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262
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  DMR calling for EWAS meta-analysis
DNA methylation Epigenetics DMR calling
updated 7 months ago by 20 • written 7 months ago by ★ 1.3k
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0
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277
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Comment:  C: Tool/Pipeline to get annotations from RNA-Seq
7 months ago by mark.ziemann ★ 1.3k
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411
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Answer:  A: Number of replicates in each group in RNA seq
8 months ago by mark.ziemann ★ 1.3k
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291
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Answer:  A: CAST/EiJ mouse strain Reference Transcriptome (do we have one? if not, how to bu
8 months ago by mark.ziemann ★ 1.3k
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1
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538
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Comment:  C: Any reason for higher reported levels of non-CG methylation when analysing non-d
16 months ago by mark.ziemann ★ 1.3k
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730
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Comment:  C: Best way to find all downloadable publicly available raw fastq files from SRA/GE
16 months ago by mark.ziemann ★ 1.3k
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0
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614
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Comment:  C: How to get 1 top hit only for each query in blastx
16 months ago by mark.ziemann ★ 1.3k
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1
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375
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Comment:  C: Macs2 output shows only single basepair peak instead of a section of DNA
16 months ago by mark.ziemann ★ 1.3k
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0
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942
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Comment:  C: RNA seq with 2 biological replicates
16 months ago by mark.ziemann ★ 1.3k
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438
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Answer:  A: Location of Genes on Chromosome
16 months ago by mark.ziemann ★ 1.3k
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1
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340
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Comment:  C: find a correct gene symbol for lncRNA
16 months ago by mark.ziemann ★ 1.3k
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1
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2.5k
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Answer:  A: /bin/bash/ command not found
16 months ago by mark.ziemann ★ 1.3k
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2.5k
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Comment:  C: /bin/bash/ command not found
16 months ago by mark.ziemann ★ 1.3k
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1
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942
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Answer:  A: RNA seq with 2 biological replicates
16 months ago by mark.ziemann ★ 1.3k
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541
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Answer:  A: Safe to convert entrez gene id to ensembl gene id
16 months ago by mark.ziemann ★ 1.3k
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0
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461
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Answer:  A: How to decide the parameters and parameter values when running ChIP-seq Peak Cal
16 months ago by mark.ziemann ★ 1.3k
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223
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Answer:  A: Primer Design Validation
16 months ago by mark.ziemann ★ 1.3k
6
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0
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20k
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Answer:  A: BWA MEM Algorithm
updated 17 months ago by 34k • written 6.1 years ago by ★ 1.3k
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0
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1.3k
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Answer:  A: Software to count gene loss in batch
updated 19 months ago by 34k • written 5.6 years ago by ★ 1.3k
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1
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1.9k
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Comment:  C: Cell Line gene expression Analysis with multiple replicates
updated 19 months ago by 34k • written 5.6 years ago by ★ 1.3k
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0
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2.1k
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Comment:  C: Descrepancy with MACS model parameter for ChIP-Seq in tumor samples for Histone
updated 19 months ago by 34k • written 5.6 years ago by ★ 1.3k
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1
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546
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Comment:  C: Extract flanking regions from bam files based on coverage threshold
19 months ago by mark.ziemann ★ 1.3k
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2.3k
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Answer:  A: Is there an online resource with freely available transcriptomes data from?
19 months ago by mark.ziemann ★ 1.3k
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0
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304
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Answer:  A: Is BWT algorithm suitable for all types of alignment task?
19 months ago by mark.ziemann ★ 1.3k
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1
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546
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Comment:  C: Extract flanking regions from bam files based on coverage threshold
19 months ago by mark.ziemann ★ 1.3k
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0
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1.6k
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Comment:  C: Tactics for analysis of large number of highly similar diseased samples from RNA
updated 19 months ago by 34k • written 5.9 years ago by ★ 1.3k
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1
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2.1k
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Answer:  A: How to discover new mutations in a derived strain relative to a reference genome
updated 19 months ago by 34k • written 5.9 years ago by ★ 1.3k
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0
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4.2k
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Answer:  A: counting reads with featureCounts - uniquely assign reads to transcripts
updated 19 months ago by 34k • written 6.0 years ago by ★ 1.3k
0
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1
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3.7k
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Comment:  C: Problems with STAR mapping output
updated 19 months ago by 34k • written 6.0 years ago by ★ 1.3k
2
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1
reply
1.8k
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Answer:  A: Help simulating RRBS reads
updated 19 months ago by 34k • written 6.0 years ago by ★ 1.3k
1
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0
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9.8k
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Answer:  A: Extracting specific FASTA sequences from a complex FASTA file
updated 20 months ago by 34k • written 6.3 years ago by ★ 1.3k
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0
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581
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Comment:  C: Detecting GC Bias in Transcriptomes (RNA-seq)
23 months ago by mark.ziemann ★ 1.3k
2
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0
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534
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Comment:  C: How to do the WGCNA in R
23 months ago by mark.ziemann ★ 1.3k
5
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1
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2.5k
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Answer:  A: fgsea tutorial issue with BiocParallel
2.4 years ago by mark.ziemann ★ 1.3k
8
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1
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2.3k
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Tool:  Digital Expression Explorer
RNA-Seq GEO Tool
2.5 years ago by mark.ziemann ★ 1.3k
0
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0
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685
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Comment:  C: Choosing the best alignment or aligner
2.6 years ago by mark.ziemann ★ 1.3k
1
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0
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1.1k
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Answer:  A: Meta-Analysis p-value combining and adjusting
2.8 years ago by mark.ziemann ★ 1.3k
1
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0
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1.2k
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Comment:  C: Looking for publicly available dataset.
3.0 years ago by mark.ziemann ★ 1.3k
0
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0
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840
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Comment:  C: Obtaining DEGs for bacterial RNA-sequencing study (levels of UV exposure)
3.3 years ago by mark.ziemann ★ 1.3k
0
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1
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840
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Answer:  A: Obtaining DEGs for bacterial RNA-sequencing study (levels of UV exposure)
3.3 years ago by mark.ziemann ★ 1.3k
0
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1
reply
1.5k
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Comment:  C: WGBS - Methylation state at CpG to peak calls
3.6 years ago by mark.ziemann ★ 1.3k
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0
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3.2k
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Comment:  C: Cut-off for genesets in GSEA
3.6 years ago by mark.ziemann ★ 1.3k
2
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0
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2.0k
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Answer:  A: Why do ribo-seq sequencing data have only a small proportion of uniquely mapped
3.6 years ago by mark.ziemann ★ 1.3k
2
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1
reply
2.0k
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Answer:  A: Why do ribo-seq sequencing data have only a small proportion of uniquely mapped
3.6 years ago by mark.ziemann ★ 1.3k
1
vote
1
reply
1.5k
views
Comment:  C: WGBS - Methylation state at CpG to peak calls
3.6 years ago by mark.ziemann ★ 1.3k
3
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0
replies
1.2k
views
Answer:  A: Looking for publicly available dataset.
3.6 years ago by mark.ziemann ★ 1.3k
2
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1
reply
3.2k
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Comment:  C: Cut-off for genesets in GSEA
3.6 years ago by mark.ziemann ★ 1.3k
0
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0
replies
1.2k
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Comment:  C: Download ENCODE Project BED files using REST API
3.9 years ago by mark.ziemann ★ 1.3k
3
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3
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1.2k
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  Download ENCODE Project BED files using REST API
ChIP-Seq python
3.9 years ago by mark.ziemann ★ 1.3k
2
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0
replies
1.2k
views
Answer:  A: Download ENCODE Project BED files using REST API
3.9 years ago by mark.ziemann ★ 1.3k
159 results • Page 1 of 4
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