User: svlachavas

gravatar for svlachavas
svlachavas480
Reputation:
480
Status:
Trusted
Location:
Greece
Website:
https://www.linkedin.c...
Last seen:
3 weeks, 3 days ago
Joined:
3 years, 1 month ago
Email:
s*********@eie.gr

Posts by svlachavas

<prev • 133 results • page 1 of 14 • next >
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Comment: C: Quality control issues for mRNA sequencing fastq files based on FastQC, based on
... Dear WouterDeCoster, of course i have read your very useful post, and also found this specific part-my mistake here, as i did not mention specifically my target goal of downstream analysis, in order for your answer to be more helpful: our goal, is to essentially test for the over- or under-represe ...
written 11 weeks ago by svlachavas480
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Comment: C: Quality control issues for mRNA sequencing fastq files based on FastQC, based on
... Thank you very much for your useful link-so, you think that downstream analysis is still feasible ? or you think it would be biased ? ...
written 11 weeks ago by svlachavas480
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Comment: C: Quality control issues for mRNA sequencing fastq files based on FastQC, based on
... Dear WouterDeCoster, still not ok ? ...
written 11 weeks ago by svlachavas480
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Quality control issues for mRNA sequencing fastq files based on FastQC, based on Per Base Sequence Content
... Dear Community, i would like to ask some comments and suggestions concerning the interpretation of some initial quality control results of fastq files. In detail, in a current RNA-Seq project for gene expression data, based on 2 different cancer cell lines, mRNA sequencing was performed for 12 sam ...
mrnasequencing sequence rna-seq fastqc written 11 weeks ago by svlachavas480 • updated 11 weeks ago by WouterDeCoster32k
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Comment: C: customized clusterAlg of NMF in consensusClusterPlus
... Dear sugus, just from curiosity, i saw your very interesting post and implementation with NMF-did you got any "biologically" interesting or robust results with your above implementation ? I'm mainly asking because I'm also frequently using ConsensusClusterPlus for unsupervised class discovery in ca ...
written 11 weeks ago by svlachavas480
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Comment: C: Implementation of the COSMIC database for somatic variant annotation and filteri
... Thanks Kevin for the updates-concerning my current project and specific goal of analysis: we have for an initial number of 3 patients both whole exome sequencing data ( Small Cell Lung Cancer-Genomic DNA captured using Agilent in-solution enrichment methodology/paired-end 75 bases massively paral ...
written 12 weeks ago by svlachavas480
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Comment: C: Implementation of the COSMIC database for somatic variant annotation and filteri
... Dear Kevin, thank you very much for your comprehensive answer and comments-just some thoughts based on your suggestions- 1) So in your opinion, even though i have WES data, i should download the COSMIC Mutation Data, based on various points such as your the 5' and 3' UTR regions right ? even thoug ...
written 12 weeks ago by svlachavas480
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Implementation of the COSMIC database for somatic variant annotation and filtering pipeline for WES cancer data
... Dear Community, I would like to ask a question concerning the putative implementation of the COSMIC database, in a developed somatic filtering and annotation pipeline, based on WES data. In detail, this pipeline is related to paired samples from WES data of cancer patients, and has been briefly des ...
cosmic wes somatic variants variant annotation written 12 weeks ago by svlachavas480
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Comment: C: Download latest reference genome assembly for exome sequencing alignment and var
... Dear genomax, thank you for your information and comments- actually whole exome sequencing has been performed (Genomic DNA captured using Agilent in-solution enrichment methodology/paired-end 75 bases massively parallel sequencing on Illumina HiSeq4000) and i already have the fastq files. So, my n ...
written 3 months ago by svlachavas480
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Comment: C: Download latest reference genome assembly for exome sequencing alignment and var
... Thank you very much for your link ...
written 3 months ago by svlachavas480

Latest awards to svlachavas

Teacher 3 months ago, created an answer with at least 3 up-votes. For A: about microarray data analysis
Voter 5 months ago, voted more than 100 times.
Centurion 5 months ago, created 100 posts.
Scholar 9 months ago, created an answer that has been accepted. For A: Transcriptome Analysis Console (TAC) vs R Bioconductor
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: about microarray data analysis
Scholar 10 months ago, created an answer that has been accepted. For A: Transcriptome Analysis Console (TAC) vs R Bioconductor
Supporter 24 months ago, voted at least 25 times.
Teacher 2.8 years ago, created an answer with at least 3 up-votes. For A: about microarray data analysis
Scholar 3.0 years ago, created an answer that has been accepted. For A: Transcriptome Analysis Console (TAC) vs R Bioconductor

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