Line 1 CRC IP MS

Data are available via ProteomeXchange with identifier PXD013743.

contact moghbaie@rockefeller.edu for any questions

06/06/2019

We had 10 groups as follow:

Site of Tumor	Condition	Tumor	Diagnosis	IHC staining source	Version
Ovary	Igg	A	Krukenberg Carcinoma	Very very strong L1 expresse	1
Ovary	Normal	A	Krukenberg Carcinoma	Very very strong L1 expresse	1
Ovary	Igg	A	Krukenberg Carcinoma	Very very strong L1 expresse	2
Ovary	Normal	A	Krukenberg Carcinoma	Very very strong L1 expresse	2
Liver	Igg	B	Metastatic Rectal Adenocarcinoma	Strong 3/3 in liver and node	1
Liver	Normal	B	Metastatic Rectal Adenocarcinoma	Strong 3/3 in liver and node	1
Liver	Tumor	B	Metastatic Rectal Adenocarcinoma	Strong 3/3 in liver and node	1
Colon	Igg	C	Adenocarcinoma	2/3 expression	1
Colon	Normal	C	Adenocarcinoma	2/3 expression	1
Colon	Tumor	C	Adenocarcinoma	2/3 expression	1

Project code and data is organized in following order:

• src
• Input_data
• Image

Project Pipeline:

QC:

Imputation:

Comparison before - after imputation:

Average intensities before - after imputation:

ANOVA result:

Venndiagram

Volcano plots and mutations

comparison between Tumor C (colon) against ORF1 and IgG

comparison between Tumor C (colon) and normal tissue against ORF1

comparison between Tumor B (liver) against ORF1 and IgG

Mutated peptides in significant ORF1 loci in tumor B against ORF1 and IgG

Mutation frequency in tumor B against ORF1 and IgG

comparison between Tumor B (liver) and normal tissue against ORF1

Mutated peptides in significant ORF1 loci in Tumor B and normal tissue against ORF1

Mutation frequency in tumor B and normal tissue against ORF1

comparison between Tumor A (ovary) against ORF1 and IgG - phase 1

Mutated peptides in significant ORF1 loci in Tumor A against ORF1 and IgG - phase1

Mutation frequency in tumor A against ORF1 and IgG

comparison between Tumor A (ovary) against ORF1 and IgG - phase 2

Mutated peptides in significant ORF1 loci in Tumor A tissue against ORF1 and IgG - phase2

Mutation frequency in tumor A and normal tissue against ORF1

Integrated plot:

Venndiagram:

MDS plot:

Polar map of proteins that were significant in two conditions or were observed in previous researches and were significant in at least one condition:

Heat map of all significant proteins across different tissues: