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Comment: Comment: Differential expressed genes - much more DE genes for one factor in the additive
9 weeks ago by Pei ▴ 220
5
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7
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1.1k
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Differential expressed genes - much more DE genes for one factor in the additive model than the interaction model . What may be the reason?
DESeq2
9 weeks ago by Pei ▴ 220
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0
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1.1k
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Comment: Comment: Differential expressed genes - much more DE genes for one factor in the additive
10 weeks ago by Pei ▴ 220
0
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0
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1.1k
views
Comment: Comment: Differential expressed genes - much more DE genes for one factor in the additive
10 weeks ago by Pei ▴ 220
4
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4
replies
578
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No mouseOver effect in my track hub on UCSC genome browser
UCSC-genome-browser
updated 3 months ago by 44k • written 3 months ago by ▴ 220
1
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0
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578
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Answer: Answer: No mouseOver effect in my track hub on UCSC genome browser
3 months ago by Pei ▴ 220
1
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1
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578
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Comment: Comment: No mouseOver effect in my track hub on UCSC genome browser
3 months ago by Pei ▴ 220
2
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1
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578
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Answer: Answer: No mouseOver effect in my track hub on UCSC genome browser
updated 3 months ago by 147k • written 3 months ago by ▴ 220
0
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1
reply
312
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bamCoverage - how BPM normalization was done?
bamcoverage chip-seq deeptools
3 months ago by Pei ▴ 220
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0
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312
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Answer: Answer: bamCoverage - how BPM normalization was done?
3 months ago by Pei ▴ 220
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1
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462
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Comment: Comment: Any recommended way to share ChIP track to collaborator through UCSC browser wit
3 months ago by Pei ▴ 220
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1
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462
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Comment: Comment: Any recommended way to share ChIP track to collaborator through UCSC browser wit
3 months ago by Pei ▴ 220
3
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5
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462
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Any recommended way to share ChIP track to collaborator through UCSC browser without using local FTP?
ChIP-Seq UCSC-genome-browser
3 months ago by Pei ▴ 220
1
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0
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391
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Comment: Comment: Any recommended way to view scRNAseq results in an interactive format?
4 months ago by Pei ▴ 220
4
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3
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391
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Any recommended way to view scRNAseq results in an interactive format?
RNA-seq single-cell
4 months ago by Pei ▴ 220
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0
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400
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MACS2 parameters slocal and llocal - how are they related to open chromatin?
MACS2 ChIP-Seq
15 months ago by Pei ▴ 220
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0
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1.7k
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Answer: Answer: Differential Gene Expression analysis in Bulk RNA Seq - using Count Matrix as in
16 months ago by Pei ▴ 220
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0
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527
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Answer: Answer: Inferring undisclosed 5mer in proprietary SMARTer oligo sequence
16 months ago by Pei ▴ 220
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1
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800
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Answer: Answer: Whole transcriptome analysis nominated primarily miRNA-related pathways. Advice?
16 months ago by Pei ▴ 220
1
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1
reply
800
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Answer: Answer: Whole transcriptome analysis nominated primarily miRNA-related pathways. Advice?
16 months ago by Pei ▴ 220
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1
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1.5k
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Comment: Comment: search for intron conservancy across species
16 months ago by Pei ▴ 220
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1
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1.5k
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Answer: Answer: search for intron conservancy across species
16 months ago by Pei ▴ 220
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0
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575
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Annotation of ATAC-seq peak - distal intergenic regions as enhancers
annotation peak ATAC-seq
16 months ago by Pei ▴ 220
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0
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627
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Comment: Comment: many more ChIP-seq peaks called in 1 condition than the other
16 months ago by Pei ▴ 220
3
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2
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627
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many more ChIP-seq peaks called in 1 condition than the other
MACS2 ChIP-Seq
updated 16 months ago by ★ 1.3k • written 16 months ago by ▴ 220
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0
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1.7k
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Comment: Comment: Are adapter sequences trimmed from ONLY the 3' ends of reads
3.0 years ago by Pei ▴ 220
4
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3
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1.7k
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Are adapter sequences trimmed from ONLY the 3' ends of reads
RNA-SEQ
3.0 years ago by Pei ▴ 220
1
vote
3
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2.5k
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file size of pair-end sequencing fastq
RNA-SEQ
3.0 years ago by Pei ▴ 220
0
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0
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2.5k
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Comment: Comment: file size of pair-end sequencing fastq
3.0 years ago by Pei ▴ 220
0
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0
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2.5k
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Comment: Comment: file size of pair-end sequencing fastq
3.0 years ago by Pei ▴ 220
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0
replies
10k
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Comment: Comment: how to determine a fastq is phred+33 or phred+64
3.0 years ago by Pei ▴ 220
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0
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10k
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Comment: Comment: how to determine a fastq is phred+33 or phred+64
3.0 years ago by Pei ▴ 220
3
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4
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10k
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how to determine a fastq is phred+33 or phred+64
RNA-seq phred33 phred64
3.0 years ago by Pei ▴ 220
1
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0
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1.2k
views
STAR genomeSAindexNbases
RNA-seq STAR mapping
3.0 years ago by Pei ▴ 220
0
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0
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3.8k
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Answer: A: Mapping left_kept_reads.m2g_um to genome FAILED running Tophat2/Bowtie2
updated 4.9 years ago by 44k • written 8.8 years ago by ▴ 220
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1
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4.4k
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Comment: C: Should I filter my reads before running bedtools multicov ?
updated 5.0 years ago by 44k • written 9.0 years ago by ▴ 220
5
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7
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4.4k
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Should I filter my reads before running bedtools multicov ?
RNA-Seq
updated 2.3 years ago by 44k • written 9.0 years ago by ▴ 220
4
votes
3
replies
2.9k
views
how to improve multiple sequence alignment by removing outlier sequence ?
alignment
updated 5.5 years ago by 20 • written 8.3 years ago by ▴ 220
1
vote
3
replies
1.2k
views
What tool can be used to predct regulatory element within an input sequence ?
sequence
updated 5.8 years ago by ▴ 370 • written 5.8 years ago by ▴ 220
0
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0
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1.2k
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Comment: C: What tool can be used to predct regulatory element within an input sequence ?
5.8 years ago by Pei ▴ 220
5
votes
2
replies
7.3k
views
tophat, the parameter "Expected inner distance between mate pairs"?
tophat
updated 2.6 years ago by 44k • written 9.8 years ago by ▴ 220
0
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1
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1.8k
views
Comment: C: tophat: the Searching for junctions via segment mapping was skipped.
8.4 years ago by Pei ▴ 220
0
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2
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1.8k
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Comment: A: tophat: the Searching for junctions via segment mapping was skipped.
updated 8.4 years ago by 147k • written 8.4 years ago by ▴ 220
0
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6
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1.8k
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tophat: the Searching for junctions via segment mapping was skipped.
rna-seq
8.4 years ago by Pei ▴ 220
1
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2
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3.1k
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CLIP-seq data process, start from sra file
CLIP
updated 2.7 years ago by 44k • written 9.9 years ago by ▴ 220
1
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1
reply
2.4k
views
align RNA-seq reads to annotated CDS
RNA-Seq
8.5 years ago by Pei ▴ 220
0
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1
reply
2.1k
views
Comment: C: a protein failed to be aligned to genome by tblastn
8.6 years ago by Pei ▴ 220
1
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1
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2.1k
views
Answer: A: a protein failed to be aligned to genome by tblastn
8.6 years ago by Pei ▴ 220
1
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7
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2.1k
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a protein failed to be aligned to genome by tblastn
blast
8.6 years ago by Pei ▴ 220
0
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0
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2.1k
views
Comment: A: a protein failed to be aligned to genome by tblastn
8.6 years ago by Pei ▴ 220
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