Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell methods like Wilcoxon test: Confronting false discoveries in single-cell differential expression https://t.co/mFvqXf7Kv4 #bioinformatics @wessidepraxis
Confronting false discoveries in single-cell differential expression.
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Oct 2021 – Apr 2025Where it's discussed
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AI synopsis
What people are saying
The discussions highlight the effectiveness of pseudobulk approaches in single-cell differential expression analysis. Phrases like 'must-read paper' and 'obvious but important reminder' indicate the importance users place on the findings, and a phrase like 'save money, save time, save resources' reflects a strong endorsement of its practical benefits. The tone is overwhelmingly positive, indicating both enthusiasm and alignment with the publication's conclusions, while the use of technical commentary showcases deep understanding.
The discussions largely support and affirm the publication's findings, indicating strong consensus among contributors.
Many users express high levels of curiosity and recognize the publication's relevance to their fields.
Posts delve deeply into specific methodologies and implications, demonstrating thoughtful engagement rather than superficial comments.
Contributors believe the publication will substantially influence practices in single-cell analysis based on the insights provided.
Abstract in brief
- Differential expression analysis in single-cell transcriptomics helps identify how different cell types respond to conditions like diseases and injuries.
- Many statistical methods exist for finding differentially expressed genes, but their effectiveness varies based on how well they handle variation between biological samples.
- Ignoring biological variation can lead to biased results and false discoveries, as demonstrated by examining gene expression in injured mouse spinal cords.
Top posts
Most liked on X and BlueskyReposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/pqnzJd0zIr
Confronting false discoveries in single-cell differential expression https://t.co/vDVBXPoOtb
4/ [Confronting false discoveries in single-cell differential expression](https://t.co/FfUmk03S6X) "These observations suggest that, in practice, pseudobulk approaches provide an excellent trade-off between speed and accuracy for single-cell DE analysis." pseduobulk works well.
Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/yGrCHxQUnB
Confronting false discoveries in single-cell differential expression. https://t.co/NFrZRim3FU
All mentions
Addressing False Discoveries in Single-Cell Expression Analysis
Differential expression analysis in single-cell transcriptomics identifies how cell types respond to conditions like diseases and injuries. This video examines the effectiveness of various statistical methods and the…
3/ [Confronting false discoveries in single-cell differential expression](https://t.co/FfUmk03S6X) "These observations suggest that, in practice, pseudobulk approaches provide an excellent trade-off between speed and accuracy for single-cell DE analysis."
3/ [Confronting false discoveries in single-cell differential expression](www.nature.com/articles/s4...) "These observations suggest that, in practice, pseudobulk approaches provide an excellent trade-off between speed and accuracy for single-cell DE analysis."
4/ [Confronting false discoveries in single-cell differential expression](https://t.co/FfUmk03S6X) "These observations suggest that, in practice, pseudobulk approaches provide an excellent trade-off between speed and accuracy for single-cell DE analysis." pseduobulk works well.
Confronting false discoveries in single-cell differential expression https://t.co/6WWbHqO8sB
@yogeshgoyallab For references, the paper "confronting false discoveries in single cell differential expression" is probably the one I most believe...
Confronting false discoveries in single-cell differential expression https://t.co/iJpHqJSL7A
RT @tangming2005: 3/ [Confronting false discoveries in single-cell differential expression](https://t.co/FfUmk03khp) "These observations s…
RT @tangming2005: 3/ [Confronting false discoveries in single-cell differential expression](https://t.co/FfUmk03khp) "These observations s…
RT @tangming2005: 3/ [Confronting false discoveries in single-cell differential expression](https://t.co/FfUmk03khp) "These observations s…
3/ [Confronting false discoveries in single-cell differential expression](https://t.co/FfUmk03khp) "These observations suggest that, in practice, pseudobulk approaches provide an excellent trade-off between speed and accuracy for single-cell DE analysis.
@keviniwatt @grith_hojfeldt "failing to account for biological replicates causes single-cell methods to systematically underestimate the variance of gene expression" Nat Comm 2021 no kidding... https://t.co/jpPAdkj60k
シングルセル解析で発現変動解析をする際によく使われるWilcoxonの順位和検定は、サンプル (e.g. 由来組織) 間で分散の大きい遺伝子を誤ってDEGとして検出するバイアスがある。 Confronting false discoveries in single-cell differential expression https://t.co/zHIkfxsh6a
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
Obvious but important reminder. Single cells from one individual are not statistically independent. Hence, p values from methods assuming this e.g. Mann-Whitney U are meaningless... https://t.co/a34x2SBChE
Super interesting stuff. Squair et al. demonstrate scRNA-seq DE methods which aggregate-then-compare perform better than cell-by-cell comparison methods, because they better account for variance in biological replicates (63/n) https://t.co/5VShi71kfe
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @nibras_issa: Confronting false discoveries in single-cell differential expression | Nature Communications مهم جداً للمهتم ب scRNA htt…
Confronting false discoveries in single-cell differential expression | Nature Communications مهم جداً للمهتم ب scRNA https://t.co/82gUJXvI5H
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
RT @NhiHin: Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell…
Must-read paper for those working with #scRNAseq showing that pseudobulk methods (limma, edgeR) outperform popular #singlecell methods like Wilcoxon test: Confronting false discoveries in single-cell differential expression https://t.co/mFvqXf7Kv4 #bioinformatics @wessidepraxis
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/pqnzJdiazZ
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @SusanneLorenz77: Confronting false discoveries in single-cell differential expression. https://t.co/NFrZRim3FU
Confronting false discoveries in single-cell differential expression. https://t.co/NFrZRim3FU
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @MartinUCSF: Confronting false discoveries in single-cell differential expression https://t.co/vDVBXPoOtb
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @MartinUCSF: Confronting false discoveries in single-cell differential expression https://t.co/vDVBXPoOtb
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
RT @LGMartelotto: Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries i…
Reposting this again…save money, save time, save resources, make discoveries that last. Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/pqnzJd0zIr
RT @MartinUCSF: Confronting false discoveries in single-cell differential expression https://t.co/vDVBXPoOtb
RT @MartinUCSF: Confronting false discoveries in single-cell differential expression https://t.co/vDVBXPoOtb
RT @MartinUCSF: Confronting false discoveries in single-cell differential expression https://t.co/vDVBXPoOtb
RT @MartinUCSF: Confronting false discoveries in single-cell differential expression https://t.co/vDVBXPoOtb
RT @jsantoyo: Confronting false discoveries in single-cell differential expression. #SingleCell #DE #BiologicalReplicatesVariation #BiasedR…
RT @SENGLAITAN: Confronting false discoveries in single-cell differential expression https://t.co/T9CYw38hZm
RT @Pluchinolab: Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/yGrCHxQUnB
Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/yGrCHxQUnB
RT @MartinUCSF: Confronting false discoveries in single-cell differential expression https://t.co/vDVBXPoOtb
RT @MartinUCSF: Confronting false discoveries in single-cell differential expression https://t.co/vDVBXPoOtb
RT @SENGLAITAN: Confronting false discoveries in single-cell differential expression https://t.co/T9CYw38hZm
RT @MartinUCSF: Confronting false discoveries in single-cell differential expression https://t.co/vDVBXPoOtb
RT @MartinUCSF: Confronting false discoveries in single-cell differential expression https://t.co/vDVBXPoOtb
RT @LGMartelotto: Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/pqnzJdiazZ
RT @MartinUCSF: Confronting false discoveries in single-cell differential expression https://t.co/vDVBXPoOtb
RT @LGMartelotto: Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/pqnzJdiazZ
Confronting false discoveries in single-cell differential expression https://t.co/vDVBXPoOtb
RT @LGMartelotto: Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/pqnzJdiazZ
RT @SENGLAITAN: Confronting false discoveries in single-cell differential expression https://t.co/T9CYw38hZm
RT @SENGLAITAN: Confronting false discoveries in single-cell differential expression https://t.co/T9CYw38hZm
RT @LGMartelotto: Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/pqnzJdiazZ
RT @LGMartelotto: Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/pqnzJdiazZ
RT @LGMartelotto: Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/pqnzJdiazZ
RT @LGMartelotto: Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/pqnzJdiazZ
RT @LGMartelotto: Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/pqnzJdiazZ
RT @SENGLAITAN: Confronting false discoveries in single-cell differential expression https://t.co/T9CYw38hZm
RT @SENGLAITAN: Confronting false discoveries in single-cell differential expression https://t.co/T9CYw38hZm
RT @LGMartelotto: Confronting false discoveries in single-cell differential expression | Nature Communications https://t.co/pqnzJdiazZ