{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Tomoko Hashimoto-Tamaoki"],"study_type":["transcription profiling by array"],"organism":["Homo sapiens"],"species":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-GEOD-14838"],"description":["In the epidermis, keratinocytes are involved in physical and first-line immune protection of the host. In this work, we analyzed molecular responses after the addition of contact sensitizers, 2,4-dinitrochlorobenzene (DNCB) using cultured human keratinocytes from the bulge region of a plucked hair follicle (bulge-derived keratinocytes; BDKs) in comparison with neonatal human epidermal keratinocytes NHEK and human monocytic leukemia THP-1. The changes in gene expression by the treatment of DNCB in BDKs were different from those in THP-1. Many genes orchestrating keratinocyte differentiation, which interact TGF-β and BMP signaling pathway, were significantly up-regulated in response to DNCB.  Keywords: Comparison analysis of gene expression changes by the treatment of DNCB three cell strains composed of four samples; two BDKs established from different donors, NHEK, and THP-1. One replicate per array."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Growth Protocol - BDKs and NHEK ; cultured in Defined Keratinocyte-SFM medium （DK-SFM, GIBCO/Invitrogen Co., CA） at 37°C in a humidified atmosphere containing 5% CO2.                                                                             THP-1; cultured in RPMI1640 medium (GIBCO/Invitrogen Co.) containing 10% fetal bovine serum (Equitech-bio Inc., TX, USA) at 37°C in a humidified atmosphere containing 5% CO2.","Sample Processing - BDKs or NHEK ; seeded at 5 x 105 cells/60 mm φ dish and incubated in medium at 37 °C for 24 hr, and sequentially in MCDB153 medium (Research Institute for the Functional Peptides Co., Ltd, Yamagata, Japan) at 37 °C for 24 hr. 24 hr later, cells were treated with 10 μM DNCB or 0.1% DMSO for 4.5 hr.                      THP-1 ;  seeded at the density of 7 x 105 cells/10 mm φ dish. 24 hr later, cells were treated with 10 μM DNCB or 0.1% DMSO for 4.5 hr.","Labeling - Total RNAs (each 200ng) were labeled with Cy3- or Cy5- CTP using Agilent Quick Amp Labeling Kit (Agilent Technologies Inc.).","Nucleic Acid Extraction - Isolated using TRIzol reagent (Invitrogen, CA, USA) and purified using an RNeasy kit (QIAGEN, Hilden, Germany).","Hybridization - Cy3- or Cy5-labeled probes were mixed, fragmented, and then dissolved in GE hybridization buffer in the Gene Expression Hybridization Kit (Agilent). After hybridization, slides were washed sequential."],"figure_sub":["MIAME Score","Raw Data","Organization","Assays and Data","MAGE-TAB Files","Array Designs"],"pubmed_authors":["Yoshie Yoshikawa","Tomoko Hashimoto-Tamaoki","Yukio Kitano","Hiroki Shima","Nozomi Kanazawa","Yusuke Sasahara"],"data_protocol":["Assay Data Transformation - ID_REF = <br>VALUE = normalized log2 ratio (Cy5/Cy3) representing test/reference","Image Adquisition - Scanned on an Agilent microarray scanner.","Image Adquisition - Images were quantified using Agilent Feature Extraction Software (ver9.5.3.1).","Feature Extraction - LOWESS normalized, background subtracted data obtained from log2 of processed Red signal/processed Green signal. Expressionist (GeneData AG, Basel, Switzerland) software was used."],"additional_accession":[]},"is_claimable":false,"name":"Gene expression changes by 2,4-dinitrochlorobenzene in human bulge-derived keratinocytes","description":"In the epidermis, keratinocytes are involved in physical and first-line immune protection of the host. In this work, we analyzed molecular responses after the addition of contact sensitizers, 2,4-dinitrochlorobenzene (DNCB) using cultured human keratinocytes from the bulge region of a plucked hair follicle (bulge-derived keratinocytes; BDKs) in comparison with neonatal human epidermal keratinocytes NHEK and human monocytic leukemia THP-1. The changes in gene expression by the treatment of DNCB in BDKs were different from those in THP-1. Many genes orchestrating keratinocyte differentiation, which interact TGF-β and BMP signaling pathway, were significantly up-regulated in response to DNCB.  Keywords: Comparison analysis of gene expression changes by the treatment of DNCB three cell strains composed of four samples; two BDKs established from different donors, NHEK, and THP-1. One replicate per array.","dates":{"release":"2010-04-09T00:00:00Z","modification":"2023-08-05T08:40:54.295Z","creation":"2022-03-03T15:29:05.362Z"},"accession":"E-GEOD-14838","cross_references":{"GEO":["GSE14838"],"EFO":["EFO_0002768"]}}