In GreenleafLab/ChrAccR: Analyzing chromatin accessibility data in R

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This resource was established by analyzing several reference ATAC-seq dataset. It includes analysis reports that were generated by ChrAccR. These reports can be used to familiarize oneself with the output of ChrAccR and to explore the analyzed datasets.

ATAC-seq atlas of sorted immune cell populations

Analysis of sorted immune cells from the B and T cell lineages. The dataset includes ATAC-seq profiles of 142 samples in a naive or an immune-stimulated state. A study providing the dataset and an in-depth analysis has been previously published in Nature Genetics [@Calderon:2019cb].

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Analysis reports

• Index

Human hematopoiesis at single-cell resolution

Analysis of normal human hematopoiesis at single-cell resolution. The dataset comprises 31,894 cells derived from bone marrow and PBMC samples. A study providing the dataset and an in-depth analysis in the context of childhood leukemia has been previously published in Nature Biotechnology [@Granja:nbt:2019].

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Analysis reports

• Dataset summary
• Exploratory analysis

References

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link-citations: yes references: - id: Calderon:2019cb title: Landscape of stimulation-responsive chromatin across diverse human immune cells author: - family: Calderon - family: Nguyen - family: Mezger - family: Kathiria - family: Müller - family: Nguyen - family: Lescano - family: Wu - family: Trombetta - family: Ribado - family: Knowles - family: Gao - family: Blaeschke - family: Parent - family: Burt - family: Anderson - family: Criswell - family: Greenleaf - family: Marson - family: Pritchard container-title: Nature Genetics DOI: 10.1038/s41588-019-0505-9 volume: 51 number: 10 page: 1494-1505 issued: year: 2019 type: article-journal - id: Granja:nbt:2019 title: Single-cell multiomic analysis identifies regulatory programs in mixed-phenotype acute leukemia author: - family: Granja - family: Klemm - family: McGinnis - family: Kathiria - family: Mezger - family: Corces - family: Parks - family: Gars - family: Liedtke - family: Zheng - family: Chang - family: Majeti - family: Greenleaf container-title: Nature Biotechnology DOI: 10.1038/s41587-019-0332-7 volume: 37 number: 12 page: 1458-1465 issued: year: 2019 type: article-journal

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GreenleafLab/ChrAccR documentation built on March 22, 2023, 11:42 p.m.