The independent prognostic value of global epigenetic alterations: An analysis of single-cell ATAC-seq of circulating leukocytes from trauma patients followed by validation in whole blood leukocyte transcriptomes across three etiologies of critical illness

[1]  C. Lareau,et al.  Single-cell chromatin state analysis with Signac , 2021, Nature Methods.

[2]  D. Angus,et al.  A road map from single-cell transcriptome to patient classification for the immune response to trauma , 2020, JCI insight.

[3]  Aaron J. Wilk,et al.  A single-cell atlas of the peripheral immune response in patients with severe COVID-19 , 2020, Nature Medicine.

[4]  N. Hacohen,et al.  An immune-cell signature of bacterial sepsis , 2020, Nature Medicine.

[5]  Howard Y. Chang,et al.  Single-cell multiomic analysis identifies regulatory programs in mixed-phenotype acute leukemia , 2019, Nature Biotechnology.

[6]  Chang-Mei Liu,et al.  Regulatory networks between Polycomb complexes and non-coding RNAs in the central nervous system , 2019, Journal of molecular cell biology.

[7]  Paul J. Hoffman,et al.  Comprehensive Integration of Single-Cell Data , 2018, Cell.

[8]  Christoph Hafemeister,et al.  Comprehensive integration of single cell data , 2018, bioRxiv.

[9]  Peter Nürnberg,et al.  Classification of patients with sepsis according to blood genomic endotype: a prospective cohort study. , 2017, The Lancet. Respiratory medicine.

[10]  M. Ermolaeva,et al.  DNA damage in protective and adverse inflammatory responses: Friend of foe? , 2017, Mechanisms of Ageing and Development.

[11]  D. Pennington,et al.  Signatures of inflammation and impending multiple organ dysfunction in the hyperacute phase of trauma: A prospective cohort study , 2017, PLoS medicine.

[12]  J. Knight,et al.  Genomic landscape of the individual host response and outcomes in sepsis: a prospective cohort study , 2016, The Lancet. Respiratory medicine.

[13]  R. Bosselut Pleiotropic Functions of H3K27Me3 Demethylases in Immune Cell Differentiation. , 2016, Trends in immunology.

[14]  Qing-Yu He,et al.  ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization , 2015, Bioinform..

[15]  Michael Q. Zhang,et al.  Integrative analysis of 111 reference human epigenomes , 2015, Nature.

[16]  Danny Reinberg,et al.  A double take on bivalent promoters. , 2013, Genes & development.

[17]  John D. Storey,et al.  A genomic storm in critically injured humans , 2011, The Journal of experimental medicine.

[18]  Helga Thorvaldsdóttir,et al.  Molecular signatures database (MSigDB) 3.0 , 2011, Bioinform..

[19]  Pablo Tamayo,et al.  Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[20]  C. Natanson,et al.  Anti-inflammatory therapies in sepsis and septic shock , 2000, Expert opinion on investigational drugs.