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Comment: Comment: Problem in batch effecting by DeSeq2
10 months ago by nazaninhoseinkhan ▴ 510
2
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3
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522
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Problem in removing batch effect by DeSeq2
removing effects DeSeq2 batch colData
updated 10 months ago by 77k • written 10 months ago by ▴ 510
0
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0
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398
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Comment: Comment: Can a pathogenic mutation results in the up-regulation of a gene?
16 months ago by nazaninhoseinkhan ▴ 510
0
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2
replies
398
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Can a pathogenic mutation results in the up-regulation of a gene?
mutation-up-regulation Pathogenic
16 months ago by nazaninhoseinkhan ▴ 510
0
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0
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360
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"read error; binarycodec in readmode" error in HMMRATAC
BAM HMMRATAC
updated 4 months ago by 40k • written 21 months ago by ▴ 510
0
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0
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301
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How can I get plate information for a single cell sequencing dataset
sequencing cell single plate information
23 months ago by nazaninhoseinkhan ▴ 510
0
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1
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723
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Comment: Comment: Why only reverse fatsq file is used for mapping step in single cell RNA sequenci
23 months ago by nazaninhoseinkhan ▴ 510
3
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3
replies
723
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Why only reverse fatsq file is used for mapping step in single cell RNA sequencing analysis?
ScRNA-Seq
updated 6 months ago by 40k • written 23 months ago by ▴ 510
0
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1
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430
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EnsemblVEP could not generate any output for a list of frameshift insertion input
Frame_Shift_Insertion EnsemblVEP
2.2 years ago by nazaninhoseinkhan ▴ 510
0
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0
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430
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Answer: Answer: EnsemblVEP could not generate any output for a list of frameshift insertion inpu
2.2 years ago by nazaninhoseinkhan ▴ 510
0
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3
replies
1.6k
views
conversion of case_ids to file_ids TCGA data
TCGA case_ids conversion
updated 2.2 years ago by • 0 • written 4.3 years ago by ▴ 510
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0
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1.6k
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Comment: Comment: conversion of case_ids to file_ids TCGA data
2.2 years ago by nazaninhoseinkhan ▴ 510
0
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0
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627
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Comment: Comment: Matching the file names with exposure file in TCGA
2.2 years ago by nazaninhoseinkhan ▴ 510
0
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2
replies
627
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Matching the file names with exposure file in TCGA
FPKM exposure TCGA
updated 6 months ago by 40k • written 2.2 years ago by ▴ 510
7
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18
replies
4.9k
views
problem in matching the names between file names and patients Id in TCGA
TCGA CNV problem in matching
updated 2.6 years ago by ▴ 30 • written 5.3 years ago by ▴ 510
0
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1
reply
2.0k
views
module membership p-value cutoff
wgcna module membership p-value cutoff
updated 2.6 years ago by 20 • written 6.0 years ago by ▴ 510
26
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57
replies
7.0k
views
how to generate CNV plot from VEP results
copy number alteration VEP CNV plot
updated 2.8 years ago by 40k • written 5.0 years ago by ▴ 510
0
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0
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1.1k
views
Comment: C: Methylation-Gene expression correlation
3.1 years ago by nazaninhoseinkhan ▴ 510
0
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1
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1.1k
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Comment: C: Methylation-Gene expression correlation
3.1 years ago by nazaninhoseinkhan ▴ 510
0
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1
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1.1k
views
Comment: C: Methylation-Gene expression correlation
3.1 years ago by nazaninhoseinkhan ▴ 510
1
vote
6
replies
1.1k
views
Methylation-Gene expression correlation
DNA methylation Gene expression Correlation
updated 3.1 years ago by 86k • written 3.1 years ago by ▴ 510
0
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1
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1.2k
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Comment: C: visualizing mutational data using Maftools for reference genome hg19
3.1 years ago by nazaninhoseinkhan ▴ 510
0
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3
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1.2k
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visualizing mutational data using Maftools for reference genome hg19
hg19 visualize Maftools SNV
3.1 years ago by nazaninhoseinkhan ▴ 510
2
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2
replies
1.9k
views
How to find targets for large number of lncRNAs
lncRNA targets
updated 3.3 years ago by 20 • written 7.0 years ago by ▴ 510
0
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0
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2.1k
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Comment: C: Negative gene expression values in "Illumina HumanHT-12 WG-DASL V4.0 R2 expressi
3.4 years ago by nazaninhoseinkhan ▴ 510
0
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1
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2.1k
views
Comment: C: Negative gene expression values in "Illumina HumanHT-12 WG-DASL V4.0 R2 expressi
3.4 years ago by nazaninhoseinkhan ▴ 510
0
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1
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2.1k
views
Comment: C: Negative gene expression values in "Illumina HumanHT-12 WG-DASL V4.0 R2 expressi
3.4 years ago by nazaninhoseinkhan ▴ 510
0
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1
reply
2.1k
views
Comment: C: Negative gene expression values in "Illumina HumanHT-12 WG-DASL V4.0 R2 expressi
3.4 years ago by nazaninhoseinkhan ▴ 510
0
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1
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2.1k
views
Comment: C: Negative gene expression values in "Illumina HumanHT-12 WG-DASL V4.0 R2 expressi
3.4 years ago by nazaninhoseinkhan ▴ 510
0
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1
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2.1k
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Comment: C: Negative gene expression values in "Illumina HumanHT-12 WG-DASL V4.0 R2 expressi
3.4 years ago by nazaninhoseinkhan ▴ 510
0
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1
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2.1k
views
Comment: C: Negative gene expression values in "Illumina HumanHT-12 WG-DASL V4.0 R2 expressi
3.4 years ago by nazaninhoseinkhan ▴ 510
1
vote
18
replies
2.1k
views
Negative gene expression values in "Illumina HumanHT-12 WG-DASL V4.0 R2 expression beadchip"
Negative expression values
updated 3.4 years ago by 86k • written 3.4 years ago by ▴ 510
0
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1
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2.1k
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Comment: A: Negative gene expression values in "Illumina HumanHT-12 WG-DASL V4.0 R2 expressi
3.4 years ago by nazaninhoseinkhan ▴ 510
1
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0
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624
views
Comment: C: several copy number alterations in the same position in an individual
3.4 years ago by nazaninhoseinkhan ▴ 510
2
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3
replies
624
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several copy number alterations in the same position in an individual
SCNA
updated 3.4 years ago by 40k • written 3.4 years ago by ▴ 510
0
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0
replies
980
views
Comment: C: MUC5AC is not present in deseq2 results
3.5 years ago by nazaninhoseinkhan ▴ 510
0
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1
reply
980
views
Comment: C: MUC5AC is not present in deseq2 results
3.5 years ago by nazaninhoseinkhan ▴ 510
0
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1
reply
980
views
Comment: C: MUC5AC is not present in deseq2 results
3.5 years ago by nazaninhoseinkhan ▴ 510
0
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0
replies
980
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Comment: C: MUC5AC is not present in deseq2 results
3.5 years ago by nazaninhoseinkhan ▴ 510
0
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0
replies
980
views
Comment: C: MUC5AC is not present in deseq2 results
3.5 years ago by nazaninhoseinkhan ▴ 510
0
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1
reply
980
views
Comment: C: MUC5AC is not present in deseq2 results
3.5 years ago by nazaninhoseinkhan ▴ 510
3
votes
12
replies
980
views
MUC5AC is not present in deseq2 results
RNA-Seq Deseq2 MUC5AC
3.5 years ago by nazaninhoseinkhan ▴ 510
0
votes
0
replies
917
views
How to specify pipelines(muse, mutect,...) in TCGAbiolinks when you want to use hg19?
TCGAbiolinks mutations pipelines selection hg19
3.7 years ago by nazaninhoseinkhan ▴ 510
0
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0
replies
685
views
Comment: C: What should I do when some probes of a gene is detected as hypomethylated and ot
3.7 years ago by nazaninhoseinkhan ▴ 510
0
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1
reply
685
views
Comment: C: What should I do when some probes of a gene is detected as hypomethylated and ot
3.7 years ago by nazaninhoseinkhan ▴ 510
2
votes
3
replies
685
views
What should I do when some probes of a gene is detected as hypomethylated and other probes of the same gene is hypermethylated
DNA methylation hyper-hypomethyaltion same gene
3.7 years ago by nazaninhoseinkhan ▴ 510
0
votes
0
replies
466
views
problem in finding follow_up samples belong to the same patients in TCGA
TCGA codes follow_up samples
3.8 years ago by nazaninhoseinkhan ▴ 510
0
votes
1
reply
900
views
Comment: C: No mutations or copy number alterations was detected in stage I of cancer
3.8 years ago by nazaninhoseinkhan ▴ 510
1
vote
1
reply
900
views
Comment: C: No mutations or copy number alterations was detected in stage I of cancer
3.8 years ago by nazaninhoseinkhan ▴ 510
6
votes
6
replies
900
views
No mutations or copy number alterations was detected in stage I of cancer
SNP copy number alteration stage one tumor
3.8 years ago by nazaninhoseinkhan ▴ 510
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