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

ABSTRACT: 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 Cells were restimulated with IL-6 for 1 hour after IL-6 has been withdrawn for 13 hours.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 our new permutation approach TileShuffle.

ORGANISM(S): Homo sapiens

PROVIDER: GSE30006 | GEO | 2016/01/31

SECONDARY ACCESSION(S): PRJNA155355

REPOSITORIES: GEO

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

2016-01-31 | GSE30007 | GEO

Expression analysis of INA6 cells after IL-6 restimulation

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 Cells were restimulated with IL-6 for 1 hour after IL-6 has been withdrawn for 13 hours. Transcriptome-wide expression data was assessed by using TileShuffle (Otto C, Reiche K, Hackermüller J. "Detection of differentially expressed segments in tiling array data". Bioinformatics. 2012 Jun 1;28(11):1471-9. Epub 2012 Apr 6.).

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Expression analysis of INA6 cells after IL-6 restimulation

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 Cells were restimulated with IL-6 for 1 hour after IL-6 has been withdrawn for 13 hours. Transcriptome-wide expression data was assessed by using TileShuffle (Otto C, Reiche K, HackermÃ¼ller J. "Detection of differentially expressed segments in tiling array data". Bioinformatics. 2012 Jun 1;28(11):1471-9. Epub 2012 Apr 6.). We analyzed one Affymetrix Human Tiling 1.0R set

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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 Cells were restimulated with IL-6 for 1 hour after IL-6 has been withdrawn for 13 hours.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.).

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Expression analysis of INA6 cells after IL-6 withdrawal

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. Transcriptome-wide expression data was assessed by using TileShuffle (Otto C, Reiche K, Hackermüller J. "Detection of differentially expressed segments in tiling array data". Bioinformatics. 2012 Jun 1;28(11):1471-9. Epub 2012 Apr 6.).

2014-02-04 | GSE44657 | GEO

Expression analysis of INA6 cells after IL-6 withdrawal

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. Transcriptome-wide expression data was assessed by using TileShuffle (Otto C, Reiche K, HackermÃ¼ller J. "Detection of differentially expressed segments in tiling array data". Bioinformatics. 2012 Jun 1;28(11):1471-9. Epub 2012 Apr 6.). We analyzed one Affymetrix Human Tiling 1.0R set

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

2016-01-31 | GSE29837 | GEO

Expression and differential expression analysis in INA6 cells

Project description:Expression and differential expression analysis of custom probes for genomic regions that have been found to be differentially expressed (i) throughout cell cycle progression, (ii) in response to the anti-proliferative and pro-apoptotic p53 pathway, and (iii) the anti-apoptotic and pro-proliferative STAT-3 pathway. In addition, the Agilent custom array (244K) interrogates probes for genomic regions predicted to contain a conserved secondary structure identified by RNAz (Washietl et al. "Fast and reliable prediction of noncoding RNAs." Proc Natl Acad Sci USA. 102:2454-9, 2005.) or Evofold (Pedersen et al. "Identification and classification of conserved RNA secondary structures in the human genome." PLoS Comput Biol. 2:e33, 2006.), as well as known non-coding RNAs from public databases, and the Agilent mRNA probe sets 014850. INA6 cells restimulated with IL-6 for 1 hour after IL-6 has been withdrawn for 13 hours. We analyzed three arrays each for INA6 cells after 13 hours of IL-6 withdrawal and cells restimulated with IL-6 for 1 hour

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Expression analysis of INA6 cells permanently cultured in presence of IL-6

Project description:Whole transcriptome expression analysis of INA6 cells on Affymetrix Human Tiling 1.0 array set. Cells have been permanently cultured in presence of IL-6. Transcriptome-wide expression data was assessed by using TileShuffle (Otto C, Reiche K, Hackermüller J. "Detection of differentially expressed segments in tiling array data". Bioinformatics. 2012 Jun 1;28(11):1471-9. Epub 2012 Apr 6.).

2014-02-04 | GSE44658 | GEO

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