• Analysis of transcription factor complexes and their associated chromatin interactions during erythropoiesis 

      Thongjuea, Supat (Doctoral thesis, 2014-01-17)
      Cis-regulatory elements can control gene transcription over large distances. Studying the association between cis-regulatory elements and the mechanism of gene regulation is important since the disruption in the transcriptional ...
    • Genome-wide DNA methylation profiling of non-small cell lung carcinomas 

      Carvalho, Rejane Hughes; Haberle, Vanja; Hou, Jun; van Gent, Teus; Thongjuea, Supat; van Ijcken, Wilfred F.J.; Kockx, Christel; Brouwer, Rutger; Rijkers, Erikjan; Sieuwerts, Anieta; Foekens, John; van Vroonhoven, Mirjam; Aerts, Joachim; Grosveld, Frank; Lenhard, Boris; Philipsen, Sjaak (Peer reviewed; Journal article, 2012-06-22)
      Background: Non-small cell lung carcinoma (NSCLC) is a complex malignancy that owing to its heterogeneity and poor prognosis poses many challenges to diagnosis, prognosis and patient treatment. DNA methylation is an important ...
    • The genome-wide dynamics of the binding of Ldb1 complexes during erythroid differentiation 

      Soler, Eric; Andrieu-Soler, Charlotte; Boer, Ernie de; Bryne, Jan Christian; Thongjuea, Supat; Stadhouders, Ralph; Palstra, Robert-Jan; Stevens, Mary; Kockx, Christel; IJcken, Wilfred van; Hou, Jun; Steinhoff, Christine; Rijkers, Erikjan; Lenhard, Boris; Grosveld, Frank (Peer reviewed; Journal article, 2009)
      One of the complexes formed by the hematopoietic transcription factor Gata1 is a complex with the Ldb1 (LIM domain-binding protein 1) and Tal1 proteins. It is known to be important for the development and differentiation ...
    • JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles 

      Portales-Casamar, Elodie; Thongjuea, Supat; Kwon, Andrew T.; Arenillas, David; Zhao, Xiaobei; Valen, Eivind; Yusuf, Dimas; Lenhard, Boris; Wasserman, Wyeth W.; Sandelin, Albin (Peer reviewed; Journal article, 2010)
      JASPAR (http://jaspar.genereg.net) is the leading open-access database of matrix profiles describing the DNA-binding patterns of transcription factors (TFs) and other proteins interacting with DNA in a sequence-specific ...
    • r3Cseq: an R/Bioconductor package for the discovery of long-range genomic interactions from chromosome conformation capture and next-generation sequencing data 

      Thongjuea, Supat; Stadhouders, Ralph; Grosveld, Frank; Soler, Eric; Lenhard, Boris (Peer reviewed; Journal article, 2013)
      The coupling of chromosome conformation capture (3C) with next-generation sequencing technologies enables the high-throughput detection of longrange genomic interactions, via the generation of ligation products between DNA ...