GTEx database:该数据库是健康人贡献的组织的RNASeq的数据。还有snp信息。将snp信息与gene的表达水平结合起来。 donor: donor贡献的tissue。 gene表达水平(用FPKM表示gene的表达水平)受其周围snp的影响,这样的gene叫做egene。这样的snp叫做eQTL。即:snp会影响gene的表达。 按照正常情况,可以得出结论:不同人的相同组织...
由于TCGA(The Cancer Genome Atlas)等数据库主要关注癌症组织的数据,对于正常组织的数据相对较少,因此GTEx数据库的加入可以使得分析结果更加准确。GTEx数据库的另一个重要功能是提供了eQTL(expression quantitative trait loci)数据,即基因表达...
Gene transcripts per million (TPM) data were downloaded from the UCSC Xena database, which included ACC (The Cancer Genome Atlas,n= 77) and normal samples (Genotype Tissue Expression,n= 128). 然后差异分析流程是: Of the 60,498 genes in each sample, we removed genes with a mean TPM ≤ ...
由于TCGA(The Cancer Genome Atlas)等数据库主要关注癌症组织的数据,对于正常组织的数据相对较少,因此GTEx数据库的加入可以使得分析结果更加准确。GTEx数据库的另一个重要功能是提供了eQTL(expression quantitative trait loci)数据,即基因表达水平受其周围SNP(单核苷酸多态性)的影响,这样的基因被称为eGene,对应的SNP被...
The Kaplan-Meier survival curve was drawn and the Logrank test was used to analyze the influence of AEBP1 gene expression in GBM and LGG tumor tissues on the prognosis of glioma patients. Results The expression of AEBP1 in the tumor tissues of overall GBM and the ...
Methods:TPM expressions of normal GTEx samples are paired with that in TCGA cohort (from the tcga_RSEM_gene_tpm and gtex_RSEM_gene_tpm dataset in the USCS Xena database). The data is standardized by converting the data into unit-free Z-Score values by tumor by (x-μ)/σ. Z-Score ...
Expression of MCTS1 in breast cancer and non-matched normal tissues in the TCGA and GTEx databases 再来看mehods Data Collection and Processing We collected the mRNA expression profiles and clinical data of patients with breast cancer from the Cancer Genome Atlas (TCGA) database and the Genotype ...
gwascontinuous-integrationgene-expressiongtextwas UpdatedMar 25, 2021 Python client to the cimr-d database for continuous integration and analysis using cimr gwasdatabasecontinuous-integrationgtexeqtltwas UpdatedJan 22, 2021 Shell React components for visualisations from the GTEx web portal ...
category = "Transcriptome Profiling", data.type = "Gene Expression Quantification", workflow.type = "HTSeq - Counts") }) if (is.null(query)){ print(paste0("No Counts data of solid normal tissue for ", cancer_select )) } else{ GDCdownload(query, method = "api", files.per.chunk =...
The extracellular matrix (ECM) has historically been explored through proteomic methods. Whether or not global transcriptomics can yield meaningful information on the human matrisome is unknown. Gene expression data from 17,382 samples across 52 tissues,