-consuming and suffers from experimental variation, resulting in poor reproducibility and low throughput. Although prototypic microfluidic ChIP-seq platforms have been developed, these are po… Show more

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Cited by 4 publications
(1 citation statement)
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“…To avoid any biases from technical procedures such as mapping of sequence tags, satellites as analysed from ChIP-seq were assayed by counting satellite-containing sequence tags directly from FASTQ sequencing files, and plotting it as percentage from the total number of reads in the FASTQ file 11 , 57 . The following satellite-specific sequences were used to select for satellite tags: GACGACTTGAAAAATGACGAAATC, CATATTCCAGGTCCTTCAGTGTGC, GAAAAAGGTGGAAAATTTAGA, AGAAAACTGAAAATCATGGAAAAT, GATTTCGTCATTTTTCAAGTCGTC, GCACACTGAAGGACCTGGAATATG, TCTAAATTTTCCACCTTTTTC and ATTTTCCATGATTTTCAGTTTTCT.…”
Section: Methodsmentioning
confidence: 99%
“…To avoid any biases from technical procedures such as mapping of sequence tags, satellites as analysed from ChIP-seq were assayed by counting satellite-containing sequence tags directly from FASTQ sequencing files, and plotting it as percentage from the total number of reads in the FASTQ file 11 , 57 . The following satellite-specific sequences were used to select for satellite tags: GACGACTTGAAAAATGACGAAATC, CATATTCCAGGTCCTTCAGTGTGC, GAAAAAGGTGGAAAATTTAGA, AGAAAACTGAAAATCATGGAAAAT, GATTTCGTCATTTTTCAAGTCGTC, GCACACTGAAGGACCTGGAATATG, TCTAAATTTTCCACCTTTTTC and ATTTTCCATGATTTTCAGTTTTCT.…”
Section: Methodsmentioning
confidence: 99%