Cristian Coarfa

Mechanosignaling Promotes Macrophage Apoptosis Resistance in Pulmonary Fibrosis via Metabolic Reprogramming

This study shows that mechanical stiffness in fibrotic lungs promotes macrophage apoptosis resistance through metabolic reprogramming, contributing to fibrosis progression.

Biallelic Variants in KMO Cause a Novel Form of Congenital NAD Deficiency

The paper identifies biallelic KMO variants as a novel cause of congenital NAD deficiency and shows gene x environment interactions in a mouse model.

Lifecourse sex-specific molecular response to early-life exposures of toxic substances

The paper investigates sex-specific molecular responses to early-life toxicant exposures in mice across multiple life stages using transcriptomic and epigenomic data.

Individual Host Variation in Single-cell Responses to Enteroaggregative Escherichia coli Infection Modeled with Human Colon Organoids

This study uses single-cell RNA sequencing on human colon organoids to show donor-specific responses to EAEC infection, revealing host-driven disease heterogeneity at the single-cell level.

Systemic interindividual epigenetic variants link periconceptional environment to human fetal development

The paper identifies systemic epigenetic variants linked to periconceptional environments in human fetal development, finding more variants in Black Americans and associations with cancer and neurodevelopment.

Early Pulmonary Fibrosis is Defined by Niche- and Cell-Specific Molecular Programs

This paper identifies compartment- and cell-specific molecular programs in preclinical familial pulmonary fibrosis using multi-omic profiling and finds these signatures are partially represented in peripheral blood.

Alveolar niche disruption and aberrant epithelial reprogramming are early hallmarks of idiopathic pulmonary fibrosis

This study identifies early alveolar niche disruption and aberrant epithelial reprogramming in IPF using multi-modal analyses of patient cohorts.

Sulfatase modifying factors control the timing of zebrafish convergence and extension morphogenesis

This study identifies sumf2 as a key regulator of convergence and extension morphogenesis timing in zebrafish by modulating sulfatase activity and heparan sulfate sulfation.

Cell type-independent timekeeping gene modules enable embryonic stage prediction in zebrafish

The paper identifies timekeeping gene modules in zebrafish embryos that predict developmental stages across different tissues and species.

Functional genomic analysis of non-canonical DNA regulatory elements of the aryl hydrocarbon receptor

This study identifies non-consensus XRE (NC-XRE) motifs as functional AHR binding sites in mouse liver, showing their role in regulating gene expression through direct transcriptional control.

Bypassing cisplatin resistance in Nrf2 hyperactivated head and neck cancer through effective PI3Kinase targeting

This paper identifies PI3K pathway activation in Nrf2-driven cisplatin-resistant HNSCC and shows that gedatolisib inhibits tumor growth and re-sensitizes cells to cisplatin.

Lysine Demethylase 4A is a Centrosome Associated Protein Required for Centrosome Integrity and Genomic Stability

This study identifies KDM4A as a centrosome-associated protein whose demethylase activity maintains centrosome integrity and genomic stability.

Human bladder organoids model urinary tract infection and bacteriophage therapy

This study develops human bladder organoids to model UTIs and phage therapy, showing phage reduces bacterial loads and inflammation during infection.

Comprehensive Transcriptomic and Epigenomic Insights into Environmental Toxicant Exposures: The TaRGET II Resource

The paper characterizes persistent epigenomic and transcriptomic changes in mice exposed to environmental toxicants across life stages, revealing widespread gene expression and chromatin alterations.

The impact of environmental exposures on the epigenomic and transcriptomic landscape of transposable elements

This study examines how early-life exposure to environmental toxicants alters TE chromatin accessibility and expression in mouse liver, revealing exposure-specific and sex-dependent effects.

Macropinocytosis inhibition attenuates pro-fibrotic responses in lung fibroblasts and pulmonary fibrosis

This study shows that inhibiting macropinocytosis reduces fibrotic responses in lung fibroblasts and ameliorates pulmonary fibrosis in mice.

Single cell transcriptomics in a treatment-segregated cohort exposes a STAT3-regulated therapeutic gap in idiopathic pulmonary fibrosis

The paper uses single-cell transcriptomics to analyze an IPF cohort, revealing a transcriptional deficit refractory to current treatments and identifying STAT3 as a key regulator in the therapeutic gap.

Overcoming host restrictions to enable continuous passaging of human noroviruses in human intestinal enteroids

This study identifies host restriction factors limiting HuNoV passaging in HIEs and demonstrates that TAK-779 enhances viral replication and enables continuous passaging.

Let-7 restrains an oncogenic circuit in AT2 cells to prevent fibrogenic cell intermediates in pulmonary fibrosis

This study identifies let-7 as a regulator of AT2 cell differentiation and fibrosis prevention by controlling oncogenic networks and epigenetic changes.

Early-Life Environmental Exposures Reprogram Epigenomic Aging to Alter Gene Expression Trajectories

The paper shows early-life toxicant exposure reprograms epigenomic aging, altering gene expression in liver cells and disease risk in adulthood.

Tobacco smoke exposure is a driver of altered oxidative stress response and immunity in head and neck cancer

This study shows cigarette smoke exposure drives aggressive head and neck cancer by altering oxidative stress response and immunity through Nrf2 activation and metabolic reprogramming.

Temporal dynamics of BMP/Nodal ratio drive tissue-specific gastrulation morphogenesis

The paper shows that temporal BMP/Nodal signaling ratios drive tissue-specific convergence and extension movements during zebrafish gastrulation.

Nerve injury inhibits Oprd1 and Cnr1 transcription through REST in primary sensory neurons

This study shows that nerve injury represses Oprd1 and Cnr1 transcription via REST in primary sensory neurons, suggesting REST as a therapeutic target for neuropathic pain.

Genomic and Proteomic Analysis of Patients with Reoccurring Discrete Subaortic Stenosis

This study analyzes genomic and proteomic differences between recurrent and non-recurrent discrete subaortic stenosis patients to identify predictive markers for reoccurrence.

MicroRNA-mRNA networks are dysregulated in opioid use disorder postmortem brain: further evidence for opioid-induced neurovascular alterations

The paper analyzes miRNA-mRNA networks in postmortem brain and blood samples from opioid use disorder patients, identifying dysregulated pathways and potential therapeutic targets.

Systemic interindividual epigenetic variation in humans is associated with transposable elements and under strong genetic control

The paper identifies CoRSIVs with strong genetic control of methylation and links them to transposable elements and disease.

Cistrome and transcriptome analysis identifies unique androgen receptor (AR) and AR- V7 splice variant chromatin binding and transcriptional activities

The paper compares the chromatin binding and transcriptional activities of AR and AR-V7 in prostate cancer cells, finding distinct cistromes and transcriptomes.

Phenotypic Differences in Adult and Fetal Dermal Fibroblast Responses to Mechanical Tension

This study compares how mechanical tension affects HA metabolism and fibrotic gene expression in fetal and adult dermal fibroblasts, showing distinct responses that may explain differences in wound healing outcomes.

Tead1 reciprocally regulates adult β-cell proliferation and function to maintain glucose homeostasis

This study shows TEAD1 regulates adult β-cell proliferation and function, maintaining glucose homeostasis by balancing quiescence and mature identity in mice and humans.

12h-clock control of central dogma information flow by XBP1s

The paper shows XBP1s regulates 12h-transcriptome rhythms in liver, aligning with central dogma information flow, and identifies GABP as a novel regulator.