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Series GSE157085 Query DataSets for GSE157085
Status Public on Feb 09, 2021
Title Diverse CGG binding proteins across eukaryotes produced by independent domestications of hAT transposons
Platform organism synthetic construct
Sample organisms Locusta migratoria; Acyrthosiphon pisum; Aedes aegypti; Culex quinquefasciatus; Petromyzon marinus; Latimeria chalumnae; Acipenser ruthenus; Cyprinus carpio; Salmo salar; Fundulus heteroclitus; Sparus aurata; Chrysemys picta; Crocodylus porosus; Gallus gallus; Homo sapiens; Rhodnius prolixus; Erpetoichthys calabaricus; Rhipicephalus appendiculatus; Kryptolebias marmoratus; Nematostella vectensis; Austrofundulus limnaeus; Hucho hucho; Anabas testudineus; Acanthochromis polyacanthus; Amphiprion ocellaris; Labeo rohita; Mola mola; Hippocampus comes; Amphiprion percula; Salarias fasciatus; Sphaeramia orbicularis; Hofstenia miamia; Anabarilius grahami; Rhizophagus irregularis; Paramormyrops kingsleyae
Experiment type Other
Summary The human transcription factor (TF) CGGBP1 (“CGG Binding Protein”) is conserved only in amniotes, and is believed to derive from the zf-BED and Hermes transposase DNA-binding domains (DBDs) of a hAT DNA transposon. Here, we examine the DNA binding preferences of a wide variety of metazoan CGGBP1-like TFs with this bipartite domain using PBM experiments. The derived motifs are available at ...
Overall design Protein binding microarray (PBM) experiments were performed for 106 CGGBP1-like proteins and related hAT transposons. Briefly, the PBMs involved binding GST-tagged DNA-binding proteins to two double-stranded 44K Agilent microarrays, each containing a different DeBruijn sequence design, in order to determine their sequence preferences. Details of the PBM protocol are described in Berger et al., Nature Biotechnology 2006.
Contributor(s) Yellan I, Yang A
Citation(s) 33561217
Submission date Aug 28, 2020
Last update date May 11, 2021
Contact name Isaac Yellan
Organization name University of Toronto
Department Molecular Genetics
Street address 160 College St.
City Toronto
State/province Ontario
ZIP/Postal code M5S 3E1
Country Canada
Platforms (1)
GPL11260 Agilent custom ME and HK design array [8mer]
Samples (258)
GSM4752277 pTH14290.1_ME_8mer
GSM4752278 pTH14290.2_HK_8mer
GSM4752279 pTH15424.1_ME_8mer
BioProject PRJNA660048

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE157085_RAW.tar 488.6 Mb (http)(custom) TAR (of TXT)
Processed data provided as supplementary file

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