Mitochondrial metabolism coordinates stage-specific repair processes in macrophages during wound healing

Longitudinal transcriptomics define the stages of myeloid activation in the living human brain after intracerebral hemorrhage

(2021) Michael H. Askenase et al.   Science Immunology

Integrated analysis of multimodal single-cell data

(2021) Yuhan Hao et al.   CELL

Metabolic orchestration of the wound healing response

(2021) Sabine A. Eming et al.   Cell Metabolism

A salvage pathway maintains highly functional respiratory complex I

(2020) Karolina Szczepanowska et al.   Nature Communications

Ribosome-Targeting Antibiotics Impair T Cell Effector Function and Ameliorate Autoimmunity by Blocking Mitochondrial Protein Synthesis

(2020) Luís Almeida et al.   IMMUNITY

An evolutionary perspective on immunometabolism

(2019) Andrew Wang et al.   SCIENCE

Inflammatory macrophage dependence on NAD+ salvage is a consequence of reactive oxygen species–mediated DNA damage

(2019) Alanna M. Cameron et al.   NATURE IMMUNOLOGY

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

MAPCap allows high-resolution detection and differential expression analysis of transcription start sites

(2019) Vivek Bhardwaj et al.   Nature Communications

Fibroblast Growth Factor 21 Drives Dynamics of Local and Systemic Stress Responses in Mitochondrial Myopathy with mtDNA Deletions

(2019) Saara Forsström et al.   Cell Metabolism

Metabolic regulation of gene expression by histone lactylation

(2019) Di Zhang et al.   NATURE

Live imaging of wound angiogenesis reveals macrophage orchestrated vessel sprouting and regression

(2018) David B Gurevich et al.   EMBO JOURNAL

Mitochondrial Dynamics at the Interface of Immune Cell Metabolism and Function

(2018) Angelika S. Rambold et al.   TRENDS IN IMMUNOLOGY

Clustering trees: a visualisation for evaluating clusterings at multiple resolutions

(2018) Luke Zappia et al.   GigaScience

Mitochondrial Membrane Potential Regulates Nuclear Gene Expression in Macrophages Exposed to Prostaglandin E2

(2018) David E. Sanin et al.   IMMUNITY

Multi-omics analysis identifies ATF4 as a key regulator of the mitochondrial stress response in mammals

(2017) Pedro M. Quirós et al.   JOURNAL OF CELL BIOLOGY

Macrophage function in tissue repair and remodeling requires IL-4 or IL-13 with apoptotic cells

(2017) Lidia Bosurgi et al.   SCIENCE

Inflammation and metabolism in tissue repair and regeneration

(2017) Sabine A. Eming et al.   SCIENCE

Transcriptomic and proteomic landscape of mitochondrial dysfunction reveals secondary coenzyme Q deficiency in mammals

(2017) Inge Kühl et al.   eLife

Succinate Dehydrogenase Supports Metabolic Repurposing of Mitochondria to Drive Inflammatory Macrophages

(2016) Evanna L. Mills et al.   CELL

Metabolic Reprogramming Mediated by the mTORC2-IRF4 Signaling Axis Is Essential for Macrophage Alternative Activation

(2016) Stanley Ching-Cheng Huang et al.   IMMUNITY

Macrophages: An Inflammatory Link Between Angiogenesis and Lymphangiogenesis

(2016) Bruce A. Corliss et al.   MICROCIRCULATION

deepTools2: a next generation web server for deep-sequencing data analysis

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

Mitochondrial dysfunction remodels one-carbon metabolism in human cells

(2016) Xiaoyan Robert Bao et al.   eLife

Enhanced fatty acid oxidation in adipocytes and macrophages reduces lipid-induced triglyceride accumulation and inflammation

(2015) Maria Ida Malandrino et al.   AMERICAN JOURNAL OF PHYSIOLOGY-ENDOCRINOLOGY AND METABOLISM

Network Integration of Parallel Metabolic and Transcriptional Data Reveals Metabolic Modules that Regulate Macrophage Polarization

(2015) Abhishek K. Jha et al.   IMMUNITY

Interleukin-4 Receptor α Signaling in Myeloid Cells Controls Collagen Fibril Assembly in Skin Repair

(2015) Johanna A. Knipper et al.   IMMUNITY

Immunometabolism governs dendritic cell and macrophage function

(2015) Luke A.J. O’Neill et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Mitohormesis

(2014) Jeanho Yun et al.   Cell Metabolism

Tissue-Specific Loss of DARS2 Activates Stress Responses Independently of Respiratory Chain Deficiency in the Heart

(2014) Sukru Anil Dogan et al.   Cell Metabolism

Cell-intrinsic lysosomal lipolysis is essential for alternative activation of macrophages

(2014) Stanley Ching-Cheng Huang et al.   NATURE IMMUNOLOGY

Full-length RNA-seq from single cells using Smart-seq2

(2014) Simone Picelli et al.   Nature Protocols

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

Succinate is an inflammatory signal that induces IL-1β through HIF-1α

(2013) G. M. Tannahill et al.   NATURE

Lactate stimulates angiogenesis and accelerates the healing of superficial and ischemic wounds in mice

(2012) Paolo E. Porporato et al.   ANGIOGENESIS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

CCR2 recruits an inflammatory macrophage subpopulation critical for angiogenesis in tissue repair

(2012) S. Willenborg et al.   BLOOD

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Cutting Edge: Distinct Glycolytic and Lipid Oxidative Metabolic Programs Are Essential for Effector and Regulatory CD4+ T Cell Subsets

(2011) R. D. Michalek et al.   JOURNAL OF IMMUNOLOGY

Local Macrophage Proliferation, Rather than Recruitment from the Blood, Is a Signature of TH2 Inflammation

(2011) S. J. Jenkins et al.   SCIENCE

Fast and SNP-tolerant detection of complex variants and splicing in short reads

(2010) T. D. Wu et al.   BIOINFORMATICS

Differential Roles of Macrophages in Diverse Phases of Skin Repair

(2010) T. Lucas et al.   JOURNAL OF IMMUNOLOGY

Substrate Fate in Activated Macrophages: A Comparison between Innate, Classic, and Alternative Activation

(2010) J.-C. Rodriguez-Prados et al.   JOURNAL OF IMMUNOLOGY

Selective and Specific Macrophage Ablation Is Detrimental to Wound Healing in Mice

(2009) Rita Mirza et al.   AMERICAN JOURNAL OF PATHOLOGY

How mitochondria produce reactive oxygen species

(2008) Michael P. Murphy   BIOCHEMICAL JOURNAL

Wound repair and regeneration

(2008) Geoffrey C. Gurtner et al.   NATURE