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Everything about Batch effect
Non-biological variation in the results of biological experiments
In molecular biology, a batch effect occurs when non-biological factors in an experiment cause changes in the data produced by the experiment. Such effects can lead to inaccurate conclusions when their causes are correlated with one or more outcomes of interest in an experiment. They are common in many types of high-throughput sequencing experiments, including those using microarrays, mass spectrometers, and single-cell RNA-sequencing data. They are most commonly discussed in the context of genomics and high-throughput sequencing research, but they exist in other fields of science as well. Wikipedia →
🧭 Start here: a 6-step reading path
- Read the overview: Batch effectA 5-minute orientation
- Skim a recent paper: Perspectives for better batch effect correction in mass-spectrometry-based proteomicsInfluential work since 2022
- Pick up a classic book: Foundations and Practice of SecurityThe most-reprinted book on the subject
- Read the landmark paper: Adjusting batch effects in microarray expression data using empirical Bayes methodsCited 8,380 times
- Go sideways: Functional genomicsA closely related topic
- Go sideways: Transcriptomics technologiesA closely related topic
📖 Definitions
No dictionary entry for this exact phrase.
🗂️ The subject at a glance
🏆 Landmark papers (most cited)
Adjusting batch effects in microarray expression data using empirical Bayes methods
The sva package for removing batch effects and other unwanted variation in high-throughput experiments
Seeding Effect on Product Crystal Size in Batch Crystallization.
Compression zone effect in batch sedimentation
Effect of Learning and Forgetting on Batch Sizes
Examining the practical limits of batch effect-correction algorithms: When should you care about batch effects?
Agave tequilana bagasse for methane production in batch and sequencing batch reactors: Acid catalyst effect, batch optimization and stability of the semi-continuous process
Blind estimation and correction of microarray batch effect
🆕 Influential since 2022
Perspectives for better batch effect correction in mass-spectrometry-based proteomics
Highly effective batch effect correction method for RNA-seq count data
Effect of different microbial seeds on batch anaerobic digestion of fish waste
Concordance-Based Batch Effect Correction for Large-Scale Metabolomics
Single-Cell RNA-Seq Debiased Clustering via Batch Effect Disentanglement
📚 Books worth reading
Foundations and Practice of SecurityJoaquin Garcia-Alfaro · 2012
Think Like a FreakSteven D. Levitt, Stephen J. Dubner · 2014- 📕Regression analysis for the social sciencesRachel A. Gordon · 2010
The Lean StartupEric Ries · 2011
How Linux WorksBrian Ward · 2004
GIMP BibleJason van Gumster, Jason Van Gumster · 2010
Photoshop 3D for animatorsRafiq Elmansy · 2011
Exploratory data analysisJohn Wilder Tukey · 1970
Ranked by number of editions on Open Library, a rough measure of how lasting a book is.
🔗 Related topics
- Functional genomics Functional genomics is a field of molecular biology that attempts to describe gene (and protein) functions and interactions. Functional genomics make use…
- Transcriptomics technologies Transcriptomics technologies are the techniques used to study an organism's transcriptome, the sum of all of its RNA transcripts. The information content…
- RNA-Seq RNA-Seq (short for RNA sequencing) is a next-generation sequencing (NGS) technique used to quantify and identify RNA molecules in a biological sample,…
- List of RNA-Seq bioinformatics tools RNA-Seq is a technique that allows transcriptome studies (see also Transcriptomics technologies) based on next-generation sequencing technologies. This…
- Extracellular RNA Extracellular RNA (exRNA) describes RNA species present outside of the cells in which they were transcribed. Carried within extracellular vesicles, lipoproteins…
- Microarray analysis techniques Microarray analysis techniques are used in interpreting the data generated from experiments on DNA (Gene chip analysis), RNA, and protein microarrays,…
- Single-cell transcriptomics Single-cell transcriptomics refers to the quantification and analysis of the transcriptomes of individual cells. Single-cell transcriptomics makes it possible…
- Bioinformatics Bioinformatics (/ˌbaɪ.oʊˌɪnfərˈmætɪks/ ) is an interdisciplinary field of science that develops computational methods and software tools for understanding…