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Showing top results for tag: Methylation • reset
0
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110
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  What are the conventions/how to tell what a GSM has had done to it?
GSE GSM methylation minfi GEOquery
updated 15 days ago by 74k • written 17 days ago by • 0
0
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0
replies
45
views
  Read trimming in BS-Seq
Methylation BS-Seq Bismark WGBS
15 days ago by Arindam Ghosh ▴ 370
2
votes
6
replies
383
views
  How to analyze Infinium Mouse Methylation BeadChip array data?
Methylation Experience Illumina Mouse
updated 7 days ago by • 0 • written 6 weeks ago by ▴ 10
2
votes
1
reply
115
views
  Package/script for random DNA generation with a pattern!
DNA regex methylation
updated 19 days ago by ★ 1.1k • written 20 days ago by ★ 1.5k
0
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0
replies
54
views
  Bismark Report Merging
wbgs methylation bismark
24 days ago by maxrhighsmith • 0
20
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1
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3.4k
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Tutorial:  Methylation Analysis Tutorial in R_part1
Tutorial cancer methylation R
updated 25 days ago by ▴ 30 • written 8 months ago by ★ 1.5k
0
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0
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64
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  Extracting Promoter Sequence from reverse Strand using NCBI Entrez and Eukaryotic Promoter Database?
Database design Promoter strand gene sequence Eukarytoic methylation Primer reverse
26 days ago by Lys • 0
1
vote
4
replies
480
views
  How to calculate differential methylation from nanopore reads?
sequencing methylation
5 weeks ago by O.rka ▴ 310
0
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0
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69
views
News:  Comprehensive benchmarking of software for mapping whole genome bisulfite data
Methylation NGS Epigenetics Bisulfite
6 weeks ago by David Langenberger 9.6k
0
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0
replies
66
views
  How to analyze MBD-Seq data?
CpG methyl islands MBD-Seq methylation
7 weeks ago by dagsbio ▴ 20
1
vote
1
reply
111
views
  How to overcome issue linked to loading big R object
R methylation bioconductor minfi
7 weeks ago by Fede_Santos95 ▴ 10
0
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2
replies
171
views
  Gene ontology analysis
enrichment methylation gene_identifier
21 days ago by Kajol • 0
0
votes
0
replies
80
views
  correlation of WGBS dataset and RNAseq dataset
transcription methylation
8 weeks ago by frylhc • 0
0
votes
0
replies
87
views
  UK Biobank methylation data
DNA biobank methylation
8 weeks ago by Ivan • 0
0
votes
0
replies
78
views
  Probabilistic modeling of CpG ß-values
statistics epigenetics methylation
updated 2 days ago by 34k • written 9 weeks ago by ▴ 70
1
vote
0
replies
145
views
  Methylation frequency + and - strand
methylation Bismark
10 weeks ago by Palgrave ▴ 30
0
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5
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584
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  Limma experiment design and making contrasts
limma methylation 450k
10 weeks ago by kra277 • 0
0
votes
0
replies
137
views
  Copy number Variation frequency plot
CNV EPIC 450k methylation
11 weeks ago by user911111111 • 0
0
votes
0
replies
112
views
  How to calculate power to detect mQTLs?
Illumina power mqtl methylation
11 weeks ago by anamaria ▴ 160
0
votes
0
replies
162
views
Job:  Postdoc openings @ NYC: Epigenetics / Long Reads / Microbiome
sequencing RNAseq microbiome methylation
11 weeks ago by fanggang ▴ 100
1
vote
0
replies
125
views
  Bedmethyl
methylation bedmethyl
3 months ago by alorsonmethyle ▴ 40
0
votes
0
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128
views
  How can I download Methylation data for MethylMix package. (unusual error popped)
R software error MethylMix Methylation
3 months ago by shlokanegi.phe18 • 0
14
votes
2
replies
984
views
Tutorial:  Methylation Analysis Tutorial in R_part2
methylation RNA-Seq R cancer Tutorial
3 months ago by Hamid Ghaedi ★ 1.5k
0
votes
0
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208
views
Job:  Postdoctoral Research Fellow position in Molecular Biology
RNA nanopore sequencing biology methylation Job
3 months ago by adnan.niazi • 0
0
votes
2
replies
171
views
  Violation of Independence test for differential methylation (DM)
methylation differential methylation
3 months ago by CY ▴ 590
0
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0
replies
194
views
  TCGA methylation data analysis. beta values to differentially regulated CpGs
methylation beta values DMP
4 months ago by english.server ▴ 240
1
vote
5
replies
433
views
  RnBeads error running rnb.run.dj()
rnbeads methylation bioinformatics ngs help
updated 4 months ago by ▴ 30 • written 4 months ago by ▴ 60
0
votes
0
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373
views
  Surrogate variable, celltype composition correction and overfitting in DNA methylation data
array sva limma methylation
5 months ago by Papyrus ▴ 940
0
votes
0
replies
311
views
News:  DNA Methylation Data Analysis Workshop (April 12-15, 2021 in Berlin)
Epgenetics Bisulfite Methylation News
5 months ago by David Langenberger 9.6k
0
votes
0
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331
views
  Is there any method to compare t-SNE plot drawn by same samples and different standard?
EPIC t-sne Methylation array Methylation
5 months ago by kwanghoon ▴ 20
0
votes
3
replies
204
views
  DNA Methylation file read
R methylation
updated 5 months ago by 5.3k • written 5 months ago by • 0
0
votes
1
reply
256
views
  Genomic position to genomic feature
genome DMR Methylation
5 months ago by irfanwustl ▴ 20
0
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0
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216
views
  Minfi's combineArrays returns intersect
minfi methylation 450K EPIC ChAMP
5 months ago by MoltenLight • 0
0
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0
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197
views
  Illumina HumanMethylation - Exclusion Criteria for Poor Quality Samples
methylation Infinium arrays EPIC 450K minfi
5 months ago by MoltenLight • 0
1
vote
2
replies
2.1k
views
  ERRBS Methylation data analysis
methylation ERRBS Bisulfite next-gen homer
updated 6 months ago by 20 • written 5.7 years ago by ▴ 620
0
votes
0
replies
221
views
  Beta values of methylation data: mean or median? how to create an event?
R TCGA Methylation illumina
6 months ago by deathmagnetic20 ▴ 10
0
votes
1
reply
326
views
  Error using gometh from missMethyl
methylation missmethyl gometh
updated 7 months ago by • 0 • written 8 months ago by • 0
0
votes
2
replies
497
views
  Bismark: bedgraph to bigwig for DNA methylation
methylation
updated 7 months ago by • 0 • written 9 months ago by ★ 1.4k
1
vote
1
reply
299
views
  Bismark methylation extract result interpretation
WGBS bismark methylation CpG
updated 7 months ago by ▴ 130 • written 7 months ago by ▴ 510
1
vote
1
reply
262
views
  how to extract methylation level of certain genomic regions?
methylation bsmap CpG wgbs
7 months ago by hksk2 ▴ 10
0
votes
5
replies
232
views
  Missing chromosomal Information after sorting and deduplication step
next-gen assembly sequence methylation
7 months ago by devarora ▴ 510
0
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0
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265
views
  Illumina HumanMethylation 450k dataset normalization
R methylation data normalization
7 months ago by aggelos529 • 0
0
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2
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1.2k
views
  RnBeads- GenomicFeatures is not available for R3.2.3
R 450k methylation RnBeads R3.2.3
updated 7 months ago by 20 • written 5.1 years ago by • 0
0
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0
replies
269
views
  Infer phylogeny from continuous, segmented CNV data from methylation array
methylation R conumee copy number phylogeny
8 months ago by Fynn • 0
0
votes
1
reply
203
views
  Replicates in Bisulfite data
Bisulfite-Seq Methylation
updated 8 months ago by 12k • written 8 months ago by ▴ 50
0
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0
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213
views
  Epigenome characterization with PacBio. Any experience ?
PacBio epigenome methylation
8 months ago by Antonio R. Franco ★ 4.7k
0
votes
0
replies
257
views
  RnBeads Greedycut command ???
greedycut rnbeads array methylation
9 months ago by Ankit ▴ 180
1
vote
0
replies
267
views
  Which read should be considered to calculate methylation value?
Methylation BISCUIT bam
updated 9 months ago by 20 • written 9 months ago by ▴ 20
0
votes
0
replies
265
views
  Is it right to use a low amount of bumphunter permutations?
methylation microarray DMR
9 months ago by jeni ▴ 50
0
votes
0
replies
252
views
  "C strand" and "G strand" from bisulfite converted bam files
Methylation bam Bisulfite
9 months ago by irfanwustl ▴ 20
50 results • Page 1 of 1
Recent Votes
tools for identifying mitochondrial-targeting sequence in different proteins
A: tools for identifying mitochondrial-targeting sequence in different proteins
How to work with Level 3 data (RPKM values) from TCGA database
A: How to work with Level 3 data (RPKM values) from TCGA database
Bioinformatics courses, workshops or training
Comment: MERLIN: skipped due to megabytes problem
Comment: MERLIN: skipped due to megabytes problem
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Answer: tools for identifying mitochondrial-targeting sequence in different proteins by chiti.agarwal • 0
I am trying to find the MTS for my mitochondrial gene of a fungus. Do you know any tools for that? I Also I am not sure if MTS transport…
Comment: How to estimate polygenic risk score (PRSs) using the scoring files from PGSCata by zx8754 10k
PGSCatalog has all you need to calculate the score, if individual has the effect allele then multiply it with beta, do the same for all SNP…
Comment: Divide the genome to vary lengths windows in R by ATpoint 50k
Can you add a representative example?
Comment: How to create PSSM matrix by Somayeh • 0
Hi. How to get pssm matrix ? Thank you.
Comment: RNAseq analysis for aspergillus niger ? by najibveto ▴ 40
thank you, just the person who generated this data isn’t around anymore. is there a tutorial for similar analysis?
Comment: Snakemake error: "Removing output files of failed job since they might be corru by kamanovae ▴ 30
Thank you! But when I run just such a command, the result is not written to the output file, but displayed on the screen. I do not understa…
Comment: Snakemake error: "Removing output files of failed job since they might be corru by kamanovae ▴ 30
Thank you for your answer! When I run the command outside of the snakemake, everything works and I get the required output files. I think…
Answer: Quadruplex sequence batch prediction by isha.lily20 • 0
Hi Qi Zhao and dariober, can u plz help me with my intern project , i have to count total number of this regular expression ?
Comment: Creating Annotation GTF/GFF file by santos48 ▴ 30
Is possible to annotated results %0 assigned using featureCounts?
Comment: How to remove repeated sequence region in Interproscan .gff3 with many ORFs? by Juke34 ★ 5.8k
If your file does contains only `ORF` and `nucleic_acid` and they are independant, the way to go is to put them in the ` features_level1.j…
Comment: Beagle: Skip intervals with no common markers by Jack ▴ 10
sorry I forgot to clarify, in the example `beagle` is an alias for `java -Xmx50g -jar beagle.25Nov19.28d.jar`
Comment: Biopython's Esearch for Pubmed does not give the same results as web search by GenoMax 103k
To follow up on this - Entrezdirect seems to be doing an "All Fields" search by default. $ esearch -db pubmed -query "sclerosis" <…
Comment: Local realignment around indels by Pierre Lindenbaum 136k
when publishing it's (sadly?) better to say you used the "GATK best practices" to call your variants...
Comment: MERLIN: skipped due to megabytes problem by 349151519 • 0
Thank you so much for replying. I reduced my pedigree size and it worked. : )
Comment: MERLIN: skipped due to megabytes problem by 349151519 • 0
Thank you so much for replying. I reduced my pedigree size and it worked. : )
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