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How to deal with (combine) technical replicates (FPKM vs Read count data) for RNA-Seq experiments?
replicates gene expression read count rna-seq written 5 weeks ago by Ameya Kulkarni • 0 • updated 5 weeks ago by Devon Ryan ♦ 78k
10
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2
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6.9k
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9 follow
2
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Why Cannot Limma Package Do Differential Expression Between Two Samples Without Replication?
replicates differential-expression limma affymetrix written 4.9 years ago by shangzhong0619 • 20 • updated 3 months ago by Biostar ♦♦ 20
44
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5
answers
9.8k
views
12 follow
5
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Rna-Seq Biological Replicates...
replicates gene next-gen rna sequencing written 7.9 years ago by Gregory Miles • 100 • updated 3 months ago by pshubhamoy • 10
5
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2
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330
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6 follow
2
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Replicates for RNA-seq from 1 cell line undergoing different treatments
replicates cell lines rna-seq written 3 months ago by azayob • 0 • updated 3 months ago by i.sudbery • 1.9k
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691
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Mixed biological and technical replicates in RNAseq differential expression experiment.
replicates experimental design deseq2 rna-seq written 7 months ago by jcrickets • 0
3
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839
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0
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Calling peaks with macs2 if not all replicates have a corresponding input-file
replicates macs2 chip-seq written 12 months ago by jklopp • 0 • updated 10 months ago by Biostar ♦♦ 20
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1
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5 follow
1
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Chips-Seq Replicates And Motif Discovery: What Is The Most Sound Way To Deal With The Merged Peaks (Peak Consensus) ?
replicates chip-seq motif written 4.4 years ago by Nick • 240 • updated 16 months ago by Biostar ♦♦ 20
1
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1
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2.5k
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1
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The Purpose Of The Repeat Experiments
replicates snp genotyping written 6.6 years ago by Zhshqzyc • 440 • updated 20 months ago by Biostar ♦♦ 20
1
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0
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549
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0
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High in group variability RNA seq
replicates variability rna seq written 22 months ago by Biogeek • 260
2
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8
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2.0k
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8
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TMM normalization for RNA seq data with three replicates (2 samples)
replicates edger rna-seq tmm written 2.3 years ago by IrK • 20
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1
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1
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qRT-PCR analysis : average triplicates for statistical testing
replicates qrt-pcr statistics written 2.4 years ago by Nicolas Rosewick • 6.2k • updated 2.4 years ago by Devon Ryan ♦ 78k
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1.0k
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Cell Line gene expression Analysis with multiple replicates
replicates cell line gene expression analysis written 2.5 years ago by hpw9 • 0 • updated 2.4 years ago by Biostar ♦♦ 20
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4
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4
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DESeq2 for differential expression analysis of RNA-seq datawith few samples per condition?
replicates samples deseq2 rna-seq written 2.5 years ago by amyfm • 10 • updated 2.5 years ago by marina.kimyr • 10
0
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1
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692
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1
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Blog: Benchmarking DGE Tools as a Function of Replicates
deseq dge tools blog rna-seq replicates edger written 2.9 years ago by support • 610 • updated 2.9 years ago by Antonio R. Franco • 3.6k
8
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3
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2.4k
views
3
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Differential expression without technical replicates
replicates cufflinks deseq rna-seq expression written 2.9 years ago by jakalssj3 • 80 • updated 2.9 years ago by Gary • 440
1
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1
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2.3k
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1
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DE analysis with [DESeq2] without replicates
replicates time series deseq2 rna-seq written 3.1 years ago by john • 30 • updated 3.1 years ago by kangyueapril • 80
0
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2
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1.6k
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2
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How to merge replicates of mapped reads out of Tophat for pathview and gage analysis.
replicates tophat pathview gage written 3.8 years ago by Parham • 1.3k • updated 3.2 years ago by geek_y ♦ 8.3k
27
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4
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6.2k
views
19 follow
4
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ChIP-Seq: Calling peaks with replicates
replicates peak calling chip-seq written 3.6 years ago by dariober ♦ 9.0k • updated 3.6 years ago by Michele Busby • 1.7k
20
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5
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16k
views
10 follow
5
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Rnaseq Differential Expression
replicates rna-seq written 5.8 years ago by Ashutosh Pandey ♦ 11k • updated 3.7 years ago by Onat • 0
12
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2
answers
5.1k
views
5 follow
2
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Should the reads of biological replicates be combined for ChIP-seq peak calling?
replicates chip-seq written 3.8 years ago by Ian ♦ 5.1k • updated 3.8 years ago by Chris Fields • 1.9k
4
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1
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1.6k
views
1
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Replicates in Tophat
replicates tophat written 3.8 years ago by Parham • 1.3k • updated 3.8 years ago by Devon Ryan ♦ 78k
8
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1
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2.5k
views
1
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How To Combine Solid Ngs Reads From Technical Replicates
replicates solid written 7.5 years ago by Ian ♦ 5.1k • updated 4.2 years ago by Biostar ♦♦ 20
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2
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2.0k
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2
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Low Number Of Replicates Deseq
replicates R variation deseq written 4.2 years ago by federico.gaiti • 70 • updated 4.2 years ago by Michele Busby • 1.7k
2
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1
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3.7k
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6 follow
1
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Large Variation In Rpkm Values Of Different Biological Replicates From Cufflinks
replicates rpkm cufflinks deseq written 4.2 years ago by hoangtv • 20 • updated 4.2 years ago by Charles Warden ♦ 5.0k
20
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4
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5.4k
views
13 follow
4
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Rna-Seq: Treat Samples As Biological Replicates?
replicates rna-seq written 4.3 years ago by jockbanan • 370 • updated 4.3 years ago by Michele Busby • 1.7k
0
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1
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2.0k
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1
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How To Use Biological Replicates For Allele Specific Analysis Using Heterozygous Population ?
replicates written 4.3 years ago by Ashutosh Pandey ♦ 11k • updated 4.3 years ago by Charles Warden ♦ 5.0k
17
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3
answers
6.5k
views
13 follow
3
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Time Course Rna-Seq Analysis
replicates rna-seq written 5.1 years ago by kanwarjag • 870 • updated 4.4 years ago by Charles Warden ♦ 5.0k
4
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3
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2.7k
views
3
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Replicates In Chip-Seq
replicates model chip-seq written 4.6 years ago by Nick • 240 • updated 4.6 years ago by Ying W • 3.8k
2
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1
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3.7k
views
1
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Rna-Seq : Biological And Technical Replicates In Expression Analysis (Deseq)
replicates biology deseq rna-seq written 4.7 years ago by Nicolas Rosewick • 6.2k • updated 4.7 years ago by Charles Warden ♦ 5.0k
2
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1
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1.6k
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5 follow
1
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Pooling Replicates With Different Read Lengths
replicates chip-seq written 4.8 years ago by KCC • 3.8k • updated 4.8 years ago by matted ♦ 6.7k
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