User: berry

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berry0
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Posts by berry

<prev • 5 results • page 1 of 1 • next >
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How to do subtype assignment for expression data
... Hi, I'm working with RNA-seq data of GBM (Glioblastoma) samples (tumor only). I want to see which subtype my samples are belong to, based on a previous study which divides GBM into 3 subtypes. Each of these subtypes has 50 signature gene list. What would be the best way of assigning my samples t ...
gbm subtype rna-seq written 4 days ago by berry0
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Comment: C: R org.Hs.eg.db matching ensembl gene ids with gene symbol
... Hi @Emily_Ensembl, I tried both and I got even less results with external_gene_name. I will send you an email with the list. From what I can tell those IDs that were not found in the database are either: - IDs that finish with _PAR_Y, which I don’t know what it means. Do you have any idea? Is ...
written 21 days ago by berry0
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Comment: C: R org.Hs.eg.db matching ensembl gene ids with gene symbol
... Hi, This is a very useful script, thank you! I have a question about the result that I got. I run this script for my 58283 Ensembl gene ids (eg. ENSG00000000003) , however, I end up with 57714 converted hgnc_symbol. Do you have any idea why it is happening and if there is way to get the deleted ...
written 25 days ago by berry0
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Comment: C: Different Copy Number Alteration Results from Fresh Frozen Tissue Sample and mat
... Thank you for your time and comment! ...
written 3 months ago by berry0
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Different Copy Number Alteration Results from Fresh Frozen Tissue Sample and matched Cell Line
... Hi everyone, I have whole genome sequencing data and I am trying to analyse copy number alterations. My samples are fresh frozen tissue samples and I have some matched cell lines from the same tumor tissue. However, sometimes, the results from the cell cultures don't match with the results of fres ...
scna cell line copy number shallow-seq written 3 months ago by berry0 • updated 3 months ago by i.sudbery5.3k

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Supporter 28 days ago, voted at least 25 times.

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