Cancer Type

 

By integrating multi-dimensional genomic profiles, we comprehensively analyzed the recurrent genomic alterations of the genes encoding HAMPs in the Cancer Genome Atlas cohort (n>11,000, with samples of 33 cancer types from 27 primary sites) for copy number alterations, mutations, and transcript fusions.

 

Summary of TCGA specimens



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          RNA-seq          
 Abbreviations  Primary Site  Cancer Type  Normal  Tumor  SNP Array  Exome-seq  Transcript fusion 
LAML  Bone Marrow    Acute Myeloid Leukemia    0    151    191    141    179  
ACC  Adrenal Gland    Adrenocortical carcinoma    0    79    90    92    79  
BLCA  Bladder    Bladder Urothelial Carcinoma    19    408    408    411    408  
LGG  Brain    Brain Lower Grade Glioma    0    511    513    512    516  
BRCA  Breast    Breast invasive carcinoma    113    1    1    1    1  
CESC  Cervix    Cervical squamous cell carcinoma and endocervical adenocarcinoma    3    304    295    289    304  
CHOL  Bile Duct    Cholangiocarcinoma    9    36    36    36    36  
COAD  Colon    Colon adenocarcinoma    41    456    451    406    290  
ESCA  Esophagus    Esophageal carcinoma    11    161    184    184    184  
GBM  Brain    Glioblastoma multiforme    5    161    577    393    172  
HNSC  Head and Neck    Head and Neck squamous cell carcinoma    44    500    522    507    520  
KICH  Kidney    Kidney Chromophobe    24    65    66    66    66  
KIRC  Kidney    Kidney renal clear cell carcinoma    72    530    528    369    533  
KIRP  Kidney    Kidney renal papillary cell carcinoma    32    288    288    281    290  
LIHC  Liver    Liver hepatocellular carcinoma    50    371    370    363    371  
LUAD  Lung    Lung adenocarcinoma    59    513    516    567    516  
LUSC  Lung    Lung squamous cell carcinoma    49    501    501    485    501  
DLBC  Lymph Nodes    Lymphoid Neoplasm Diffuse Large B-cell Lymphoma    0    48    48    37    48  
MESO  Pleura    Mesothelioma    0    86    87    82    87  
OV  Ovary    Ovarian serous cystadenocarcinoma    0    374    582    412    422  

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