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Links from GEO DataSets

Items: 20

1.

Integrative Transcriptome Analysis Reveals Common Molecular Subtypes of Human Hepatocellular Carcinoma

(Submitter supplied) Hepatocellular carcinoma (HCC) is a highly heterogeneous disease, and prior attempts to develop genomic-based classification for HCC have yielded highly divergent results, indicating difficulty in identifying unified molecular anatomy. We performed a meta-analysis of gene expression profiles in data sets from eight independent patient cohorts across the world. In addition, aiming to establish the real world applicability of a classification system, we profiled 118 formalin-fixed, paraffin-embedded tissues from an additional patient cohort. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL5474
118 Samples
Download data: TXT
Series
Accession:
GSE10186
ID:
200010186
2.

Integrative Transcriptome Analysis Reveals Common Molecular Subtypes of Human Hepatocellular Carcinoma (HT-HG_U133A)

(Submitter supplied) Hepatocellular carcinoma (HCC) is a highly heterogeneous disease, and prior attempts to develop genomic-based classification for HCC have yielded highly divergent results, indicating difficulty in identifying unified molecular anatomy. We performed a meta-analysis of gene expression profiles in data sets from eight independent patient cohorts across the world. In addition, aiming to establish the real world applicability of a classification system, we profiled 118 formalin-fixed, paraffin-embedded tissues from an additional patient cohort. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Dataset:
GDS4269
Platform:
GPL3921
4 Samples
Download data: CEL
Series
Accession:
GSE10393
ID:
200010393
3.
Full record GDS4269

Transforming growth factor-beta effect on Hepatocellular carcinoma Huh-7 cell line

Analysis of Hepatocellular carcinoma (HCC) Huh-7 cells stimulated with transforming growth factor-beta (TGF-β). HCC cell line Huh-7 has intact WNT pathway components. Results provide insight into the role of TGF-β in regulating WNT pathway activity in HCC cells.
Organism:
Homo sapiens
Type:
Expression profiling by array, count, 2 agent sets
Platform:
GPL3921
Series:
GSE10393
4 Samples
Download data: CEL
4.

Delineation of EZH2 oncogenic functions in hepatocellular carcinoma

(Submitter supplied) The goal of this study was to delineate the important EZH2 direct target genes that mediate the oncogenic properties of EZH2 in HCC. The EZH2 direct target genes in two HCC cell lines were identified by chromatin immunoprecipitation microarray (ChIP-chip) analysis and later confirmed by independent ChIP-PCR. The functions of the target genes were further examined.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by genome tiling array
Platforms:
GPL4125 GPL4124
8 Samples
Download data: TXT
Series
Accession:
GSE17733
ID:
200017733
5.

Hepatoma cell lines vs. Universal control 3

(Submitter supplied) Gene expression profiles in hepatoma cells Keywords: Cell type comparison
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL2913
36 Samples
Download data
Series
Accession:
GSE3536
ID:
200003536
6.

Hepatoma cell lines vs. Universal control 2

(Submitter supplied) Gene expression profiles in hepatoma cells Keywords: Cell type comparison
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL2912
18 Samples
Download data
Series
Accession:
GSE3511
ID:
200003511
7.

Hepatoma cell lines vs. Universal control

(Submitter supplied) Gene expression profiles in hepatoma cells Keywords: Cell type comparison
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL2911
18 Samples
Download data
Series
Accession:
GSE3444
ID:
200003444
8.

Expression profiles of 30-gene hepatocellular carcinoma molecular classification signature in surgically resected Japanese hepatocellular carcinoma patients

(Submitter supplied) Background & Aims: Hepatocellular carcinoma (HCC) is the second most lethal cancer due to lack of effective therapies. Although promising, HCC molecular classification, which enriches potential responders to specific therapies, has not yet been assessed in clinical trials of anti-HCC drugs. We aimed to overcome these challenges by developing clinicopathological surrogate indices of HCC molecular classification. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL18976
96 Samples
Download data: TXT
Series
Accession:
GSE59548
ID:
200059548
9.

mRNA expression profile modified by microRNA mir-517a (MIR517A) in human hepatocellular carcinoma cell line

(Submitter supplied) mRNA expression profile modified by stable transfection of microRNA mir-517a (MIR517A) in a human hepatocellular carcinoma cell line Huh-7 Keywords: Hepatocellular carcinoma, Expression array, microRNA
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL6244
6 Samples
Download data: CEL
Series
Accession:
GSE20679
ID:
200020679
10.

MicroRNA-Based Classification of Hepatocellular Carcinoma and Oncogenic Role of miR-517a

(Submitter supplied) Hepatocellular carcinoma (HCC) is a complex and heterogeneous tumor due to activation of multiple cellular pathways and molecular alterations. Herein, we report the first molecular classification of 89 HCC based on the expression of 358 microRNAs and integrative genomic analysis. Three main subclasses of HCC were identified : two of them were associated with beta-catenin mutations or aggressive phenotype. more...
Organism:
Homo sapiens
Type:
Expression profiling by array; Non-coding RNA profiling by array
4 related Platforms
350 Samples
Download data: CEL
Series
Accession:
GSE20596
ID:
200020596
11.

microRNA profiling of human hepatocellular carcinoma

(Submitter supplied) microRNA profiling of 89 human hepatocellular carcinoma tissues using bead-based technology.
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by array
Platform:
GPL10122
89 Samples
Download data: TXT
Series
Accession:
GSE20594
ID:
200020594
12.

Gene-expression profiles of formalin-fixed, paraffin-embedded human hepatocellular carcinoma

(Submitter supplied) Gene-expression profiles of formalin-fixed, paraffin-embedded human hepatocellular carcinoma tissues obtained at the time of surgical resection.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL8432
164 Samples
Download data: TXT
Series
Accession:
GSE19977
ID:
200019977
13.

Gene expression profiling of 91 hepatocellular carcinomas with hepatitis C virus etiology

(Submitter supplied) To characterize the genetic alterations that instigate hepatitis C virus-induced hepatocellular carcinoma (HCC), we conducted an integrative genomic analysis of 103 HCCs. Most tumors harbored 1q gain, 8q gain or 8p loss, with occasional alterations in 13 additional chromosome arms. In addition to amplifications at 11q13 in 6 tumors, 4 tumors harbored focal gains at 6p21 incorporating VEGFA, which were confirmed in 4 of 113 HCC in an independent validation set. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
91 Samples
Download data: CEL, TXT
Series
Accession:
GSE9843
ID:
200009843
14.

Comparison of TCF hyper-activated and control Huh7 cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by array; Expression profiling by SAGE
Platforms:
GPL570 GPL4
8 Samples
Download data: CEL, TAR
Series
Accession:
GSE11956
ID:
200011956
15.

IQGAP2 knockout model of hepatocellular carcinoma

(Submitter supplied) Whole body knockout mice lacking IQ-motif containing GTPase-activating protein 2 (IQGAP2) develop spontaneous hepatocellular carcinoma (HCC) at the age of 12 months and older (Schmidt et al., 2008). Hepatic transcript expression profiles were obtained for IQGAP2 knockout and wild-type control mice of two age groups, 6- and 24-month-old. Liver samples from 24-month-old IQGAP2 knockout mice were HCC tumors, livers from all other groups were tumor-free. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Dataset:
GDS4874
Platform:
GPL1261
12 Samples
Download data: CEL
Series
Accession:
GSE46646
ID:
200046646
16.
Full record GDS4874

IQGAP2 knockout model of hepatocellular carcinoma: time course

Analysis of liver from IQ-motif containing GTPase-activating protein 2 (IQGAP2) KOs at 6- and 24-months of age. IQGAP2 is a member of a multidomain scaffolding protein family that also includes IQGAP1 and IQGAP3. Results provide insight into a potential tumor suppressive role for IQGAP2 in liver.
Organism:
Mus musculus
Type:
Expression profiling by array, transformed count, 2 age, 2 genotype/variation sets
Platform:
GPL1261
Series:
GSE46646
12 Samples
Download data: CEL
17.

Reciprocal interaction of Wnt and RXR-α pathways in hepatocyte development and hepatocellular carcinoma

(Submitter supplied) Genomic analysis of human hepatocellular carcinoma (HCC) is potentially confounded by the differentiation state of the hepatic cell-of-origin. Here we integrated genomic analysis of mouse HCC (with defined cell-of-origin) along with normal liver development. We found a major shift in expression of Wnt and RXR-α pathway genes (up and down, respectively) coincident with the transition from hepatoblasts to hepatocytes. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Dataset:
GDS5818
Platform:
GPL7202
11 Samples
Download data: TXT
Series
Accession:
GSE65063
ID:
200065063
18.
Full record GDS5818

Normal liver developmental stages: embryonic and postnatal

Analysis of hepatoblasts, immature hepatocytes and hepatocytes from livers at different developmental timepoints (embryonic day 14, embryonic day 18, post-natal day 5, post-natal day 56). Results provide insight into molecular mechanisms underlying normal liver development.
Organism:
Mus musculus
Type:
Expression profiling by array, log2 ratio, 4 age, 3 cell type, 2 development stage sets
Platform:
GPL7202
Series:
GSE65063
11 Samples
Download data: TXT
19.

6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 4 is essential for p53-null cancer cells

(Submitter supplied) The bifunctional enzyme 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase-4 (PFKFB4) controls metabolic flux through allosteric regulation of glycolysis. Here we show that p53 regulates the expression of PFKFB4 and that p53-deficient cancer cells are highly dependent on the function of this enzyme. We found that p53 down-regulates PFKFB4 expression by binding to its promoter and mediating transcriptional repression via histone deacetylases. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
12 Samples
Download data: TXT
Series
Accession:
GSE89110
ID:
200089110
20.

Gene expression profiling in paired human hepatocellular carcinoma and liver parenchyma biopsies and normal liver biopsies.

(Submitter supplied) Hepatocellular carcinoma (HCC) is a heterogeneous disease, and despite considerable research efforts, no molecular classification of HCC has been introduced in clinical practice. The existing molecular classification systems were established using resected tumors, which introduces a selection bias towards patients without liver cirrhosis and with early stage HCCs. So far, these classification systems have not been validated in liver biopsy specimens from tumors diagnosed at intermediate and late stages. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL6244
125 Samples
Download data: CEL
Series
Accession:
GSE64041
ID:
200064041
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