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Vasaikar, Suhas V; Savage, Adam K; Gong, Qiuyu; Swanson, Elliott; Talla, Aarthi; Lord, Cara; Heubeck, Alexander T; Reading, Julian; Graybuck, Lucas T; Meijer, Paul; Torgerson, Troy R; Skene, Peter J; Bumol, Thomas F; Li, Xiao-Jun
Nature communications, 03/2023, Letnik: 14, Številka: 1Journal Article
Longitudinal bulk and single-cell omics data is increasingly generated for biological and clinical research but is challenging to analyze due to its many intrinsic types of variations. We present PALMO ( https://github.com/aifimmunology/PALMO ), a platform that contains five analytical modules to examine longitudinal bulk and single-cell multi-omics data from multiple perspectives, including decomposition of sources of variations within the data, collection of stable or variable features across timepoints and participants, identification of up- or down-regulated markers across timepoints of individual participants, and investigation on samples of same participants for possible outlier events. We have tested PALMO performance on a complex longitudinal multi-omics dataset of five data modalities on the same samples and six external datasets of diverse background. Both PALMO and our longitudinal multi-omics dataset can be valuable resources to the scientific community.
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JCR | SNIP | JCR | SNIP | JCR | SNIP | JCR | SNIP |
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in: SICRIS
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