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how investigate genes after meta-analysis in each experiment
deseq2 meta-analysis metaseq deg written 4 weeks ago by Edalat • 10 • updated 27 days ago by Biostar ♦♦ 20
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104
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DEGs of various metastatic samples
metastasis deg written 28 days ago by fahime.falahi • 0
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285
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Differentially Expressed Genes Analysis with RNA-Seq data
next-gen rna-seq deg written 10 weeks ago by Xiaokang ZH • 20 • updated 10 weeks ago by EagleEye • 4.4k
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253
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6 follow
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how to set threshold of fdr and p values
limma deg written 3 months ago by flavia • 0 • updated 3 months ago by b.nota • 3.5k
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6 follow
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How to define a non differentially expressed gene?
deseq2 edger deg non-deg rna-seq written 4 months ago by xieshaojun0621 • 80 • updated 3 months ago by Michael Love • 1.4k
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What does benchmark method exactly mean?
benchmark methods edger deg rna-seq written 4 months ago by natalia.fghf • 250 • updated 4 months ago by Macspider • 1.2k
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264
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Fold Change accepts, FDR denies; which one to use ?
fdr fc rna-seq deg written 5 months ago by Farbod • 3.0k • updated 5 months ago by Devon Ryan ♦ 69k
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384
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RNA-Seq And Genome Annotation file (GFF/GTF)
genome assembly rna-seq deg written 6 months ago by sanathoi • 10 • updated 6 months ago by pupaliwen • 0
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8 follow
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Forum: How to convincingly illustrate and discuss negative results in NGS.
forum negative results rna-seq deg written 6 months ago by Carlo Yague • 3.0k
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5 follow
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Heatmaps: Why and How to use them
heatmaps rna-seq deg written 6 months ago by hougiotaejut • 10 • updated 6 months ago by mforde84 • 700
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Forum: Game Theory: how to use it in RNA-seq DEG analysis
forum game theory rna-seq deg written 8 months ago by Farbod • 3.0k
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RNA-seq time series data analysis ********* updated
multide main effects deg written 10 months ago by natalia.fghf • 250
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Number of reads in one gene affect the differential expression analysis?
rnaseq counts deseq deg rna-seq written 11 months ago by camelbbs • 580 • updated 11 months ago by i.sudbery • 1.3k
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From cuffmerge to cuffdiff: Which .gtf files should be merged if assession differential gene expression
cuffdiff rna-seq cuffmerge deg written 12 months ago by kennethcondon2007 • 810
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421
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network analysis of DEGs
module finder network analysis deg written 13 months ago by Shamim Sarhadi • 170
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384
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Isoforms with opposite read counts and reverse complement sequences
illumina next-gen deg bowtie2 written 13 months ago by davidfishy • 10
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Which plan is more reasonable, gsea on total dataset , on subset of total dataset with DEG or preRanked gsea?
gsea deg written 15 months ago by Shamim Sarhadi • 170 • updated 15 months ago by John ♦ 11k
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which set of results are more reliable and precise for DEG analysis, limma vs GSEA ?
limma deg gsea written 15 months ago by Shamim Sarhadi • 170 • updated 15 months ago by vchris_ngs • 3.6k
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447
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A rational way for selecting the number of DEG with significant p-value for GSEA
deg gsea written 16 months ago by Shamim Sarhadi • 170 • updated 16 months ago by b.nota • 3.5k
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giving weight to DEG from limma output
limma gsea deg written 16 months ago by Shamim Sarhadi • 170
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429
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Analysis ideas for a list of DEG with a lot of unannotated regions?
R microarray deg written 16 months ago by hakimelakhrass • 70 • updated 16 months ago by biocyberman • 630
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The best way to get the biologically meaningful interpretation from differentially expressed genes (DEG)
transcriptome assembly gene ontology deg written 17 months ago by seta • 900
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1
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466
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How to see if DEGs are grouped in genome?
overlap deg rna-seq written 22 months ago by Parham • 1.3k • updated 22 months ago by Christian • 2.5k
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865
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A lot of differentially expressed genes
microarray deg written 22 months ago by mahdijalili • 20 • updated 22 months ago by svlachavas • 140
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Differentially expressed microRNA analysis using bowtie2-cufflink-cuffdiff
bowtie2; microrna; cuffdiff; deg cufflink; written 2.1 years ago by illinois.ks • 110
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DEG by Trinity pipeline
trinity rna-seq deg written 2.5 years ago by mina • 20 • updated 2.5 years ago by biogirl • 140
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finding differentially expressed genes in three arm treatment RNA seq data
3 arm treatment rna-seq deg written 3.1 years ago by HNK • 80 • updated 3.1 years ago by dariober • 7.9k
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Construct DAG network from DESEQ2 DEGs
network deseq2 gominer rna-seq deg written 3.2 years ago by luckbuttered • 20
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