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TranscriptomicsChIP-chip and MeDIP-chip from glioblastoma BTSCs (brain tumor stem cells) with H3K4me3, H3K27me3, H3K9me3, methylated DNA
Aberrational epigenetic marks are believed to play a major role in establishing the abnormal features of cancer cells. Rational use and development of drugs aimed at epigenetic processes requires an understanding of the range, extent, and roles of epigenetic reprogramming in cancer cells. Using ChIP...
ORGANISM(S): Homo sapiens 
2014-08-30 | E-GEOD-60806 | biostudies-arrayexpress
TranscriptomicsENCODE spikein, nonamplified DNA samples, NimbleGen arrays
The goals of the study were to assess array platform performance and analysis algorithm performance. The most widely used method for detecting genome-wide protein-DNA interactions is chromatin immunoprecipitation on tiling microarrays, commonly known as ChIP-chip. Here, we conducted the first objec...
ORGANISM(S): Homo sapiens 
2010-05-26 | E-GEOD-10090 | biostudies-arrayexpress
TranscriptomicsTumor Liver vs Normal Liver: ChIP-chip and RNA expression
There is widespread interest in efficient characterization of differences between tumor and normal samples. Here, we demonstrate an effective methodology for genome-scale characterization of tumors. Using matched normal and tumor samples from liver cancer patients, as well as non-cancer-related nor...
ORGANISM(S): Homo sapiens 
2010-05-26 | E-GEOD-10842 | biostudies-arrayexpress
TranscriptomicsENCODE spikein, amplified DNA samples, NimbleGen arrays
The goals of the study were to assess array platform performance and analysis algorithm performance. The most widely used method for detecting genome-wide protein-DNA interactions is chromatin immunoprecipitation on tiling microarrays, commonly known as ChIP-chip. Here, we conducted the first objec...
ORGANISM(S): Homo sapiens 
2010-05-26 | E-GEOD-10076 | biostudies-arrayexpress
TranscriptomicsIgG control ChIP in HeLa cells
Control IgG ChIP vs matched total for HeLa cells. Three biological replicates. ChIP-chip of IgG; look for non-specific binding sites.
ORGANISM(S): Homo sapiens 
2010-07-01 | E-GEOD-4338 | biostudies-arrayexpress
TranscriptomicsPOLII localization in HeLa cells
RNA polymerase II (POLR2A; POLII) was localized via ChIP-chip using N20 Ab-mediated pull-down of POLII Classical design; ChIP-chip of POLII in ENCODE regions
ORGANISM(S): Homo sapiens 
2010-07-01 | E-GEOD-4337 | biostudies-arrayexpress
TranscriptomicsMYC binding sites in HeLa cells
MYC binding sites determined in HeLa cells using ChIP-chip ChIP-chip
ORGANISM(S): Homo sapiens 
2010-07-01 | E-GEOD-4354 | biostudies-arrayexpress
TranscriptomicsHeLa E2F1 ChIP-chip experiments
These are three biological replicates. HeLa cells were crosslinked on separate days. In each case, a matched total from the same crosslinking was produced in parallel. Amplicons were made from each and hybridized onto ENCODE region tiling arrays. Two color arrays were used; ChIP was red, Total was g...
ORGANISM(S): Homo sapiens 
2010-07-01 | E-GEOD-4306 | biostudies-arrayexpress
TranscriptomicsIdentification of genes directly regulated by the oncogene ZNF217 using ChIP-chip assays (Promoter Arrays)
It has been proposed that ZNF217, which is amplified at 20q13 in various tumors, plays a key role during neoplastic transformation. ZNF217 has been purified in complexes that contain repressor proteins such as CtBP2, suggesting that it acts as a transcriptional repressor. However, the function of ZN...
ORGANISM(S): Homo sapiens 
2010-06-12 | E-GEOD-6625 | biostudies-arrayexpress
TranscriptomicsA ChIP-chip analysis of E2F family in normal and tumor cells reveals interchangeable roles of E2F family members
Using ChIP-chip assays, we examined the binding patterns of three members of E2F family in five different cell types. Keywords: ChIP-chip We used ENCODE arrays to determine the loaction of E2F family, then identify their binding motifs in vivo. We used promoter arrays to assess the relationship of E...
ORGANISM(S): Homo sapiens 
2007-08-22 | E-GEOD-8716 | biostudies-arrayexpress
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