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Somatic mutation data

JR Jessica Roelands
PK Peter J. K. Kuppen
EA Eiman I. Ahmed
RM Raghvendra Mall
TM Tariq Masoodi
PS Parul Singh
GM Gianni Monaco
CR Christophe Raynaud
NM Noel F.C.C. de Miranda
LF Luigi Ferraro
TC Tatiana C. Carneiro-Lobo
NS Najeeb Syed
AR Arun Rawat
AA Amany Awad
JD Julie Decock
WM William Mifsud
LM Lance D. Miller
SS Shimaa Sherif
MM Mahmoud G. Mohamed
DR Darawan Rinchai
ME Marc Van den Eynde
RS Rosalyn W. Sayaman
EZ Elad Ziv
FB Francois Bertucci
MP Mahir Abdulla Petkar
SL Stephan Lorenz
LM Lisa Sara Mathew
KW Kun Wang
SM Selvasankar Murugesan
DC Damien Chaussabel
AV Alexander L. Vahrmeijer
EW Ena Wang
AC Anna Ceccarelli
KF Khalid A. Fakhro
GZ Gabriele Zoppoli
AB Alberto Ballestrero
RT Rob A.E.M. Tollenaar
FM Francesco M. Marincola
JG Jérôme Galon
SK Souhaila Al Khodor
MC Michele Ceccarelli
WH Wouter Hendrickx
DB Davide Bedognetti
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Somatic mutation calls from the TCGA MC3 Project were downloaded using R package TCGAmutations (v.0.3.0) using the function tcga_load() with parameters ‘COAD’ for study and ‘MC3’ for source. The downloaded Mutation Annotation Format (MAF) file contained 406 distinct TCGA tumor sample barcodes and 18,183 genes (Hugo Symbol). This file was filtered to only include nonsynonymous mutations (‘Frame_Shift_Del’, ‘Frame_Shift_Ins’, ‘In_Frame_Del’, ‘In_Frame_Ins’, ‘Missense_Mutation’, ‘Nonsense_Mutation’, ‘Splice_Site’, ‘Translation_Start_Site’, ‘Nonstop_Mutation’), analogous to the variant filter applied to the AC-ICAM somatic mutation calls.

Copyright and License information: The Author(s) ©2023
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