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How to deal with undetected probes in microarray data?
meta-analysis microarray R
updated 9.4 years ago by 27k • written 9.4 years ago by ▴ 640
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0
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4.6k
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Comment: C: Low DE genes in DESeq2 (update PCA plots)
9.4 years ago by Kristin Muench ▴ 640
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0
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1.7k
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I have a list of ABI microarray probes with "signal values". How can I tell if it's been background corrected?
microarray ABI background correction GEO
9.4 years ago by Kristin Muench ▴ 640
3
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1
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4.6k
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Answer: A: Low DE genes in DESeq2
9.4 years ago by Kristin Muench ▴ 640
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1
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3.0k
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Comment: C: Is it problematic to use ANOVA in microarray meta-analysis?
9.5 years ago by Kristin Muench ▴ 640
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3
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3.0k
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Is it problematic to use ANOVA in microarray meta-analysis?
microarray stats ANOVA
updated 9.5 years ago by 105k • written 9.5 years ago by ▴ 640
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0
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1.7k
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Comparing gene expression across microarrays
microarray
9.5 years ago by Kristin Muench ▴ 640
7
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2
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6.4k
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List of Ensembl Transcript IDs corresponding to protein-coding genes
RNA-Seq PCA ensembl
updated 9.7 years ago by 7.6k • written 9.7 years ago by ▴ 640
2
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12
replies
3.2k
views
Nothing will align with HTSeq?
RNA-Seq htseq
updated 3.0 years ago by 45k • written 10.0 years ago by ▴ 640
0
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1
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11k
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Comment: C: How many reads should I expect for paired end reads when coverage = 30 million?
9.9 years ago by Kristin Muench ▴ 640
3
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4
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13k
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Bowtie2: Why won't it recognize my index files?
bowtie2
updated 3.5 years ago by 45k • written 10.7 years ago by ▴ 640
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2
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3.3k
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Comment: C: Which .gtf file should I use when aligning/counting total RNA?
10.0 years ago by Kristin Muench ▴ 640
0
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4
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3.3k
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Which .gtf file should I use when aligning/counting total RNA?
RNA-Seq
updated 3.0 years ago by 45k • written 10.0 years ago by ▴ 640
0
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1
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3.2k
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Comment: C: Nothing will align with HTSeq?
10.0 years ago by Kristin Muench ▴ 640
2
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4
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4.7k
views
Extracting counts from RNA-Seq: trouble with bedtools + multicov
bedtools RNA-Seq multicov
updated 3.0 years ago by 45k • written 10.0 years ago by ▴ 640
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0
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4.7k
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Comment: C: Extracting counts from RNA-Seq: trouble with bedtools + multicov
10.0 years ago by Kristin Muench ▴ 640
0
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1
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2.9k
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Comment: C: How many unique human Entrez and HUGO gene IDs are there? What number to use for
10.2 years ago by Kristin Muench ▴ 640
1
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3
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2.9k
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How many unique human Entrez and HUGO gene IDs are there? What number to use for Fisher's exact test?
entrez R hugo
updated 2.8 years ago by 45k • written 10.2 years ago by ▴ 640
0
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0
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3.8k
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How to make lumi accept .txt data?
microarray lumi
updated 2.7 years ago by 45k • written 10.3 years ago by ▴ 640
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0
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5.3k
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Comment: Comment: Determining gene expression with 2 biological replicates and RPKM data only
updated 3.4 years ago by 45k • written 10.6 years ago by ▴ 640
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0
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5.3k
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Comment: Comment: Determining gene expression with 2 biological replicates and RPKM data only
updated 3.4 years ago by 45k • written 10.6 years ago by ▴ 640
0
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0
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3.2k
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Comment: C: Could a "complete" RNA-Seq database feasibly exclude some protein-coding transcr
10.6 years ago by Kristin Muench ▴ 640
0
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0
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3.2k
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Comment: C: Could a "complete" RNA-Seq database feasibly exclude some protein-coding transcr
10.6 years ago by Kristin Muench ▴ 640
0
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0
replies
3.2k
views
Comment: C: Could a "complete" RNA-Seq database feasibly exclude some protein-coding transcr
10.6 years ago by Kristin Muench ▴ 640
0
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1
reply
5.3k
views
Comment: Comment: Determining gene expression with 2 biological replicates and RPKM data only
updated 3.4 years ago by 45k • written 10.6 years ago by ▴ 640
3
votes
5
replies
5.3k
views
Determining gene expression with 2 biological replicates and RPKM data only
RPKM RNA-Seq
updated 3.4 years ago by 45k • written 10.6 years ago by ▴ 640
0
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0
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13k
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Comment: C: Bowtie2: Why won't it recognize my index files?
10.7 years ago by Kristin Muench ▴ 640
0
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1
reply
4.8k
views
Comment: Comment: I have demultiplexed files for a single biological replicate. When to combine th
updated 3.5 years ago by 45k • written 10.7 years ago by ▴ 640
0
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1
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4.8k
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Comment: Comment: I have demultiplexed files for a single biological replicate. When to combine th
updated 3.5 years ago by 45k • written 10.7 years ago by ▴ 640
3
votes
4
replies
4.8k
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I have demultiplexed files for a single biological replicate. When to combine them in pipeline?
FastQC RNA-Seq
updated 3.5 years ago by 45k • written 10.7 years ago by ▴ 640
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