title: Identifying direct targets of transcription factor Rfx2 that coordinate ciliogenesis and cell movement.
abstract: Recently, using the frogXenopus laevisas a model system, we showed that transcription factor Rfx2 coordinates many genes involved in ciliogenesis and cell movement in multiciliated cells (Chung et al., 2014). To our knowledge, it was the first paper to utilize the genomic resources, including genome sequences and interim gene annotations, from the ongoingXenopus laevisgenome project. For researchers who are interested in the application of genomics and systems biology approaches inXenopusstudies, here we provide additional details about our dataset (NCBI GEO accession number GSE50593) and describe how we analyzed RNA-seq and ChIP-seq data to identify direct targets of Rfx2.
authors.affiliation: Department of Molecular Biosciences, University of Texas at Austin.
authors.forename: Taejoon
authors.initials: T
authors.lastname: Kwon
authors.affiliation: Department of Molecular Biosciences, University of Texas at Austin.
authors.forename: Mei-I
authors.initials: MI
authors.lastname: Chung
authors.affiliation: Department of Genetics, Stanford University.
authors.forename: Rakhi
authors.initials: R
authors.lastname: Gupta
authors.affiliation: Department of Genetics, Stanford University.
authors.forename: Julie C
authors.initials: JC
authors.lastname: Baker
authors.affiliation: Department of Molecular Biosciences, University of Texas at Austin ; Center for Systems & Synthetic Biology and Institute for Cellular & Molecular Biology, University of Texas ; Howard Hughes Medical Institute.
authors.forename: John B
authors.initials: JB
authors.lastname: Wallingford
authors.affiliation: Department of Molecular Biosciences, University of Texas at Austin ; Center for Systems & Synthetic Biology and Institute for Cellular & Molecular Biology, University of Texas.
authors.forename: Edward M
authors.initials: EM
authors.lastname: Marcotte
keywords: Ciliogenesis; Rfx2; Xenopus laevis