Yan Xu

发表

SLICE: determining cell differentiation and lineage based on single cell entropy

M. Guo, Erik L. Bao, M. Wagner, 2016, Nucleic acids research.

Defective lipoxin-mediated anti-inflammatory activity in the cystic fibrosis airway

J. Uddin, Y. Belkaid, J. Whitsett, 2004, Nature Immunology.

SARS-CoV-2 Receptor ACE2 Is an Interferon-Stimulated Gene in Human Airway Epithelial Cells and Is Detected in Specific Cell Subsets across Tissues

Fabian J Theis, D. Pe’er, A. Regev, 2020, Cell.

Single-cell RNA sequencing identifies diverse roles of epithelial cells in idiopathic pulmonary fibrosis.

B. Stripp, M. Guo, J. Whitsett, 2016, JCI insight.

Glucocorticoid Regulates Mesenchymal Cell Differentiation Required for Perinatal Lung Morphogenesis and Function.

M. Weirauch, A. Jobe, M. Guo, 2020, American journal of physiology. Lung cellular and molecular physiology.

Temporal, spatial, and phenotypical changes of PDGFRα expressing fibroblasts during late lung development.

M. Weirauch, Erik L. Bao, Yan Xu, 2017, Developmental biology.

Dataset on transcriptional profiles and the developmental characteristics of PDGFRα expressing lung fibroblasts☆

M. Weirauch, Erik L. Bao, Yan Xu, 2017, Data in brief.

Lung Gene Expression Analysis (LGEA): an integrative web portal for comprehensive gene expression data analysis in lung development

Ravi S. Misra, S. Bhattacharya, T. Mariani, 2017, Thorax.

Single cell RNA analysis identifies cellular heterogeneity and adaptive responses of the lung at birth

Samriddha Ray, S. Potter, H. Deshmukh, 2019, Nature Communications.

Building and Regenerating the Lung Cell by Cell.

J. Whitsett, Yan Xu, T. Kalin, 2019, Physiological reviews.

Integration of transcriptomic and proteomic data identifies biological functions in cell populations from human infant lung.

Ravi S. Misra, S. Bhattacharya, T. Mariani, 2019, American journal of physiology. Lung cellular and molecular physiology.

Spatial distribution of marker gene activity in the mouse lung during alveolarization

Maryanne E. Ardini-Poleske, B. Aronow, J. Carson, 2018, Data in brief.

TTF-1 Phosphorylation Is Required for Peripheral Lung Morphogenesis, Perinatal Survival, and Tissue-specific Gene Expression*

Susan E Wert, Jeffrey A Whitsett, J. Whitsett, 2003, Journal of Biological Chemistry.

Kruppel-like factor 5 controls villus formation and initiation of cytodifferentiation in the embryonic intestinal epithelium.

J. Whitsett, Yan Xu, V. Besnard, 2013, Developmental biology.

Functional Genomics of Lung Disease

S. Redline, N. Friedman, A. Regev, 2004 .

Systems Biology Approaches for Elucidation of the Transcriptional Regulation of Pulmonary Maturation

J. Whitsett, Yan Xu, 2016 .

Transcriptional Networks – Control of Lung Maturation

J. Whitsett, Yan Xu, 2012 .

EMC3 coordinates surfactant protein and lipid homeostasis required for respiration

J. Whitsett, Yan Xu, Xinhua Lin, 2017, The Journal of clinical investigation.

Dissociation, cellular isolation, and initial molecular characterization of neonatal and pediatric human lung tissues.

Jason R. Myers, Ravi S. Misra, S. Bhattacharya, 2018, American journal of physiology. Lung cellular and molecular physiology.

Sterol response element binding protein and thyroid transcription factor-1 (Nkx2.1) regulate Abca3 gene expression.

J. Whitsett, Yan Xu, V. Besnard, 2007, American journal of physiology. Lung cellular and molecular physiology.

Guided construction of single cell reference for human and mouse lung

Timothy L. Tickle, Ravi S. Misra, B. Aronow, 2022, bioRxiv.

Single Cell Transcriptomic Analysis Identifies a Unique Pulmonary Lymphangioleiomyomatosis Cell.

D. Kwiatkowski, S. Potter, M. Guo, 2020, American journal of respiratory and critical care medicine.

Identification of the lymphangioleiomyomatosis cell and its uterine origin

D. Kwiatkowski, S. Potter, M. Guo, 2019, bioRxiv.

Alveolar injury and regeneration following deletion of ABCA3.

Sydney E. Dautel, J. Whitsett, Yan Xu, 2017, JCI insight.

SARS-CoV-2 entry factors are highly expressed in nasal epithelial cells together with innate immune genes

Masahiro Yoshida, Fabian J. Theis, Oliver Eickelberg, 2020, Nature Medicine.

FOXF1 transcription factor promotes lung morphogenesis by inducing cellular proliferation in fetal lung mesenchyme.

Yan Xu, A. Zorn, K. Yutzey, 2018, Developmental biology.

STAT3 regulates ABCA3 expression and influences lamellar body formation in alveolar type II cells.

J. Whitsett, Yan Xu, V. Besnard, 2008, American journal of respiratory cell and molecular biology.

Single Nucleus Multiomic Profiling Reveals Age-Dynamic Regulation of Host Genes Associated with SARS-CoV-2 Infection

Kyle J. Gaulton, Jamie M. Verheyden, Ravi S. Misra, 2020, bioRxiv.

Cell type-resolved human lung lipidome reveals cellular cooperation in lung function

Anil K. Shukla, Jason R. Myers, Ravi S. Misra, 2018, Scientific Reports.

YAP regulates alveolar epithelial cell differentiation and AGER via NFIB/KLF5/NKX2-1

J. Whitsett, Yan Xu, A. Sridharan, 2021, iScience.

Hippo/Yap signaling controls epithelial progenitor cell proliferation and differentiation in the embryonic and adult lung.

B. Stripp, J. Whitsett, Yan Xu, 2015, Journal of molecular cell biology.

Activation of Sterol-response Element-binding Proteins (SREBP) in Alveolar Type II Cells Enhances Lipogenesis Causing Pulmonary Lipotoxicity*

J. Whitsett, Yan Xu, L. Plantier, 2012, The Journal of Biological Chemistry.

Lysosomal acid lipase deficiency causes respiratory inflammation and destruction in the lung.

Yan Xu, H. Du, Li Yang, 2004, American journal of physiology. Lung cellular and molecular physiology.

Meckel-Gruber Syndrome Protein MKS3 Is Required for Endoplasmic Reticulum-associated Degradation of Surfactant Protein C*

Yan Xu, J. Bridges, T. Weaver, 2009, The Journal of Biological Chemistry.

LungMAP Portal Ecosystem: Systems-Level Exploration of the Lung

V. B. Surya Prasath, Kevin A. Burns, Timothy L. Tickle, 2021, bioRxiv.

Foxa3 induces goblet cell metaplasia and inhibits innate antiviral immunity.

J. Whitsett, Yan Xu, S. Randell, 2014, American journal of respiratory and critical care medicine.

Role of Sonic hedgehog in patterning of tracheal–bronchial cartilage and the peripheral lung

J. Whitsett, Yan Xu, A. Perl, 2004, Developmental dynamics : an official publication of the American Association of Anatomists.

Genetic Disorders of Surfactant Homeostasis

J. Whitsett, Yan Xu, S. Wert, 2005, Neonatology.

Lung Gene Expression Analysis Web Portal Version 3: Lung-at-a-Glance.

M. Guo, J. Whitsett, Yan Xu, 2021, American Journal of Respiratory Cell and Molecular Biology.

Genetic disorders of surfactant homeostasis.

J. Whitsett, Yan Xu, S. Wert, 2005, Biology of the neonate.

Dysregulation of Acid Ceramidase-mediated Sphingolipid Metabolism Contributes to Tumor Progression in Tuberous Sclerosis Complex

D. Lindquist, M. Guo, Yan Xu, 2022, bioRxiv.

Integrative Single Cell Multiomic Profiling Analysis Reveals HOX-PBX Gene Regulatory Network Contributing to the Survival of mTOR Hyperactive Cells

M. Guo, J. Whitsett, Yan Xu, 2022, bioRxiv.

C/EBP (cid:1) is required for pulmonary cytoprotection during hyperoxia

J. Whitsett, Yan Xu, M. Ikegami, 2009 .

This information is current as Infection Respiratory Epithelium during Adenoviral Stat 3 Is Required for Cytoprotection of the and

Kwon-Sik Park, J. Whitsett, Yan Xu, 2006 .

SARS-CoV-2 entry factors are highly expressed in nasal epithelial cells together with innate immune genes

Fabian J Theis, D. Pe’er, A. Regev, 2020, Nature Medicine.

Pretreatment of aged mice with retinoic acid supports alveolar regeneration via upregulation of reciprocal PDGFA signalling

Yan Xu, L. Hariri, A. Perl, 2020, Thorax.

Foxa2 Programs Th2-Cell Mediated Innate Immunity In The Lung

J. Whitsett, Yan Xu, H. Wan, 2010, ATS 2010.

Orphan G protein-coupled receptor GPR116 regulates pulmonary surfactant pool size.

J. Whitsett, Yan Xu, Matthias Mueller, 2013, American journal of respiratory cell and molecular biology.

Inflammatory blockade prevents injury to the developing pulmonary gas exchange surface in preterm primates

N. Salomonis, H. Deshmukh, A. Jobe, 2021, bioRxiv.

Novel insights into pulmonary phosphate homeostasis and osteoclastogenesis emerge from the study of pulmonary alveolar microlithiasis

Nikolaos M. Nikolaidis, Yan Xu, Y. Inoue, 2021, bioRxiv.

MEG3 is increased in idiopathic pulmonary fibrosis and regulates epithelial cell differentiation.

J. Whitsett, Yan Xu, L. Hariri, 2018, JCI insight.

Kruppel-like factor 5 is required for formation and differentiation of the bladder urothelium.

J. Whitsett, Yan Xu, H. Haitchi, 2011, Developmental biology.

Misexpression of MIA disrupts lung morphogenesis and causes neonatal death.

A. Bosserhoff, A. Malkinson, Yan Xu, 2008, Developmental biology.

Gene signature driving invasive mucinous adenocarcinoma of the lung

A. Warth, T. Muley, T. Nagayasu, 2017, EMBO molecular medicine.

Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics

Kyle J. Gaulton, David S. Fischer, Malte D. Luecken, 2021, Nature Medicine.

A census of the lung: CellCards from LungMAP.

Eric E. Bardes, Jamie M. Verheyden, Ravi S. Misra, 2021, Developmental cell.

SPDEF is required for mouse pulmonary goblet cell differentiation and regulates a network of genes associated with mucus production.

Susan E Wert, Hans Clevers, Jeffrey A Whitsett, 2009, The Journal of clinical investigation.

Active epithelial Hippo signaling in idiopathic pulmonary fibrosis.

B. Stripp, J. Whitsett, Yan Xu, 2018, JCI insight.

Compensatory Roles of Foxa1 and Foxa2 during Lung Morphogenesis*

Jeffrey A Whitsett, K. Kaestner, J. Whitsett, 2005, Journal of Biological Chemistry.

Postnatal Alveologenesis Depends on FOXF1 Signaling in c-KIT+ Endothelial Progenitor Cells.

M. Guo, J. Whitsett, Yan Xu, 2019, American journal of respiratory and critical care medicine.

Beta-catenin regulates differentiation of respiratory epithelial cells in vivo.

A. R. Thitoff, J. Whitsett, Yan Xu, 2005, American journal of physiology. Lung cellular and molecular physiology.

ERdj4 and ERdj5 are required for endoplasmic reticulum-associated protein degradation of misfolded surfactant protein C.

Yan Xu, J. Bridges, T. Weaver, 2008, Molecular biology of the cell.

Functional Genomic Responses to Cystic Fibrosis Transmembrane Conductance Regulator (CFTR) and CFTRΔ508 in the Lung*

J. Whitsett, Yan Xu, Jean C. Clark, 2006, Journal of Biological Chemistry.

The balance between protective and pathogenic immune responses to pneumonia in the neonatal lung is enforced by gut microbiota

N. Salomonis, H. Deshmukh, M. Guo, 2022, Science Translational Medicine.

Single-cell multiomic profiling of human lungs reveals cell-type-specific and age-dynamic control of SARS-CoV2 host genes

Kyle J. Gaulton, Jamie M. Verheyden, Ravi S. Misra, 2020, eLife.

Single cell transcriptomic profiling identifies molecular phenotypes of newborn human lung cells

John M. Ashton, Jason R. Myers, Ravi S. Misra, 2020, bioRxiv.

BMP4 and WNT signaling interact to promote mouse tracheal mesenchyme morphogenesis.

Yan Xu, D. Sinner, J. Snowball, 2021, American journal of physiology. Lung cellular and molecular physiology.

BAL Cell Gene Expression Is Indicative of Outcome and Airway Basal Cell Involvement in Idiopathic Pulmonary Fibrosis

G. Kayser, H. Binder, N. Krug, 2019, American journal of respiratory and critical care medicine.

C/EBPα is required for lung maturation at birth

J. Whitsett, Yan Xu, H. Wan, 2006 .

Sox17 is required for normal pulmonary vascular morphogenesis.

P. Thurner, J. Whitsett, Yan Xu, 2014, Developmental biology.

Kruppel-like factor 5 is not required for K-RasG12D lung tumorigenesis, but represses ABCG2 expression and is associated with better disease-specific survival.

C. Gilks, J. Whitsett, Yan Xu, 2010, The American journal of pathology.

Kruppel-like factor 5 is required for perinatal lung morphogenesis and function

J. Whitsett, Yan Xu, H. Wan, 2008, Development.

Kras(G12D) and Nkx2-1 haploinsufficiency induce mucinous adenocarcinoma of the lung.

Takeshi Nagayasu, Tomoshi Tsuchiya, Jeffrey A Whitsett, 2012, The Journal of clinical investigation.

Insulin-like Growth Factor 1 Supports a Pulmonary Niche that Promotes Type 3 Innate Lymphoid Cell Development in Newborn Lungs.

H. Deshmukh, Yan Xu, J. Bridges, 2020, Immunity.

Insulin-like Growth Factor 1 Supports a Pulmonary Niche that Promotes Type 3 Innate Lymphoid Cell Development in Newborn Lungs.

H. Deshmukh, Yan Xu, J. Bridges, 2020, Immunity.

C/EBP{alpha} is required for pulmonary cytoprotection during hyperoxia.

Shawn Grant, Jeffrey A Whitsett, J. Whitsett, 2009, American journal of physiology. Lung cellular and molecular physiology.

Epithelial SCAP/INSIG/SREBP Signaling Regulates Multiple Biological Processes during Perinatal Lung Maturation

J. Whitsett, Yan Xu, V. Besnard, 2014, PloS one.

Conditional deletion of Abca3 in alveolar type II cells alters surfactant homeostasis in newborn and adult mice.

J. Whitsett, Yan Xu, V. Besnard, 2010, American journal of physiology. Lung cellular and molecular physiology.

Conditional deletion of Abca 3 in alveolar type II cells alters surfactant homeostasis in newborn and adult mice

J. Whitsett, Yan Xu, V. Besnard, 2010 .

Expression of ABCA3 in Developing Lung and Other Tissues

J. Whitsett, Yan Xu, V. Besnard, 2007, The journal of histochemistry and cytochemistry : official journal of the Histochemistry Society.

Foxa2 is required for transition to air breathing at birth.

Jeffrey A Whitsett, K. Kaestner, J. Whitsett, 2004, Proceedings of the National Academy of Sciences of the United States of America.

‘LungGENS’: a web-based tool for mapping single-cell gene expression in the developing lung

M. Guo, J. Whitsett, Yan Xu, 2015, Thorax.

Single cell RNA analysis identifies cellular heterogeneity and adaptive responses of the lung at birth

Samriddha Ray, S. Potter, H. Deshmukh, 2019, Nature Communications.

Foxa2 Programs Th2 Cell-Mediated Innate Immunity in the Developing Lung

J. Whitsett, Yan Xu, H. Wan, 2010, The Journal of Immunology.

Transcriptional Adaptation to Cystic Fibrosis Transmembrane Conductance Regulator Deficiency*

B. Aronow, J. Whitsett, Yan Xu, 2003, The Journal of Biological Chemistry.

Comparative Proteomic Analysis of Lung Lamellar Bodies and Lysosome-Related Organelles

Yan Xu, T. Weaver, R. Ridsdale, 2011, PloS one.

FOXF1 Inhibits Pulmonary Fibrosis by Preventing CDH2-CDH11 Cadherin Switch in Myofibroblasts

Yan Xu, T. Kalin, V. Kalinichenko, 2018, Cell reports.

RESULTS FOXF 1 Expression Is Decreased in Human IPF Lung Fibroblasts and in Murine Bleomycin-Treated Fibrotic Lungs

Yan Xu, T. Kalin, X. Ren, 2018 .

Lung at a Glance: an integrative web toolset of lung ontology, imaging and single cell omics

Yan Xu, Shuyang Zhao, Minzhe Guo, 2020, bioRxiv.

Stat3 Is Required for Cytoprotection of the Respiratory Epithelium during Adenoviral Infection1

Kwon-Sik Park, J. Whitsett, Yan Xu, 2006, The Journal of Immunology.

FOXF1 maintains endothelial barrier function and prevents edema after lung injury

Yan Xu, Yuqi Cai, T. Kalin, 2016, Science Signaling.

A systems approach to mapping transcriptional networks controlling surfactant homeostasis

Minlu Zhang, Pooja Kadambi, Jeffrey A Whitsett, 2010, BMC Genomics.

Neutrophil extracellular traps activate IL-8 and IL-1 expression in human bronchial epithelia.

J. Clancy, Yan Xu, B. Trapnell, 2020, American journal of physiology. Lung cellular and molecular physiology.

C/EBPalpha is required for lung maturation at birth.

J. Whitsett, Yan Xu, H. Wan, 2006, Development.

FOXF1 is required for the oncogenic properties of PAX3-FOXO1 in rhabdomyosarcoma.

J. Khan, A. Barski, Yan Xu, 2021, Oncogene.

Transcriptional Programs Controlling Perinatal Lung Maturation

Susan E. Wert, Leah Rae Donahue, Jeffrey A. Whitsett, 2012, PloS one.

Adaptation and increased susceptibility to infection associated with constitutive expression of misfolded SP-C

H. Wong, Yan Xu, J. Bridges, 2006, The Journal of cell biology.

CCAAT/enhancer binding protein-α regulates the protease/antiprotease balance required for bronchiolar epithelium regeneration.

J. Whitsett, Yan Xu, M. Ikegami, 2012, American journal of respiratory cell and molecular biology.

Gene expression and biological processes influenced by deletion of Stat3 in pulmonary type II epithelial cells

Jeffrey A Whitsett, J. Whitsett, Yan Xu, 2007, BMC Genomics.

Single-Cell Transcriptome Analysis Using SINCERA Pipeline.

Minzhe Guo, Yan Xu, M. Guo, 2018, Methods in molecular biology.

Cell type-resolved human lung lipidome reveals cellular cooperation in lung function

John M. Ashton, Anil K. Shukla, Jason R. Myers, 2018, Scientific Reports.

4-Phenylbutyric acid treatment rescues trafficking and processing of a mutant surfactant protein-C.

Yan Xu, T. Weaver, R. Ridsdale, 2012, American journal of respiratory cell and molecular biology.

Surfactant protein C mutation links postnatal type 2 cell dysfunction to adult disease

H. Deshmukh, Yan Xu, Sneha Sitaraman, 2021, JCI insight.

Dosing and formulation of antenatal corticosteroids for fetal lung maturation and gene expression in rhesus macaques

M. Kemp, A. Jobe, J. Whitsett, 2019, Scientific Reports.

Calcineurin/Nfat signaling is required for perinatal lung maturation and function.

J. Neilson, G. Crabtree, J. Whitsett, 2006, The Journal of clinical investigation.

Deletion of Scap in Alveolar Type II Cells Influences Lung Lipid Homeostasis and Identifies a Compensatory Role for Pulmonary Lipofibroblasts*

J. Whitsett, Yan Xu, V. Besnard, 2009, Journal of Biological Chemistry.

In Vivo Generation of Lung and Thyroid Tissues from Embryonic Stem Cells using Blastocyst Complementation.

M. Guo, J. Whitsett, Yan Xu, 2020, American journal of respiratory and critical care medicine.

Airway epithelial transcription factor NK2 homeobox 1 inhibits mucous cell metaplasia and Th2 inflammation.

P. Howarth, S. Holgate, D. Davies, 2011, American journal of respiratory and critical care medicine.

Maternal Synchronization of Gestational Length and Lung Maturation

S. Murray, L. Donahue, J. Whitsett, 2011, PloS one.

Lymphangioleiomyomatosis (LAM) Cell Atlas

D. Kwiatkowski, E. Henske, M. Guo, 2022, Thorax.

Generation of Pulmonary Endothelial Progenitor Cells for Cell-Based Therapy Using Interspecies Mouse-Rat Chimeras.

M. Guo, J. Whitsett, Yan Xu, 2021, American journal of respiratory and critical care medicine.

Forkhead box M1 transcriptional factor is required for smooth muscle cells during embryonic development of blood vessels and esophagus.

Yan Xu, J. Lessard, T. Kalin, 2009, Developmental biology.

Conditional Deletion Of Abca3 In Alveolar Type II Cells Alters Surfactant Homeostasis In Newborn And Adult Mice

J. Whitsett, Yan Xu, V. Besnard, 2010, ATS 2010.

An integrated cell atlas of the lung in health and disease

Malte D. Luecken, Y. Bossé, M. Krasnow, 2023, Nature Medicine.

Single-cell multiomic analysis identifies a HOX-PBX gene network regulating the survival of lymphangioleiomyomatosis cells

M. Guo, J. Whitsett, Yan Xu, 2023, Science advances.

Insights into pulmonary phosphate homeostasis and osteoclastogenesis emerge from the study of pulmonary alveolar microlithiasis

Nikolaos M. Nikolaidis, Yan Xu, Y. Inoue, 2023, Nature Communications.

Lung endothelial cells regulate pulmonary fibrosis through FOXF1/R-Ras signaling

Yan Xu, Donglu Shi, T. Kalin, 2023, Nature communications.