This dataset contains Whole Exome Sequencing (WES) and RNA sequencing (RNAseq) data from BostonGene orders for GIMO physicians. All raw data from MDACC orders were transferred to Genomic Medicine through Kenna Shaw’s team, with processing handled by Jianhua Zhang’s group. The GIMO patient data has been retrieved and transferred to the following location:
HPC storage: /rsrch9/home/gi_med_onc/GIMO_CRC_CentralizedDataStorage/GIMO_BostonGene/
The annotation results will be uploaded to Foundry in:
Foundry folder: /MDACC/Colorectal Cancer: LAB09-0373/09-Projects_with_Multiple_Tumor_Locations/BostonGene (not yet uploaded).
For access requests, please contact Kangyu Lin and cc Scott Kopetz.
Data statistics:
All GIMO orders by 2-11-2025 (Including failures):
Transfer_25Feb2025:
| FASTQ | Annotation | |||||
| RNASeq-tumor | WES-normal | WES-tumor | WES-tumor/normal_pair | RNA_expression | Somatic_mutations | Copy_number |
| 375 | 384 | 380 | 380 |
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This is the first transfer directly from BostonGene (the FASTQ files are also included in Transfer_25Feb2025):
The FASTQ files for RNAseq and WES data are transferred from BostonGene. Most samples include processed AddOn data: expression data (TPM) and somatic mutations.
Data were transferred to HPC: /rsrch5/home/gi_med_onc/GIMO_CRC_CentralizedDataStorage/GIMO_BostonGene/.
Sample information and AddOn data are available on Foundry under /MDACC/Colorectal Cancer: LAB09-0373/09-Projects_with_Multiple_Tumor_Locations/BostonGene.
Number of Data:
| FASTQ | AddOn | ||||||
| RNASeq-tumor | WES-normal | WES-tumor | WES-tumor/normal_pair | Expressions | Somatic Mutations | Expressions_Somatic Mutations | MRN |
| 241 | 246 | 244 | 244 | 281 | 295 | 277 | 291 |
Last Updated: 3/14/2025