The Glioma Longitudinal Analysis Consortium

syn17038081

Created By Roel Verhaak roelverhaak

Questions about GLASS data?
transcript count matrix all samples
cancer driving mutations
Gene and Transcript Expression Matricies Question
WGD status
How to train to determine molecular subtypes?
TP53 status
Cell Types Annotation
Question about variants_passgeno file
Access to raw data?
pre-processing of TCGA samples
Histological description
WHO CNS5 reannotation
Different genes in transcript_count_matrix_all_samples.tsv and gene_tpm_matrix_all_samples.tsv?
Cell signature reference
Germline Whole Genome Sequencing (WGS) data
ref_counts and alt_counts for PyClone
Tissue Source Coding
Are all "TP" samples in the Platinum Pairs dataset TMZ and radiation *always* naive?
SNV data and IDH1 mutations in the dataset?
Likely Covariate Labeling error in syn31121219
Where can I find more detailed descriptions of the contents of the Beta files?
Data Dictionary for Files?
COSMIC signature analysis
copy number variation matrix
Time points of treatment relative to sample?
Access to multiplexed immunofluorescence images
Question about GLASS RNA-seq data
Mutation counts are the same for both samples from each patient?
Hypermutators
Variant data on GLSS-SN-0005
DNA data for platinum set
Matching pyclone table to variant table
Reference annotations and ref_gene table errors
Survival data for paired RNA Seq
HLA typing results
Access to recent release of GLASS data
GLASS Consortium data access
Can you share the input files for reproduce the figures?
Is there a merged (multisample vcf) with all the GLASS data?
Difference between variants_anno and variants_passgeno tables
Meaning of the tissue source code
Problems for access the data in GLASS
Gold set, silver set?
RNA-seq transcripts
Probe manifest for methylation data?
Grade at diagnosis?
Driver Genes (SNV and CNV) Analysis
Clarification of values in the analysis_coverage table.
Uploading tables analysis.gatk_seg_stats and analysis.gatk_aneuploidy
Tables under ref.
Recreating the Table creating Figure 3.a from the "Longitudinal molecular trajectories of diffuse glioma in adults" paper
Gene expression and methylation data described in the paper
Driver gene nominations.
What does ssm2_pass_call in variants_passgeno table mean?
Access to the published files and data
Mutation Burden for GLSS
RNA data
TCGA (Verhaak) Subtypes?
Github Access Request
Hypermutator Status
Prevalence (and impact) of neutral evolution in paired samples?
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