Data from Omics Studies in Liver Disease
Primary Sclerosing Cholangitis
Hepatocellular Carcinoma | ||
---|---|---|
Study Description | Omics | Link to Data |
The Cancer Genome Atlas for human tumor/ adjacent tumor/ normal samples |
|
TCGA |
Exosomal or serum miRNA in liver disease | Non-coding RNA: micro RNA, long non-coding RNA, small non-coding RNA | GSE85680 |
Non-coding RNA profiling from 100 HCC patients | Non-coding RNA: micro RNA, long non-coding RNA, small non-coding RNA | GSE28854 |
Tumor-adjacent liver tissues from 263 Japanese patients who underwent curative surgery for HCC | Transcriptome expression | GSE70297 |
Expression data from hepatocellular carcinoma PDX |
|
GSE90653 |
218 HCC, 10 Cirrhotic and 10 considered Normal patients + 12 liver cell lines | Non-coding RNA: micro RNA, long non-coding RNA, small non-coding RNA | GSE74618 |
Comparison of hepatocellular carcinoma with non-cancerous liver tissue. | Transcriptome expression | GSE364 |
801 primary HCC developed in 720 patients | Transcriptome expression | GSE129322 |
35 paired HCC and non-tumor tissues | Transcriptome expression | GSE124535 |
Gut microbiota analysis associated with hepatocellular carcinoma | Microbiome 16s rRNA | GSE108847 |
Comprehensive molecular characterization of liver cancer and inheritance of the phenotypic traits during tumor recurrence |
|
GSE112791 |
Circulating microRNAs from HCC patients recruited in the Ph3 RESORCE trial | Non-coding RNA: micro RNA, long non-coding RNA, small non-coding RNA | GSE119221 |
Gene expression profiling of chronic hepatitis B induced HCC and adjacent-normal tissues | Transcriptome expression | GSE121248 |
Molecular predictors of prevention of recurrence in hepatocellular carcinoma with sorafenib as adjuvant treatment in the phase 3 STORM trial | Transcriptome expression | GSE109211 |
Integrative Epigenetic Analysis Reveals Therapeutic Targets to the DNA Methyltransferase Inhibitor SGI-110 in Hepatocellular Carcinoma Cells |
|
GSE105067 |
MicroRNA and gene expression profile on 64 HCC tumor patients |
|
GSE116182 and GSE116174 |
Single cell analysis reveals cancer cell heterogeneities in hepatocellular carcinoma | Transcriptome expression | GSE103591 |
Molecular Signature of Hepatitis D Virus-Associated Hepatocellular Carcinoma | Transcriptome expression | GSE107170 |
Molecular heterogeneity of multinodular hepatocellular carcinoma |
|
GSE65373 |
Integrative genomic analysis in HCC samples |
|
GSE109361 |
107 samples covering 9 stages of HCC | Transcriptome expression | GSE89377 |
mRNA profiling of 64 HCC and 30 non-tumor | Transcriptome expression | GSE87630 |
lncRNA profiling on 175 serum samples | Non-coding RNA: micro RNA, long non-coding RNA, small non-coding RNA | GSE78160 |
HCC and CCA from the Thailand Initiative in Genomics and Expression Research for Liver Cancer (TIGER-LC) |
|
GSE76213 |
38 pairs of tumor tissues and adjacent non-tumor tissues from HCC patients |
|
GSE84006 |
115 primary tumor tissue samples and 52 adjacent non-tumor tissues samples derived from 115 HCC patients | Transcriptome expression | GSE76427 |
The molecular landscape of HCC with portal vein tumor thrombosis |
|
GSE77276 |
RNA-seq of 50 paired HCC | Transcriptome expression | GSE77314 |
60 biopsy pairs from HCC patients and 5 normal liver biopsies | Transcriptome expression | GSE64041 |
Single Cell triple omics sequencing reveals genetic and epigenetic heterogeneity in HCC | Transcriptome expression | GSE65364 |
Primary and adjacent non-malignant tissue samples of 100 HCC patients |
|
GSE62044 |
Samples included 48 HBsAg carriers who developed HCC and 48 HBsAg carriers who did not during follow-up | Methylation | GSE78904 |
ctDNA methylation markers in diagnosis and prognosis of HCC (serum of 1221 HCC patients and from 970 healthy controls) | Methylation | GSE93203 |
37 paired genomic DNA from patients with hepatitis virus-related HCC | Methylation | GSE89852 |
Primary Biliary Cirrhosis | ||
Study Description | Omics | Link to Data |
Whole blood samples from 90, 45, 95 and 93 patients with PBC, PSC, CD (Crohn’s disease), and UC (ulcerative colitis), respectively, and 47 healthy controls. | Transcriptome expression | GSE119600 |
Primary Sclerosing Cholangitis | ||
Study Description | Omics | Link to Data |
Whole blood samples from 90, 45, 95 and 93 patients with PBC, PSC, CD (Crohn’s disease), and UC (ulcerative colitis), respectively, and 47 healthy controls. | Transcriptome expression | GSE119600 |
Non-Alcoholic SteatoHepatitis | ||
Study Description | Omics | Link to Data |
Tumor-adjacent liver tissues from 263 Japanese patients who underwent curative surgery for HCC | Transcriptome expression | GSE70297 |
C (control=14), H (healthy obese=27), S (steatosis=14) and N (nash=18) | Transcriptome expression | GSE48452 |
Liver biopsies obtained from healthy normal weight (n=14) and obese (n=12) individuals, NAFL (n=15) and NASH (n=16) patients | Transcriptome expression | GSE126848 |
152 patients at baseline (44 no NASH, 104 NASH, 4 undefined) and 79 patients (54 no NASH, 22 NASH, 3 undefined) at 1 year follow-up (38 diet restriction [Diet], 41 bariatric surgery [BS]) | Transcriptome expression | GSE83452 |
63 participants (20 simple steatosis, 19 NASH, 24 healthy control) | Transcriptome expression | GSE89632 |
HCV 64 samples; HBV 4 samples; NASH 7 samples; healthy 12 | Non-coding RNA: micro RNA, long non-coding RNA, small non-coding RNA | GSE33857 |
35 mild NAFLD (33 unique samples) and 24 advanced NAFLD (23 unique sample) | Methylation | GSE49542 |
Alcoholic Hepatitis | ||
Study Description |
Omics |
Link to Data |
Liver RNA-seq (Hiseq2000, Illumina): 10 Normal liver, 18 severe AH (biopsies), 11 severe AH (explants), 12 Early Alcoholic Steatohepatitis (eASH), 10 HCV-related Cirrosis, 9 NAFLD, 9 HCV-chronic infection no cirrhosis; Liver DNA-methylomic chip (EPIC-infinium, Illumina): 5 normal livers, 6 severe AH | Methylation
Transcriptome expression |
dbGaP-AH |
Severe alcoholic hepatitis treated with corticosteroids (array & nanostring) | Transcriptome expression | GSE94417 |
Cell Line | ||
Study Description | Omics | Link to Data |
Cancer Cell Line Encyclopedia for liver cell lines | Methylation
Copy number variation/ mutation/ structural variation/ SNP; Transcriptome expression; Non-coding RNA: micro RNA, long non-coding RNA, small non-coding RNA; Protein expression |
CCLE |
Single cell analysis reveals cancer cell heterogeneities in hepatocellular carcinoma | Transcriptome expression | GSE103591 |
Integrative genomic analysis in HCC samples | Copy number variation/ mutation/ structural variation/ SNP
Transcriptome expression |
GSE109361 |
Single Cell triple omics sequencing reveals genetic and epigenetic heterogeneity in HCC | Methylation
Transcriptome expression |
GSE65364 |
11,215 tumors and 29 different tissues correlate with response to 265 compounds profiled in 1,001 cancer cell lines | Methylation | GSE68379 |
156 primary tissues and 25 cultured normal and HCC cell lines | Methylation | GSE60753 |