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shRNA
•
reset
0
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2
replies
1.9k
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Using edgeR for small shRNA-seq screen analysis
edger
shrna
8.7 years ago
sirintra
▴ 10
2
votes
2
replies
2.4k
views
Analysis of shRNA screen data
shrna
edger
deseq2
differential expression
normalized counts
9.3 years ago
Jane Merlevede
▴ 90
1
vote
1
reply
1.3k
views
limma for shRNA dropout screen analysis?
limma
gmap
shRNA
dropout screen
updated 9.5 years ago by
Aaron Lun
★ 29k • written 9.5 years ago by
Anna Dvorkin
▴ 40
4
votes
4
replies
2.1k
views
edgeR:processAmplicons barcode match only 57% when it should be 100% -- I artificially inserted them -- are there other assumptions
edgeR
processamplicons
shrna
updated 10.0 years ago by
thomas.leete
• 0 • written 10.1 years ago by
Anne Deslattes Mays
▴ 10
0
votes
5
replies
3.2k
views
example fastq file, sampleAnnotaition and Hairpin file for shRNAseq/EdgeR tool
shRNAseq
edgeR
shRNA
updated 10.2 years ago by
Gordon Smyth
53k • written 10.2 years ago by
KB
▴ 50
5 results • Page
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Answer: How can I correctly use phyloseq with Docker?
by
Kevin Blighe
★ 4.0k
The Bioconductor version must be compatible with the R version. Bioconductor version 3.18 is compatible with R version 4.3. The Dockerfile …
Answer: Boolean Gate Combination for Any 2 Positive Events in flowWorkspace
by
Kevin Blighe
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Your proposed code is correct and will achieve the desired outcome. The boolean filter expression `IFNg & TNFa | IFNg & IL2 | TNFa & IL2` i…
Answer: Guidance Requested on GCN Network Analysis and Module Enrichment in R
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The discrepancy between `final_exp1` and `final_exp2` could arise from several factors, despite matching dimensions. The `identical()` func…
Answer: ORFik: spliced 5utr regions
by
Kevin Blighe
★ 4.0k
Hello Luna. The findUORFs function in ORFik identifies upstream open reading frames by extracting and concatenating the sequences of exo…
Answer: Results with PON give more variants
by
Kevin Blighe
★ 4.0k
Your observation aligns with the expected behavior of Mutect2 in tumor-only mode, where the panel of normals (PON) integrates into the vari…
Votes
Answer: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Post translational modifications and phosphoproteomics in limpa?
Answer: Post translational modifications and phosphoproteomics in limpa?
Answer: Identifying differentially expressed genes in individual samples from a large co
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shepherl
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