User: dantylee

gravatar for dantylee
dantylee10
Reputation:
10
Status:
New User
Location:
United States
Last seen:
2 years, 10 months ago
Joined:
4 years, 8 months ago
Email:
d*******@gmail.com

Posts by dantylee

<prev • 5 results • page 1 of 1 • next >
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Comment: C: How to identify the number of surrogate variables for SVA?
... Also wondering the same thing. Did you get an answer, chengzhao41? ...
written 2.8 years ago by dantylee10
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Comment: C: Comparing microarray to RNA-seq data
... Wondering if anyone has seen any publications where summary statistics were combined (per gene) across platforms to combine RNAseq and microarray data? ...
written 3.0 years ago by dantylee10
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Answer: A: Combining Microarray and RNAseq data
... I don't think clustering or other subgroup discovery methods would really be appropriate to perform on a combined data set. You could try applying the LIMMA/Voom normalization to the RNAseq data -- this corrects for total library size and attempts to capture mean-variance relationships and applie ...
written 3.0 years ago by dantylee10
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Resolving ambiguity around Seqmonk's exon annotations
... I have been working in the following pipeline: Map reads to HG19 Tophat2 => Read .bam files and quantitate reads per feature (e.g. "gene") in Seqmonk (using Seqmonk-provided grch37) =>  Export raw reads per feature for normalization / analysis in R. Seqmonk's feature naming scheme has always ...
seqmonk rna-seq written 4.1 years ago by dantylee10 • updated 4.0 years ago by Biostar ♦♦ 20
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Comment: C: Summary of alternative splicing from Cufflinks
... I too am seeking some tools to assess differences in isoform prevalence/ratios between two different groups (e.g. samples from affected and unaffected human subjects).   We've taken a slightly different pipeline, but it might provide you with some ideas, and identify some common goals.    Read Mapp ...
written 4.1 years ago by dantylee10

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