Lab Notes: Bioinformatics Archives - Laboratory Notes https://www.laboratorynotes.com/category/lab-notes-bioinformatics/ Sat, 27 Sep 2025 19:33:26 +0000 en hourly 1 https://wordpress.org/?v=6.9 Bioinformatics https://www.laboratorynotes.com/bioinformatics/ https://www.laboratorynotes.com/bioinformatics/#respond Sat, 27 Sep 2025 19:33:25 +0000 https://www.laboratorynotes.com/?p=26560 Bioinformatics is an interdisciplinary field that combines biology, computer science, mathematics, and statistics to analyze, interpret, and manage biological data....

The post Bioinformatics appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/bioinformatics/feed/ 0 clusterProfiler Applications https://www.laboratorynotes.com/clusterprofiler-applications/ https://www.laboratorynotes.com/clusterprofiler-applications/#respond Thu, 18 Sep 2025 09:46:01 +0000 https://www.laboratorynotes.com/?p=25752 clusterProfiler has become a widely used tool across biomedical research due to its ability to translate gene- or protein-level data...

The post clusterProfiler Applications appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/clusterprofiler-applications/feed/ 0 R/Bioconductor package https://www.laboratorynotes.com/r-bioconductor-package/ https://www.laboratorynotes.com/r-bioconductor-package/#respond Thu, 18 Sep 2025 09:27:42 +0000 https://www.laboratorynotes.com/?p=25750 R/Bioconductor packages are specialized software modules developed within the Bioconductor project, an open-source initiative that extends the R programming language...

The post R/Bioconductor package appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/r-bioconductor-package/feed/ 0 clusterProfiler https://www.laboratorynotes.com/clusterprofiler/ https://www.laboratorynotes.com/clusterprofiler/#respond Thu, 18 Sep 2025 09:24:42 +0000 https://www.laboratorynotes.com/?p=25748 clusterProfiler is an R/Bioconductor package designed to perform statistical analysis and visualization of functional enrichment in biological datasets. It provides...

The post clusterProfiler appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/clusterprofiler/feed/ 0 scater https://www.laboratorynotes.com/scater/ https://www.laboratorynotes.com/scater/#respond Wed, 17 Sep 2025 23:00:24 +0000 https://www.laboratorynotes.com/?p=25746 scater is an R/Bioconductor package designed to provide tools for preprocessing, quality control (QC), visualization, and analysis of single-cell RNA...

The post scater appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/scater/feed/ 0 scran https://www.laboratorynotes.com/scran/ https://www.laboratorynotes.com/scran/#respond Wed, 17 Sep 2025 22:19:17 +0000 https://www.laboratorynotes.com/?p=25742 scran is a widely used R/Bioconductor package designed for the analysis of single-cell RNA sequencing (scRNA-seq) data, with a focus...

The post scran appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/scran/feed/ 0 SingleCellExperiment https://www.laboratorynotes.com/singlecellexperiment/ https://www.laboratorynotes.com/singlecellexperiment/#respond Wed, 17 Sep 2025 21:56:08 +0000 https://www.laboratorynotes.com/?p=25740 SingleCellExperiment is an R/Bioconductor data container class specifically designed to represent and manage single-cell genomics data, most notably single-cell RNA...

The post SingleCellExperiment appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/singlecellexperiment/feed/ 0 edgeR https://www.laboratorynotes.com/edger/ https://www.laboratorynotes.com/edger/#respond Wed, 17 Sep 2025 21:41:16 +0000 https://www.laboratorynotes.com/?p=25737 edgeR is a statistical software package within the Bioconductor project in R, specifically designed for the analysis of count-based data...

The post edgeR appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/edger/feed/ 0 DESeq2 https://www.laboratorynotes.com/deseq2/ https://www.laboratorynotes.com/deseq2/#respond Wed, 17 Sep 2025 21:25:30 +0000 https://www.laboratorynotes.com/?p=25735 DESeq2 is a widely used statistical package within the Bioconductor project in R, designed for the analysis of count-based next-generation...

The post DESeq2 appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/deseq2/feed/ 0 Applications of Bioconductor https://www.laboratorynotes.com/applications-of-bioconductor/ https://www.laboratorynotes.com/applications-of-bioconductor/#respond Wed, 17 Sep 2025 20:36:14 +0000 https://www.laboratorynotes.com/?p=25733 Bioconductor is not only a software ecosystem but also a powerful enabler of applied research across genomics, transcriptomics, and systems...

The post Applications of Bioconductor appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/applications-of-bioconductor/feed/ 0 Bioconductor https://www.laboratorynotes.com/bioconductor/ https://www.laboratorynotes.com/bioconductor/#respond Wed, 17 Sep 2025 20:12:25 +0000 https://www.laboratorynotes.com/?p=25731 Bioconductor is an open-source, community-driven project that provides a wide ecosystem of software tools, packages, and resources for the analysis...

The post Bioconductor appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/bioconductor/feed/ 0 UCSC Xena https://www.laboratorynotes.com/ucsc-xena/ https://www.laboratorynotes.com/ucsc-xena/#respond Wed, 17 Sep 2025 15:07:25 +0000 https://www.laboratorynotes.com/?p=25709 UCSC Xena is an online data visualization and exploration platform developed by the University of California, Santa Cruz, designed to...

The post UCSC Xena appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/ucsc-xena/feed/ 0 LabKey https://www.laboratorynotes.com/labkey/ https://www.laboratorynotes.com/labkey/#respond Tue, 16 Sep 2025 11:17:28 +0000 https://www.laboratorynotes.com/?p=25472 LabKey is an open-source software platform designed to support scientific data integration, management, and collaboration. It provides a centralized system...

The post LabKey appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/labkey/feed/ 0 Pan-Cancer Analysis https://www.laboratorynotes.com/pan-cancer-analysis/ https://www.laboratorynotes.com/pan-cancer-analysis/#respond Tue, 16 Sep 2025 07:38:52 +0000 https://www.laboratorynotes.com/?p=25467 Pan-cancer analysis is a large-scale approach to studying the molecular and genetic features of cancers across multiple tissue types, rather...

The post Pan-Cancer Analysis appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/pan-cancer-analysis/feed/ 0 Reactome https://www.laboratorynotes.com/reactome/ https://www.laboratorynotes.com/reactome/#respond Sun, 14 Sep 2025 00:15:12 +0000 https://www.laboratorynotes.com/?p=25345 Reactome is a freely accessible, open-source knowledgebase of curated biological pathways and reactions, designed to provide researchers with a detailed...

The post Reactome appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/reactome/feed/ 0 KEGG (Kyoto Encyclopedia of Genes and Genomes) https://www.laboratorynotes.com/kegg-kyoto-encyclopedia-of-genes-and-genomes/ https://www.laboratorynotes.com/kegg-kyoto-encyclopedia-of-genes-and-genomes/#respond Sun, 14 Sep 2025 00:12:43 +0000 https://www.laboratorynotes.com/?p=25343 The KEGG (Kyoto Encyclopedia of Genes and Genomes) is a comprehensive, knowledge-based resource that integrates genomic, chemical, and functional information...

The post KEGG (Kyoto Encyclopedia of Genes and Genomes) appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/kegg-kyoto-encyclopedia-of-genes-and-genomes/feed/ 0 IntAct https://www.laboratorynotes.com/intact/ https://www.laboratorynotes.com/intact/#respond Sun, 14 Sep 2025 00:09:51 +0000 https://www.laboratorynotes.com/?p=25341 The IntAct molecular interaction database is an open-source, freely accessible resource dedicated to the collection, curation, and dissemination of molecular...

The post IntAct appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/intact/feed/ 0 BioGRID (Biological General Repository for Interaction Datasets) https://www.laboratorynotes.com/biogrid-biological-general-repository-for-interaction-datasets/ https://www.laboratorynotes.com/biogrid-biological-general-repository-for-interaction-datasets/#respond Sat, 13 Sep 2025 23:40:04 +0000 https://www.laboratorynotes.com/?p=25339 The BioGRID (Biological General Repository for Interaction Datasets) is a widely used, open-access database that provides curated information on protein–protein...

The post BioGRID (Biological General Repository for Interaction Datasets) appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/biogrid-biological-general-repository-for-interaction-datasets/feed/ 0 STRING (Search Tool for the Retrieval of Interacting Genes/Proteins) https://www.laboratorynotes.com/string-search-tool-for-the-retrieval-of-interacting-genes-proteins/ https://www.laboratorynotes.com/string-search-tool-for-the-retrieval-of-interacting-genes-proteins/#respond Sat, 13 Sep 2025 23:35:49 +0000 https://www.laboratorynotes.com/?p=25337 The STRING database (Search Tool for the Retrieval of Interacting Genes/Proteins) is one of the most widely used resources for...

The post STRING (Search Tool for the Retrieval of Interacting Genes/Proteins) appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/string-search-tool-for-the-retrieval-of-interacting-genes-proteins/feed/ 0 Protein – Protein Interaction (PPI) Network Analysis https://www.laboratorynotes.com/protein-protein-interaction-ppi-network-analysis/ https://www.laboratorynotes.com/protein-protein-interaction-ppi-network-analysis/#respond Sat, 13 Sep 2025 22:59:13 +0000 https://www.laboratorynotes.com/?p=25335 Protein – protein interaction (PPI) network analysis is a powerful systems biology approach used to explore the complex interactions that...

The post Protein – Protein Interaction (PPI) Network Analysis appeared first on Laboratory Notes.

]]> https://www.laboratorynotes.com/protein-protein-interaction-ppi-network-analysis/feed/ 0