42 results in 0.0022 seconds.
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Transcription factor colocalization p-values
I have ChIPSeq peak data for TF A and TF B in bed format. On examining these in a genome browser together, I see that there are many instances when TFBS... -
H3K27ac ChIP - Why do I get mostly large fragments IP'ed shown by Bioanalyzer pre lib
Hi all. I think I've read all the old similar threads, but none of them had a definitive solution and I'm still stuck with this issue. So...
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Integration of ATACseq data with ChIPseq data
Hi all, I am experiencing some difficulties in the integration of ATACseq data with K27me3 ChIP data. Peaks were called with MACS2 --nomodel --extsize75... -
Introducing Skymap: a single data matrix for each omic layer for each species
Skymap is a standalone database that aims to offer:
1. a single data matrix for each omic layer for each species that spans >200k sequencing...Last edited by brianytsui; 08-12-2018, 04:15 PM. -
Chip-seq data questions
Hello
I need work with Chip-seq of 3 conditions (WT, C and V). It’s single-end.
When I saw the data, questions born:
1.... -
Pol III chip-seq experimental design
hi all,
we are planning on doing a ChIP-Seq experiment trying to identify PolIII binding sites in yeast and mouse.
As I am not really sure... -
Training in Data Integration, Analysis and Visualization @ NIH, USA, Dec 13-16, 2016
Training in Data Integration, Analysis and Visualization
Dec 13-16, 2016
Where?
National Institutes... -
Training in Data Integration, Analysis and Visualization @ NIH, USA
Training in Data Integration, Analysis and Visualization
Dec 13-16, 2016
Where?
National Institutes... -
Training in Data Integration, Analysis and Visualization @ NIH, USA, Dec 13-16, 2016
Training in Data Integration, Analysis and Visualization
Dec 13-16, 2016
Where?
National Institutes... -
Negative pileup in MACS?
I am using MACS2 on ChIP-seq data. In the resulting <name>_peaks.xls file, I had understood the "pileup" column to be something like the... -
extending reads in ChIP-Seq analysis
Hi,
we're working on a ChIP-Seq data set. I have read in some tutorials and workflows that after mapping the reads, they should be extended... -
All ChIP Seq Reads failing to Align to reference genome
Hello NGS community,
I'm new to NGS analysis. I have some chipseq data for a transcription factor. The sequencing facility provided data as CRAM... -
MACS2 broad peak calling
Is there an explanation for what the broad-cutoff means for broad peak calling for MACS. In the documentation for MACS they say it is a q-value cutoff... -
Nextera XT for prepping Chip-Seq sample?
Hello,
Illumina suggests using their TruSeq ChipSeq kit, but I wonder if the Nextera XT should work as well for chipseq sample (mainly because... -
Using bowtie2 with min and max fragment fragment
I am pretty new to bioinformatics, and I was hoping that I could get some help with a bowtie2 script that I am putting together.
I am aligning...
