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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Transcription profiling of human hepatocellular carcinoma cells Hep3B and HepG2 after treatment with the chemotherapeutic drug bleomycin

ABSTRACT: Hep3B cells were treated with the chemotherapeutic drug bleomycin. RNA was isolated after 18 h, 24 h and 36 h. The status of the gene expression was examined in response to treatment with bleomycin,

ORGANISM(S): Homo sapiens

SUBMITTER: Martina Mueller

PROVIDER: E-MEXP-1213 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Analysis of deep sequencing microRNA expression profile from human embryonic stem cells derived mesenchymal stem cells reveals possible role of let-7 microRNA family in downstream targeting of hepatic nuclear factor 4 alpha.

Koh Winston W Sheng Chen Tian CT Tan Betty B Lee Qian Yi QY Kuznetsov Vladimir V Kiang Lim Sai LS Tanavde Vivek V

BMC genomics 20100210

<h4>Background</h4>Recent literature has revealed that genetic exchange of microRNA between cells can be essential for cell-cell communication, tissue-specificity and developmental processes. In stem cells, as in other cells, this can be accomplished through microvesicles or exosome mediated transfer. However, molecular profiles and functions of microRNAs within the cells and in their exosomes are poorly studied. Next generation sequencing technologies could provide a broad-spectrum of microRNAs ...[more]

PMID: 20158877

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Transcription profiling of human hepatoma Hep3B cells following irradiation to investigate the effects of DNA damage

Project description:To monitor the changes in transcription and alternative splicing upon UV irradiation, human hepatoma Hep3B cells were Hep3B cells were washed two times with PBS and then irradiated with 40J/m2 UV light; fresh medium was immediately added after the irradiation and the cells were incubated at 37 C and collected 6 hours after the treatment for the RNA preparation. RNAs from three biological replicates of control or irradiated cells were purified, reverse transcribed into cDNA, labelled with Cy5 or Cy3 fluorochromes, and hybridized to a custom splicing-sensitive microarray<br>cDNA and Cy5-Cy3 labelled cRNA were generated from the total RNA using the Agilent Low RNA Input Fluorescent Linear Amplification kit; the cRNA was purified with the RNeasy Mini kit (Qiagen). 8?g of each cRNA were used for the hybridization with the arrays (Agilent In situ hybridization kit plus). After hybridization, arrays were washed, and scanned images analyzed. Three biological replicates were hybridized, with both direct and dye-reversal hybridizations. General gene expression values represent the average of log2 ratios for all the probes in constitutive exones of a locus. Statystical analyses were carried out with Linear Models for Microarray Data (Limma; Bioconductor Project; Dudoit, et al., 2003). The background correction method used in the analysis was Normexp (Ritchie, et al., 2007). Locally weighted linear regression (LOWESS) analysis was used as a normalization method (Yang, et al., 2002).<br>

2009-07-10 | E-MEXP-2353 | biostudies-arrayexpress

Transcription profiling of human monocytes incubated with or without dexamethasone and with Hb-Hp for different time

Project description:Human Monocytes were incubated with or without dexamethasone for 36h. Then non-primed or dexamethasone-primed monocytes were incubated with 500ug/ml Hb-Hp for 0h, 8h and 18h. RNA of all samples was analyzed with Agilent whole genome 4x44k microarrays (dual-color). For factorial analysis all samples were individually analyzed using the same reference sample (no pre-treatment, 0h).

2010-07-31 | E-MEXP-2598 | biostudies-arrayexpress

Transcription profiling of chicken Shh signaling regulated neural progenitor transcriptional programme; Description: Neural cells transfected in ovo with cDNA expression constructs that activate or inhibit Shh signaling

Project description:Neural cells transfected in ovo with cDNA expression constructs that activate or inhibit Shh signaling

2011-06-01 | E-MEXP-2212 | biostudies-arrayexpress

Transcription profiling by array of human B cell lymphoma cell lines in response to rituximab treatment

Project description:HF-1, Granta-519, SUDHL4,Oci-Ly10 and Oci-Ly3 cell lines, representing different B cell lymphoma subtypes, were induced with rituximab (R) for three hours and analyzed for differentially expressed genes compared to untreated control.

2010-06-22 | E-MEXP-2317 | biostudies-arrayexpress

Initiation of Invasion-Metastasis Cascade by DNp73

Project description:The experiment was designed to profile the transcriptome of human melanoma cell lines that differ in their delta ex2/3p73 expression. The differential gene expression of SK-Mel-29 stably overexpressing delta ex2/3p73-cDNA (SK-Mel-29.DNp73) was analyzed in comparison to parental cells with integrated empty vector . The DNp73-related gene expression signature was compared to the transcriptome of SK-Mel-103 and SK-Mel-147 cells with high endogenous DNp73 expression.

2014-05-01 | E-MEXP-3911 | biostudies-arrayexpress

Transcription profiling by array of human peripheral blood gamma-delta T cells stimulated with HMB-PP or OKT-3

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Transcription profiling of human pancreatic cancer cells after treatment with nemorosone

Project description:Effects of several nemorosone concentrations on three pancreatic cancer cell lines with different degrees of differentiation were studied

2009-07-30 | E-MEXP-1869 | biostudies-arrayexpress

Transcriptional profiling of mouse CRL-2019 cell line of MH-S cells treated with recombinant PVL versus untreated.

Project description:cDNA microarray of the cellline MH-S cells (ATCC: CRL-2019) that were treated with recombinant PVL (rPVL) versus untreated cells

2010-12-21 | E-MEXP-2513 | biostudies-arrayexpress

TAU - Ben-Jacob - P. vortex - Gene Prediction Validation - 105k

Project description:Validation of the de-novo sequenced Paenibacillus vortex annotation using microarray.

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siRNA knock-down of MXI1 in human neuroblastoma cells

Project description:SK-N-BE(2)c and SK-N-SH neuroblastoma cells were transfected in triplicates with siRNA against MXI1 or an unspecific control siRNA and grown at hypoxia (1 % O 2) for 24 hours. RNA extracted from each siMXI1 sample was hybridized to the corresponding control siRNA sample in dye-swap duplicates giving a total of 12 hybridizations. <br><br>After quality data filtering the dye-swap assay pairs were merged by averaging ratios over each array reporter, follow by LOWESS normalization, giving a total of six assays.

2009-12-04 | E-MEXP-2033 | biostudies-arrayexpress

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