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29 results • Page
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Filtering for tag:
DMR
•
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0
votes
1
reply
188
views
Genomic position to genomic feature
genome
DMR
Methylation
3 months ago by
irfanwustl
▴ 20
4
votes
10
replies
2.9k
views
Tutorial:
Differentially methylated regions: Easy & Fast Identification and ANnoTation
dna methylation
Tutorial
DMR
4 months ago by
dec986
▴ 260
0
votes
0
replies
213
views
Is it right to use a low amount of bumphunter permutations?
methylation
microarray
DMR
6 months ago by
jeni
▴ 50
3
votes
1
reply
321
views
Is definition of differentially methylated region (DMR) biologically meaningful?
methylation
DMR
updated 7 months ago by
Hamid Ghaedi
★ 1.3k • written 7 months ago by
CY
▴ 570
0
votes
1
reply
339
views
Comb-p for Differentially Methylated Regions identification
methylation
regions
dmr
cpg
12 months ago by
sabin
▴ 30
0
votes
0
replies
238
views
Interpretation of differentially methylated regions width / number of cpgs
methylation
DMR
differentially methylated regions
12 months ago by
sabin
▴ 30
0
votes
0
replies
227
views
how to get methylated fragments (CpG regions) for only ONE sample using DMAP
Dmap
DMR
methylation
CpG
14 months ago by
maria2019
▴ 130
3
votes
2
replies
800
views
How to generate CpG REGIONs file to run DMR analysis with methylkit?
DMR
methylkit
CpG-regions
RRBS
updated 14 months ago by
Charles Warden
8.0k • written 14 months ago by
maria2019
▴ 130
3
votes
4
replies
522
views
RRBS analysis using methylkit with 2 variables
methylkit
RRBS
DMR
17 months ago by
maria2019
▴ 130
0
votes
0
replies
1.0k
views
bumphunter for 3 (or more) groups
methylation
minfi
EPIC array
bumphunter
DMR
updated 17 months ago by
Biostar
20 • written 2.0 years ago by
alfonsosaera
▴ 20
0
votes
0
replies
296
views
Single-sample methylation region-finder packages
epigenetics
methylation
wgbs
DMR
regions
17 months ago by
Papyrus
▴ 720
0
votes
1
reply
686
views
What background to use for functional annotation analysis of RRBS DMR data?
RRBS
methylation
DMR
annotation
GO
updated 22 months ago by
gurbetkarahan
• 0 • written 2.1 years ago by
alan.g.hudson
• 0
10
votes
6
replies
821
views
Cannot identify software used to make image
DMR
updated 2.1 years ago by
bernatgel
★ 2.9k • written 2.2 years ago by
dec986
▴ 260
6
votes
5
replies
1.9k
views
How to do DMR analysis with BiSeq (for RRBS methylation data)?
sequencing
DMR
methylation
updated 2.2 years ago by
Charles Warden
8.0k • written 3.3 years ago by
ahmad mousavi
▴ 520
3
votes
14
replies
1.0k
views
Paired DMR methylation caller
bisulfite
DMR
updated 2.4 years ago by
Charles Warden
8.0k • written 2.4 years ago by
German.M.Demidov
★ 2.0k
0
votes
4
replies
1.1k
views
Are there any way to find DMR with the data in TCGA methylation level3?
TCGA
Methylation
450K
DMR
updated 2.5 years ago by
Kevin Blighe
72k • written 2.6 years ago by
Makplus T
▴ 70
5
votes
5
replies
1.1k
views
What statistical test for CpG DMR ?
methylation
statistical test
epigenetics
DMR
2.6 years ago by
alorsonmethyle
▴ 40
0
votes
1
reply
1.4k
views
Differentially methylated regions Analysis
tcgabiolinks
DMR
packages
updated 3.1 years ago by
noorpratap.singh
▴ 320 • written 3.1 years ago by
David_emir
▴ 390
3
votes
5
replies
2.3k
views
TCGABioLinks how to set Sample conditions?
TCGABolinks
TCGA
DMR
DGE
updated 3.1 years ago by
mathias.heydt
▴ 90 • written 3.1 years ago by
David_emir
▴ 390
2
votes
6
replies
1.9k
views
Multisample DMR calling
dmr
methylation
updated 3.4 years ago by
hongbo919
▴ 20 • written 4.5 years ago by
Aerval
▴ 280
0
votes
0
replies
1.5k
views
How to get metthylKit(or SMART2) input file ?
DMR
DNA methylation
methylkit
Bismark
3.5 years ago by
wangzer
• 0
5
votes
6
replies
3.5k
views
Statistical test for DMR annotation?
statistics
methylation
DMR
updated 3.7 years ago by
jordi
• 0 • written 6.3 years ago by
Amit Lavon
▴ 10
0
votes
3
replies
1.2k
views
Assessing DMRs between treatment groups: subtracting control group DMRs to account for "baseline" methylation
illumina
850k
methylationEPIC
DMR
updated 3.8 years ago by
hongbo919
▴ 20 • written 4.0 years ago by
Ellen O
▴ 10
4
votes
6
replies
2.2k
views
Selecting between p.value, FDR, Bonferroni
statistical parameters
DMR
package
seqlm
updated 3.9 years ago by
agata88
▴ 810 • written 3.9 years ago by
niutster
▴ 100
2
votes
3
replies
2.5k
views
MeDIP-Seq DMR analysis using MEDIPS
R
MEDIPS
MeDIP-Seq
Methylation
DMR
updated 4.3 years ago by
Biostar
20 • written 6.2 years ago by
G.S
▴ 40
0
votes
6
replies
1.9k
views
What input files does the software metilene accept/require to identify the DMR between groups for WGBS data?
WGBS
DMR
updated 4.5 years ago by
Devon Ryan
98k • written 4.5 years ago by
331885030
• 0
0
votes
1
reply
1.5k
views
Mapping Genes in Differentially Methylated Regions
DMR
R Packages
updated 4.6 years ago by
Carlo Yague
5.8k • written 4.6 years ago by
questionaire
• 0
3
votes
0
replies
1.8k
views
Question about MEDIPS
dmr
medips
r
methylation
updated 5.3 years ago by
Biostar
20 • written 5.5 years ago by
hxlei613
▴ 90
1
vote
2
replies
2.5k
views
Methylation analysis with MEDIPS
MEDIPS
methylation
DMR
R
MeDip-seq
updated 6.6 years ago by
Devon Ryan
98k • written 6.7 years ago by
ilyco
▴ 60
29 results • Page
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Recent Votes
Answer: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens
Answer: Tool to find chromosome specific repeats
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Recent Replies
Answer: Expression of gene of interest across conditions in single-cell data
by
jared.andrews07
9.1k
Take a look at [dittoSeq](http://www.bioconductor.org/packages/release/bioc/vignettes/dittoSeq/inst/doc/dittoSeq.html) for viz options - it…
Comment: Extracting only tumor samples from Single cell RNASeq
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You need pre-defined variants for Vartrix. Typically it's used in conjuction with WGS/WES from bulk tissue to look for clonal variants in d…
Comment: Cell composition in each condition of single cell data
by
paria.alipour
▴ 20
Oh, I'm sorry. I already posted it in here the https://www.biostars.org/p/457243/#9464486. I've added the images
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens
by
Quanyou
• 0
This seems OK when one gene generates only one transcirpt. But when one gene has multiple transcripts, these code would return a table wher…
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens
by
Quanyou
• 0
This seems feasible. But I want to convert tens of thousands of transcript IDs. Could you tell me how can I make it through sequene search?
Answer: bbmap, mapq and uniquelly mapped reads filtering
by
GenoMax
99k
Many threads exist that show how to extract uniquely mapped reads. Here are a couple of examples:<br> https://www.biostars.org/p/276216/#27…
Comment: Cell composition in each condition of single cell data
by
rpolicastro
5.1k
The images seem to be missing from your post
Comment: Limma experiment design and making contrasts
by
kra277
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Thank you very much for this. Much appreciated.
Comment: Limma experiment design and making contrasts
by
Kevin Blighe
72k
Hi, these follow the same principles as formulae used in regression modelling, so, you may want to focus on that (when searching). What lim…
Comment: Limma experiment design and making contrasts
by
kra277
• 0
That is very insightful. Thank you very much for the answer. Also, if I may ask, could you please point me to the articles for understandin…
Comment: Keep values from VCF file into Ensembl VEP annotation
by
brunobsouzaa
▴ 510
Thanks Man... I've wroten a simple awk command for this task! Everything is working fine.
Comment: Raw read processing using trimmomatic
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Do you have exact command used by the author? I guess that not all details was presented in the paper. You can always ask the corresponding…
Comment: should stop codon be counted as part of CDS
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sullis02
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Your github page appears to live here now https://github.com/NBISweden/GAAS/blob/master/annotation/knowledge/gxf.md
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I am not all that knowledgeable of Cytoscapes features and scripting capabilities, but if it does not support that operation you can expo…
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you would get the counts as you would get them in any other case, how do you know something maps to chromosome 1 of human genome? Because i…
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