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Unknown,Transcriptomics,Genomics,Proteomics

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Comparision of expression profile between wild-type and Slc39a13 knockout osteoblasts

ABSTRACT: In order to explore molecules whose expression is controlled by Slc39a13, we investigated gene expression profiling of primary osteoblast isolated from wild-type and Slc39a13 knockout mice. Keywords: knockout vs wild-type wild-type vs Slc39a13 knockout

ORGANISM(S): Mus musculus

SUBMITTER: Toshiyuki Fukada

PROVIDER: E-GEOD-10555 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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The zinc transporter SLC39A13/ZIP13 is required for connective tissue development; its involvement in BMP/TGF-beta signaling pathways.

Fukada Toshiyuki T Civic Natacha N Furuichi Tatsuya T Shimoda Shinji S Mishima Kenji K Higashiyama Hiroyuki H Idaira Yayoi Y Asada Yoshinobu Y Kitamura Hiroshi H Yamasaki Satoru S Hojyo Shintaro S Nakayama Manabu M Ohara Osamu O Koseki Haruhiko H Dos Santos Heloisa G HG Bonafe Luisa L Ha-Vinh Russia R Zankl Andreas A Unger Sheila S Kraenzlin Marius E ME Beckmann Jacques S JS Saito Ichiro I Rivolta Carlo C Ikegawa Shiro S Superti-Furga Andrea A Hirano Toshio T

PloS one 20081105 11

<h4>Background</h4>Zinc (Zn) is an essential trace element and it is abundant in connective tissues, however biological roles of Zn and its transporters in those tissues and cells remain unknown.<h4>Methodology/principal findings</h4>Here we report that mice deficient in Zn transporter Slc39a13/Zip13 show changes in bone, teeth and connective tissue reminiscent of the clinical spectrum of human Ehlers-Danlos syndrome (EDS). The Slc39a13 knockout (Slc39a13-KO) mice show defects in the maturation ...[more]

PMID: 18985159

Similar Datasets

Comparision of expression profile between wild-type and Slc39a13 knockout osteoblasts

Project description:In order to explore molecules whose expression is controlled by Slc39a13, we investigated gene expression profiling of primary osteoblast isolated from wild-type and Slc39a13 knockout mice. Keywords: knockout vs wild-type

2008-11-07 | GSE10555 | GEO

Comparison of gene expression between wild-type and PTIP deficient chicken DT40 B cells

Project description:PTIP (Pax2 transactivation domain-interacting protein) is a nuclear protein containing six BRCT domains. It has been shown that PTIP affects gene expression by controlling the activity of the transcription factor Pax2 and histone H3 lysine 4 methyltransferase complexes. In addition to its role in transcriptional regulation, PTIP has been implicated in DNA damage response. To ask if the depletion of PTIP affects the expression level of genes encoding DNA damage response factors , we compared the whole transcripts between wild-type and PTIP deficient chicken DT40 B cell lines. The total RNAs were isolated from wild-type and PTIP deficient cells (PTIP-/-/-) using Sepasol®-RNA I (Nacalai tesque, Japan). The gene expression profiles were examined using Genechip® Chicken Genome Array (Affymetrix Cat #900590), by GeneticLab co. Ltd. Japan, following Genechip® protocol.

2009-10-27 | E-GEOD-18778 | biostudies-arrayexpress

Expression data from rostral forebrains of wild-type and Fezf1-/- Fezf2-/- mice

Project description:Zinc-finger genes Fezf1 and Fezf2 encode transcriptional repressors. Fezf1 and Fezf2 are expressed in the early neural stem/progenitor cells and control neuronal differentiation in mouse dorsal telencephalon. We compared gene expression profiles of rostral forebrains, which contain the telencephalon and the rostral part of the diencephalon, from embryonic day (E) 9.5, E10.5, and E12.5 wild-type control and Fezf1-/- Fezf2 -/- mouse embryos. The forebrain rostral to the caudal limit of the lateral ventricles was isolated manually from E9.5, E10.5, and E12.5 wild-type and Fezf1-/- Fezf2-/- mice. Total RNAs were isolated by Separsol-RNA I and were used for microarray analyses.

2010-04-12 | E-GEOD-21156 | biostudies-arrayexpress

Plasma miRNA Expression Profiling Using Human TaqMan Low Density Array Cards

Project description:Our study was designed to identify plasma miRNAs specific for rheumatoid arthritis (RA) by a comprehensive array approach. We performed a array-based miRNA analysis on plasma samples from three RA patients and three healthy controls (HCs). TaqMan Low-Density Array (TLDA) using human miRNA version 3.0A and version 2.0B cards (Applied Biosystems) were applied to examine the global change of miRNA expression levels in plasma from patients with RA and healthy controls. A total of 756 mature miRNA updated in the Sanger miRBase v.15.0 were quantified according to the manufacturer's instructions as previously described. Normalization was carried out with the average Ct value of all miRNAs. Relative quantification of miRNA expression was calculated with the 2−ΔΔCt Ct method. The data was presented as log10 of the relative quantity of each miRNA.

2013-04-13 | E-GEOD-46012 | biostudies-arrayexpress

Effect of STOP1 dificiency under low oxygen condition.

Project description:Comparison of stop1-mutant vs. wild type (WT;Col-0) treated with low-oxygen stress, and gene expression responses to low-oxygen in Arabidopsis shoots. Biological replicates: 3 replicates of shoot sample.

2019-05-10 | E-MTAB-7335 | biostudies-arrayexpress

HuSE2,2Dvs3D

Project description:HCV proliferation is closely related to three-dimentional cellular condition. In case of blood-borne (bb) HCV culture in HuS-E2 cells, bbHCV was reproduced only from 3D-cultured cells in hollow fibers. Thus, in order to identify novel factors which support HCV proliferation under three-dimentional condition, we compared gene expression profile between 2D- and 3D-cultured HuS-E/2 cells with 3D-gene Human oligo chip 25k (Toray, Tokyo, Japan).

2013-12-10 | E-MTAB-1491 | biostudies-arrayexpress

Comparision of expression profile between wild-type and Slc39a13 knockout chondrocytes

Project description:In order to explore molecules whose expression is controlled by Slc39a13, we investigated gene expression profiling of primary chondrocyte isolated from wild-type and Slc39a13 knockout mice. Keywords: knockout vs wild-type

2008-11-07 | GSE10556 | GEO

Taurine transporter (SLC6A6)-deficient skeletal muscle

Project description:Analysis of skeletal muscle from taurine transporter (TauT) knockout mice at 3 or 18 months of age. Knocking out TauT result in a decrease in muscle cell size, impaired exercise capacity and accelerated muscle aging. Results provide molecular insights into physiological role of taurine. Sample: 12

2014-05-08 | E-GEOD-57373 | biostudies-arrayexpress

Expression Data from DMSO or SRPIN803 treated ARPE-19 cells

Project description:We used microarrays to evaluate the effect of SRPIN803 on gene expression in ARPE-19 cells. ARPE-19 cells were treated with SRPIN803 (10 uM) or the negative control (0.1% DMSO) for 4 hours for Total RNA isolation and hybridization on Microarray.

2015-06-17 | E-GEOD-62947 | biostudies-arrayexpress

Prostates of rats with induced partial bladder outlet obstruction and the effect of Eviprostat on those changes

Project description:Prostatic inflammation plays a role in the progression of benign prostatic hyperplasia (BPH). Eviprostat is an antiinflammatory and antioxidant phytotherapeutic agent widely used to treat lower urinary tract symptoms in BPH. However, because Eviprostat is a mixture of compounds from multiple natural sources, its mechanism of action has been difficult to investigate. In this study, we used oligonucleotide microarrays to identify changes in gene expression that occur in the prostate of rats with surgically induced partial bladder outlet obstruction and the effect of Eviprostat on those changes. Male rats were divided into four groups of five or six animals each. The rats in groups 1 and 2 underwent a sham operation. Five days after the sham operation, group 1 was treated twice a day with vehicle (0.1% (w/v) Tween 80; sham/vehicle group) and group 2 was treated twice a day with 18 mg/kg Eviprostat (36 mg/kg daily; sham/Eviprostat group). The rats in groups 3 and 4 underwent surgical partial bladder outlet obstruction. Briefly, with the rat in the supine position, a midline suprapubic incision was made and the bilateral prostate was retracted to expose the neck of the bladder and the urethra, care being taken not to damage the bladder. The loose connective tissue at the base of the bladder was dissected away from the proximal urethra. A rubber ring was cut open and placed around the proximal urethra, and a 4-0 silk ligature was tied around the rubber ring. From the day after the operation, group 3 was treated twice a day for five days with vehicle (operated/vehicle group) and group 4 was treated twice a day for five days with 18 mg/kg Eviprostat (36 mg/kg daily; operated/Eviprostat group). On the sixth day, 2 h after the last administration, the rats were sacrificed and the prostate was rapidly removed.

2010-04-09 | E-GEOD-16063 | biostudies-arrayexpress

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