Dataset features

Specifications


Dataset type: Other
Number of samples: 10
Release date: Jan 15 2008
Last update date: Mar 19 2012
Access: Public
Genes: RAD23A
Taxon: Homo sapiens
Dataset link Maintenance of Long-Range DNA Interactions after Inhibition of Ongoing RNA Polymerase II Transcription.

Experimental Protocol


4C experiments were performed in duplo, dye swap was included. Hybridisation was performed on dedicated micro-arrays. Probes (60-mers) were selected from the sequences 100 bp up –and downstream of HindIII sites. To prevent cross-hybridization, probes that had any similarity with highly abundant repeats (RepBase 10.09) were removed from the probeset. In addition, probes that gave more than two BLAST hits in the genome were also removed from the probeset. Sequence alignments were performed using MegaBLAST using the standard settings. A hit was defined as an alignment of 30 nt or longer.

Repositories


GEO

GSE10170

ArrayExpress

E-GEOD-10170

BioProject

PRJNA108373

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Contact


Wouter de Laat

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