19 Mar 2023
As Next Generation Sequencing becomes a first stop for most analysis downstream - DNASeq, RNASeq, ChIPSeq, ATACSeq, BSSeq .... etc, here is an elaborate take on the evolution of sequencing techniques -
youtube.com/watch?v=_aDrFi4O…
#NGS #Genomics #Sequencing #Nanopore #Illumina
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30 Sep 2022
mHapTk: A comprehensive toolkit for the analysis of DNA methylation haplotypes. #BSseq #DNAmethylation #Haplotypes #Bioinformatics
academic.oup.com/bioinformat…
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29 Apr 2022
Nick Eagles presented an overview and a tutorial on #BiocMAP which is our whole genome bisulfite sequencing #WGBS @nextflowio processing pipeline
#jaffelab #rafalib #bsseq get some shoutouts =) @Bioconductor
#rstats
📜 doi.org/10.1101/2022.04.20.4…
🎥 youtu.be/pI8-myU8ZDs
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22 Apr 2022
#BiocMAP is a @nextflowio pipeline for processing whole genome bisulfite sequencing #WGBS data using a GPU (@nvidia) high performance computing (HPC) system for running #arioc a module for post-processing to generate #bsseq @Bioconductor objects (by @PeteHaitch @KasperDHansen)
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30 Sep 2020
updated book draft "computational #genomics with R"
compgenomr.github.io/book/.
Includes #Rstats ,#Chipseq, #MachineLearning, #Statistics, #multiomics, #BSseq and #rnaseq chapters.
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6 Nov 2019
We are delivering our bisulphite sequencing DNA Methylation Data Analysis training course today
#methylation #NGS #sequencing #BSseq #bigdata #DataAnalysis #research #genomics #epigenetics
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10 Jul 2019
We have a pretty decent CWL pipeline here:
github.com/genome/analysis-w…
QC scripts may need to be dropped, but alignments, methratio calling, etc should be fine. For calling differentially methylated regions, we like metilene, and some of the bsseq R package functions.
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8 May 2019
8 May 2019
DNA methylation likely affects many cool and interesting phenotypes, but do we have the tools to manipulate it?
In our paper (out today!): journals.uchicago.edu/doi/ab… we argue 5-aza-2'-deoxycytidine can be used to disrupt DNA methylation at a genome-wide scale in Nasonia wasps!
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10 Mar 2019
check out our updated book draft "computational #genomics with R" compgenomr.github.io/book/ . We added #BSseq, #RNAseq, read processing chapters. There are most likely typos & mistakes, you can help us improve it compgenomr.github.io/book/ho…
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27 Jun 2018
Teaching all about #DNA #Methylation #BSseq today @Cambridge_Uni
Check out our training courses at bioinformatics.babraham.ac.u…
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27 Jun 2018
Today we're diving in to DNA methylation data analysis #BSseq #bioinformatics #training @Cambridge_Uni
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24 May 2018
Sharing our #BSseq expertise @MDC_Berlin @BIMSB_MDC and all of our materials are available fully open access online bioinformatics.babraham.ac.u…
23 May 2018
Day 1 #compgen2018: #BSseq #methylation analysis course. @simon_andrews & @FelixNmnKrueger of @babraham_bioinf gave a fantastic intro to #BSseq analysis. @MDC_Berlin @BIMSB_MDC @denbiOffice. Their material is at bioinformatics.babraham.ac.u…
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23 May 2018
Day 1 #compgen2018: #BSseq #methylation analysis course. @simon_andrews & @FelixNmnKrueger of @babraham_bioinf gave a fantastic intro to #BSseq analysis. @MDC_Berlin @BIMSB_MDC @denbiOffice. Their material is at bioinformatics.babraham.ac.u…
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23 May 2018
We are covering Bisulfite-seq background, alignment and QC today in the computational genomics course @MDC_Berlin / @BIMSB_MDC
#BSseq #methylation #sequencing #QC
10 Oct 2017
new computational genomics course @MDC_Berlin/@BIMSB_MDC focusing on methylation analysis using BS-seq. apply at compgen.mdc-berlin.de
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Paper alert! Genome-wide base-resolution mapping of DNAme in single cells using single-cell BSseq @NatureProtocols rdcu.be/pam1
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12 Feb 2016
@KasperDHansen I have a few questions on the t-statistic cutoff to find DMRs with #bsseq: support.bioconductor.org/p/7… #rstats #bioinformatics
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5 Feb 2016
違うよ。Oct4-GFPの発現が刺激に特異的ではなかったので小保方さんの関わったパートも再現できなかった。(手記によれば)小保方さんに同情的だった丹羽さんでさえ非特異的であると結論した。その上、BSseqの捏造がある。何をか况んや
STAP細胞以降の実験成果がねつ造であれば、STAP幹細胞、FI幹細胞、キメラマウスがSTAP細胞によって作れないのは当たり前なので、「STAP細胞は存在しない」というロジックが狂ってくる。STAP細胞が存在しないのではなく「若山氏が担当した部分」が存在しないのだ。
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26 Apr 2011
Yahoo Buys IntoNow – An App that Identifies TV Shows http://om.ly/BSsEq
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