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High-resolution comparative genome hybridization survey of healthy individuals (chromosome 22)

ABSTRACT: HighRes-CGH arrays that utilize ≈385,000 distinct oligonucleotide probes to cover chromosome 22 at 85 bp resolution (tiling path step size) were designed and synthesized as previously described (Urban et al., Proc Natl Acad Sci U S A. 2006;103(12):4534-9; see also GSE4240 record). Here, two healthy individuals were studied using the same experimental protocols as in Urban et al. Keywords: high-resolution comparative genome hybridization using oligonucleotides

ORGANISM(S): Homo sapiens

PROVIDER: GSE6010 | GEO | 2006/10/12

SECONDARY ACCESSION(S): PRJNA97807

REPOSITORIES: GEO

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High-resolution comparative genome hybridization survey of healthy individuals (chromosome 22)

Project description:HighRes-CGH arrays that utilize â385,000 distinct oligonucleotide probes to cover chromosome 22 at 85 bp resolution (tiling path step size) were designed and synthesized as previously described (Urban et al., Proc Natl Acad Sci U S A. 2006;103(12):4534-9; see also GSE4240 record). Here, two healthy individuals were studied using the same experimental protocols as in Urban et al. See above, same as in Urban et al., Proc Natl Acad Sci U S A. 2006;103(12):4534-9; see also GSE4240 record. The overall goal of the study was the detection of the precise boundaries of deletions and amplifications. Maskless array synthesis was used to construct custom isothermal arrays containing up to 385,000 oligonucleotides, tiling the non-repetitive regions of chromosome 22. Genomic DNA isolated from patients (Cy3) was co-hybridized with a reference DNA pool (Promega; Cy5).

2010-06-10 | E-GEOD-6010 | biostudies-arrayexpress

gun5_vs_WT

Project description:Series of 8 repetitions of hybridization of treatment (gun5) and control (WT) each. Comparison of Arabidopsis gun5 mutant lacking a ChlH subunit of Mg-chelatase versus WT. R.E. Susek et al., Cell 74 (1993), pp. 787-799; N. Mochizuki et al., Proc Natl Acad Sci U S A 98 (2001), pp. 2053-2058 Keywords: repeat sample

2005-01-01 | GSE1186 | GEO

psbs_vs_WT

Project description:Series of 6 repetitions of hybridization of treatment (psbs) and control (WT) each. Comparison of the Arabidopsis psbs mutant lacking Photosystem I protein PSII-S versus WT. X.P. Li et al., Proc Natl Acad Sci U S A 99 (2002), pp. 15222-15227 Keywords: repeat sample

2005-01-01 | GSE1245 | GEO

Effect of TUC338 knockdown on gene expression

Project description:The ultraconserved RNA TUC338 is expressed in hepatocellular cancer and can modulate cell proliferation. Details are provided in Braconi et al,Proc Natl Acad Sci U S A. 2011 Jan 11;108(2):786-91. In this analysis, we knocked down TUC338 in HepG2 cells and analyzed gene expression.

2018-02-09 | GSE110259 | GEO

Expression analysis of INA6 cells after IL-6 withdrawal using MAT

Project description:Whole transcriptome expression analysis of INA6 cells on Affymetrix Human Tiling 1.0 array set. IL-6 has been withdrawn for 13 hours which initiates apoptosis. Expression data were processed with MAT (Johnson et al., "Model-based analysis of tiling-arrays for ChIP-chip." Proc Natl Acad Sci USA, 103:12457-62, 2006.).

2016-01-31 | GSE29825 | GEO

Expression analysis of HFF cells in G1 phase [MAT]

Project description:Whole transcriptome expression analysis of HFF cells on Affymetrix Human Tiling 1.0 array set. Cells were synchronised by serum starvation and transcriptome-wide expression in G1 phase. Expression data were processed with MAT (Johnson et al., "Model-based analysis of tiling-arrays for ChIP-chip." Proc Natl Acad Sci USA, 103:12457-62, 2006.).

2012-12-18 | GSE36155 | GEO

Expression analysis of HFF cells in G0 phase [MAT]

Project description:Whole transcriptome expression analysis of HFF cells on Affymetrix Human Tiling 1.0 array set. Cells were synchronised by serum starvation and transcriptome-wide expression in G0 phase. Expression data were processed with MAT (Johnson et al., "Model-based analysis of tiling-arrays for ChIP-chip." Proc Natl Acad Sci USA, 103:12457-62, 2006.).

2012-12-18 | GSE36154 | GEO

fluD_vs_WT

Project description:Series of 6 repetitions of hybridization of treatment (fluD) and control (WT) each. Comparison of Arabidopsis flu mutant lacking FLU, a regulator of chlorophyll biosynthesis, versus WT. Both harvested after a period of 12 h darkness. R. Meskauskiene et al., Proc Natl Acad Sci U S A 98 (2001), pp. 12826-12831 Keywords: repeat sample

2005-01-01 | GSE1183 | GEO

Expression analysis of INA6 cells after IL-6 restimulation using MAT

Project description:Whole transcriptome expression analysis of INA6 cells on Affymetrix Human Tiling 1.0 array set. Cells were restimulated with IL-6 for 1 hour after IL-6 has been withdrawn for 13 hours. Expression data were processed with MAT (Johnson et al., "Model-based analysis of tiling-arrays for ChIP-chip." Proc Natl Acad Sci USA, 103:12457-62, 2006.).

2016-01-31 | GSE29824 | GEO

fluL_vs_WT

Project description:Series of 6 repetitions of hybridization of treatment (fluL) and control (WT) each. Comparison of Arabidopsis flu mutant lacking FLU, a regulator of chlorophyll biosynthesis versus WT. Both harvested 30' after reexposure to light after 12h dark period. R. Meskauskiene et al., Proc Natl Acad Sci U S A 98 (2001), pp. 12826-12831 Keywords: repeat sample

2005-01-01 | GSE1184 | GEO

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