Supplementary Data

for the paper

AllergoOncology biomarker expression data identifies differentially regulated pathways and subnetworks in allergic diseases and cancer

Shazia Firdous ¹, Sudipto Saha ^{1, *}

¹ Department of Biological Sciences, Bose Institute, Kolkata, India-700091
^* Corresponding author

Supplementary Tables and Legends

The supplementary file includes all the source data tables for the differentially expressed biomarkers used for comparison analysis between allergy and cancer.

Table S1	Source data tables depicting the list of all biomarkers associated with allergic diseases (n=4403) downloaded from the DAABV2 database. The tables provide information for protein-coding biomarkers. This file contains four sheets. Each sheet has 13 columns containing relevant information regarding the gene name of the biomarker, HGNC gene name, description, aliases, UniProt ID, organism, disease phenotype, sample, technique, omic, study, expression, and reference. Table S1A: List of all human biomarkers associated with allergic diseases reported in DAABV2. Table S1B: List of human biomarkers associated with asthma reported in the DAABV2. Table S1C: List of human biomarkers associated with allergic rhinitis reported in the DAABV2. Table S1D: List of human biomarkers associated with dermatitis/eczema reported in the DAABV2.	1.3 MB (XLSX)	Download
Table S2	List of all differentially expressed cancer-associated biomarkers reported in the BioXpress database for five different types of cancer, including bladder, breast, head and neck, lung, and pancreatic cancer. This file contains five sheets. Each sheet has 8 columns containing relevant information regarding the primary feature BioXpress ID of biomarker, gene name, subject ratio, log2FC, P-value, adjusted P- value, significance, and expression trend. Table S2A: List of all differentially expressed bladder cancer- associated biomarkers reported in the BioXpress database. Table S2B: List of all differentially expressed breast cancer-associated biomarkers reported in the BioXpress database. Table S2C: List of all differentially expressed head and neck cancer- associated biomarkers reported in the BioXpress database. Table S2D: List of all differentially expressed lung cancer-associated biomarkers reported in the BioXpress database. Table S2E: List of all differentially expressed pancreatic cancer- associated biomarkers reported in the BioXpress database.	2.5 MB (XLSX)	Download
Table S3	Source data table for high throughput marker (HTM) and low throughput marker (LTM) of CSC downloaded from BCSCdb database for five different types of CSC including(bladder, breast, head and neck, lung, and pancreatic. This file contains five sheets. Each sheet has nine columns containing relevant information regarding the CSC marker gene name, type of marker, expression, HGNC ID, cancer type, histological type, cell line, CSC method, and reference ID. Table S3A: List of all HTM and LTM of bladder CSC reported in BCSCdb. Table S3B: List of all HTM and LTM of breast CSC reported in BCSCdb. Table S3C: List of all HTM and LTM of head and neck CSC reported in BCSCdb. Table S3D: List of all HTM and LTM of lung CSC reported in BCSCdb. Table S3E: List of all HTM and LTM of pancreatic CSC reported in BCSCdb.	973 KB (XLSX)	Download
Table S4	The source data table provides a list of all the AOB (common biomarkers between allergic disease and cancer) for five different types of cancer, including bladder, breast, head and neck, lung, and pancreatic cancer. This file has 5 sheets. Each sheet contains 13 columns containing relevant AOB information regarding AOB gene name, sample source in allergic disease, expression trend in allergy, expression trend in respective cancer, AOB identified common in asthma and respective cancer, expression trend in asthma, expression trend in respective cancer, AOB identified common in between allergic rhinitis and respective cancer, expression trend in allergic rhinitis, expression trend in respective cancer, AOB identified common in eczema and respective cancer, expression trend in allergy and expression trend in respective cancer. Table S4A: All AOB lists obtained common between allergic disease and bladder cancer. Table S4AI (all AOB for allergic disease and bladder cancer), Table S4AII (AOB for asthma and bladder cancer), Table S4AIII(AOB for allergic rhinitis and bladder cancer), S4AIV (AOB for eczema and bladder cancer). Table S4B: All AOB lists obtained common between allergic disease and breast cancer. Table S4BI (all AOB for allergic disease and breast cancer), Table S4BII (AOB for asthma and breast cancer), Table S4BIII (AOB for allergic rhinitis and breast cancer), S4BIV (AOB for eczema and breast cancer). Table S4C: All AOB lists obtained common between allergic disease and head and neck cancer. Table S4CI (all AOB for allergic disease and head and neck cancer) Table S4CII (AOB for asthma and head and neck cancer), Table S4CIII (AOB for allergic rhinitis and head and neck cancer), S4CIV (AOB for eczema and head and neck cancer). Table S4D: All AOB lists obtained common between allergic disease and lung cancer. Table S4DI (all AOB for allergic disease and lung cancer), Table S4DII (AOB for asthma and lung cancer), Table S4DIII (AOB for allergic rhinitis and lung cancer), S4DIV (AOB for eczema and lung cancer). Table S4E: All AOB lists obtained common between allergic disease and pancreatic cancer. Table S4EI (all AOB for allergic disease and pancreatic cancer) Table S4EII (AOB for asthma and pancreatic cancer)	308 KB (XLSX)	Download
Table S5	The source data table provides a list of all the AOBsc (common biomarkers between allergic disease and CSC) for five different types of CSC, including bladder, breast, head and neck, lung, and pancreatic CSC. This file has 5 sheets. Each sheet contains 13 columns containing relevant AOBsc information regarding AOBsc gene name, sample source in allergic disease, expression trend in allergy, expression trend in respective CSC, AOBsc identified common in allergic disease and asthma and respective CSC, expression trend in respective disease, AOBsc identified common in between allergic rhinitis and respective CSC, expression trend in respective disease condition, AOBsc identified common in eczema and respective CSC, expression trend in respective disease. Table S5A: All AOBsc lists obtained common between allergic disease and bladder CSC. Table S5AI (all AOBsc for allergic disease and bladder CSC), Table S5AII (AOBsc for asthma and bladder CSC), Table S5AIII (AOBsc for allergic rhinitis and bladder cancer), S5AIV (AOBsc for eczema and bladder cancer). Table S5B: All AOBsc lists obtained common between allergic disease and breast CSC. Table S5BI (all AOBsc for allergic disease and breast CSC), Table S5BII (AOBsc for asthma and breast CSC), Table S5BIII (AOBsc for allergic rhinitis and breast CSC), S5BIV (AOBsc for eczema and breast CSC). Table S5C: All AOBsc lists obtained common between allergic disease and head and neck CSC. Table S5CI (all AOBsc for allergic disease and head and neck CSC), Table S5CII (AOBsc for asthma and head and neck CSC), Table S5CIII (AOBsc for allergic rhinitis and head and neck CSC), S5CIV (AOBsc for eczema/dermatitis and head and neck CSC). Table S5D: All AOBsc lists obtained common between allergic disease and lung CSC. Table S5DI (all AOBsc for allergic disease and lung CSC), Table S5DII (AOBsc for asthma and lung CSC), Table S5DIII (AOBsc for allergic rhinitis and lung CSC), S5DIV (AOBsc for eczema/dermatitis and lung CSC).	100 KB (XLSX)	Download
Table S6	The source data table depicts the list of all positively associated and inversely associated AOB for four different types of cancer, including bladder, breast, head and neck, and lung cancer. This file has 4 sheets. Each sheet contains six columns containing relevant information regarding the positively associated AOB identified common in allergy and respective cancer, expression trend in allergy, expression trend in respective cancer, Inversely associated AOB identified common in allergy and respective cancer, expression trend in allergy and expression in respective cancer. Table S6A: List of all positively associated and inversely associated AOB obtained common between allergic disease and bladder cancer. Table S6AI (List of all positively associated AOB for allergic disease and bladder cancer), Table S6AII (List of all inversely associated AOB for allergic disease and bladder cancer). Table S6B: List of all positively associated and inversely associated AOB obtained common between allergic disease and breast cancer. Table S6BI (List of all positively associated AOB for allergic disease and breast cancer), Table S6BII (List of all inversely associated AOB for allergic disease and breast cancer). Table S6C: List of all positively associated and inversely associated AOB obtained common between allergic disease and head and neck cancer. Table S6CI (List of all positively associated AOB for allergic disease and head and neck cancer), Table S6CII (List of all inversely associated AOB for allergic disease and head and neck cancer). Table S6D: List of all positively associated and inversely associated AOB obtained common between allergic disease and lung cancer. Table S6DI (List of all positively associated AOB for allergic disease and lung cancer), Table S6DII (List of all inversely associated AOB for allergic disease and lung cancer).	161 KB (XLSX)	Download
Table S7	The source data table contains the list of AOB obtained from four small subnetworks. The subnetwork AOB information was collected from the DAABV2 database. This file has 1 sheet and 7 columns. The columns provide information regarding subnetwork Number, DAABV2 ID, AOB name, Disease phenotype, sample source , expression, and reference ID.	17 KB (XLSX)	Download
Table S8	The source data table contains the list of AOB obtained from four small subnetworks. The subnetwork AOB information was collected from the BioXpress database. This file has 1 sheet and 10 columns. The columns provide information regarding the subnetwork Number, Gene name, BioXpress DOID, cancer type, subject ratio, log2FC, P- value, adjusted P-value, significance, expression trend, and average expression trend.	18 KB (XLSX)	Download
Table S9	The source data table contains the relevant information regarding the median estimated survival for subnetwork AOB. The subnetwork AOB survival information was collected from the UALCAN TCGA database. This file has 1 sheet and 8 columns. The columns provide information for subnetwork number, AOB, estimated survival days(Up/Down Expression), number of patients (Up/Down Expression), Log-rank p-value, higher survival patterns observed in the Up or Down expression category, and higher patient numbers.	17 KB (XLSX)	Download