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. 2021 May 28;99(9):1293–1309. doi: 10.1007/s00109-021-02088-w

Table 1.

List of the database and server utilize in the study

Database Data type Analysis type Dataset Website link
ONCOMINE Gene expression Cancer vs. normal analysis

1. Broad Tumorscape

2. Cell Line Panel

3. DNA Copy Number

4. Multi-Cancer Panel

5. Normal Tissue Panel

6. TCGA Datasets

(https://www.ONCOMINE.org/resource/login.html)
GEPIA2 Gene expression Gene expression profile across all tumor samples and paired normal tissues TCGA/GTEx dataset (http://gepia2.cancer-pku.cn/)
GENT2 Gene expression Tissue-wide gene expression profile across paired tissues Public gene expression data sets (http://gent2.appex.kr/gent2/)
UALCAN Transcript per million Transcript per million RNA molecule was compared across different categories TCGA (http://ualcan.path.uab.edu/index.html)
UALCAN Promoter DNA methylation Promoter DNA methylation was compared across different categories using beta value TCGA (http://ualcan.path.uab.edu/index.html)
cBioPortal Genomic alteration Frequency of mutation, amplification , deep deletion and multiple alterations across specific cancer was analyzed TCGA (http://www.cbioportal.org/)
Mutation Mutation across TAP1 protein was determined for specific cancer
Mutation and copy number alterations Mutation and copy number alteration was identified in TAP1 mRNA expression for specific cancer
The Human Protein Atlas Protein expression Protein expression data was compared across different categories using immunohistochemistry. The tissue atlas (http://www.proteinatlas.org/)
PrognoScan Gene expression and patient prognosis Gene expression was analyzed comparing patient prognosis such as overall survival (OS), disease-free survival (DFS) and relapse-free survival for cancer and normal patient Public cancer microarray datasets (http://dna00.bio.kyutech.ac.jp/PrognoScan/) (https://kmplot.com/analysis/)
R2: Genomics Analysis and Visualization Platform Positively co-expressed genes Identification and visualization of positively co-expressed genes of different cancers TCGA

(https://hgserver1.amc.nl/)

(http://bioinformatics.psb.ugent.be/webtools/Venn)

Enricher Positively co-expressed genes Signaling pathway and gene ontology analysis of positively co-expressed genes in KEGG human pathways 2019, Panther 2016, GO Biological Process, GO Molecular Function (2018) and GO Cellular Component ranking by p-value TCGA (http://amp.pharm.mssm.edu/Enrichr/enrich#)