Lu Yu

发表

Proteomic Analysis of in Vivo Phosphorylated Synaptic Proteins*

Iain D G Campuzano, S. Grant, H. Husi, 2005, Journal of Biological Chemistry.

Molecular characterization and comparison of the components and multiprotein complexes in the postsynaptic proteome

S. Grant, H. Husi, Chris N. G. Anderson, 2006, Journal of neurochemistry.

Shotgun proteomics aids discovery of novel protein-coding genes, alternative splicing, and "resurrected" pseudogenes in the mouse genome.

James C. Wright, J. Harrow, A. Frankish, 2011, Genome research.

Analysis of protein phosphorylation on a proteome‐scale

M. Collins, J. Choudhary, Lu Yu, 2007, Proteomics.

Quantitative RNA-seq analysis of the Campylobacter jejuni transcriptome

D. Maskell, R. Chaudhuri, J. Choudhary, 2011, Microbiology.

A Strand-Specific RNA–Seq Analysis of the Transcriptome of the Typhoid Bacillus Salmonella Typhi

Samuel A. Assefa, K. James, G. Dougan, 2009, PLoS genetics.

An Expanded Oct4 Interaction Network: Implications for Stem Cell Biology, Development, and Disease

M. Babu, A. Bradley, J. Choudhary, 2010, Cell stem cell.

Cyclin B1-Cdk1 facilitates MAD1 release from the nuclear pore to ensure a robust spindle checkpoint

J. Pines, J. Choudhary, Lu Yu, 2020, The Journal of cell biology.

Sub-minute phosphoregulation of cell-cycle systems during Plasmodium gamete formation

P. Beltrão, J. Choudhary, Lu Yu, 2017, bioRxiv.

Faecal neutrophil elastase-antiprotease balance reflects colitis severity

J. Choudhary, Lu Yu, H. Williams, 2019, Mucosal Immunology.

The BAF and PRC2 Complex Subunits Dpf2 and Eed Antagonistically Converge on Tbx3 to Control ESC Differentiation

J. Nichols, K. Plath, J. Choudhary, 2019, Cell stem cell.

Landscape of the Plasmodium Interactome Reveals Both Conserved and Species-Specific Functionality

J. Rayner, J. Choudhary, Lu Yu, 2019, Cell reports.

UTX-mediated enhancer and chromatin remodeling suppresses myeloid leukemogenesis through noncatalytic inverse regulation of ETS and GATA programs

B. Göttgens, O. Dovey, L. Bullinger, 2018, Nature Genetics.

The BEACH-domain containing protein, Nbeal2, interacts with Dock7, Sec16a and Vac14

William J. Astle, Luigi, P. Nurden, 2017 .

Myst2/Kat7 histone acetyltransferase interaction proteomics reveals tumour-suppressor Niam as a novel binding partner in embryonic stem cells

J. Choudhary, Lu Yu, W. Skarnes, 2017, Scientific Reports.

Catalytic domain of the human ubiquitin-conjugating enzyme UBE2S C118M

C. Sotriffer, J. Mansfeld, J. Choudhary, 2019 .

Citrobacter rodentium is an Unstable Pathogen Showing Evidence of Significant Genomic Flux

Thomas M. Keane, Nicola K. Petty, S. Nair, 2011, PLoS pathogens.

DIPG Harbors Alterations Targetable by MEK Inhibitors, with Acquired Resistance Mechanisms Overcome by Combinatorial Inhibition

T. Jacques, J. Choudhary, Sara Temelso, 2020, Cancer discovery.

Broad-Spectrum Regulation of Nonreceptor Tyrosine Kinases by the Bacterial ADP-Ribosyltransferase EspJ

J. Choudhary, P. Jennings, Lu Yu, 2018, mBio.

Phosphoproteomic Analysis of the Mouse Brain Cytosol Reveals a Predominance of Protein Phosphorylation in Regions of Intrinsic Sequence Disorder*S

Jyoti S Choudhary, S. Grant, M. Collins, 2008, Molecular & Cellular Proteomics.

C9orf72 arginine-rich dipeptide proteins interact with ribosomal proteins in vivo to induce a toxic translational arrest that is rescued by eIF1A

L. Partridge, J. Choudhary, Lu Yu, 2019, Acta Neuropathologica.

Delineating the HMGB1 and HMGB2 interactome in prostate and ovary epithelial cells and its relationship with cancer

J. Choudhary, Lu Yu, M. Cerdán, 2018, Oncotarget.

Transcriptome and proteome analysis of Salmonella enterica serovar Typhimurium systemic infection of wild type and immune-deficient mice

P. Lio’, S. Clare, D. Maskell, 2017, PloS one.

Cyclic diGMP Regulates Production of Sortase Substrates of Clostridium difficile and Their Surface Exposure through ZmpI Protease-mediated Cleavage

N. Fairweather, J. Choudhary, B. Wren, 2015, The Journal of Biological Chemistry.

Crosstalk between PKA and PKG controls pH‐dependent host cell egress of Toxoplasma gondii

J. Choudhary, Lu Yu, D. Soldati-Favre, 2017, The EMBO journal.

A quantitative proteomic screen of the Campylobacter jejuni flagellar-dependent secretome

D. Maskell, J. Choudhary, Lu Yu, 2017, Journal of proteomics.

The Citrobacter rodentium type III secretion system effector EspO affects mucosal damage repair and antimicrobial responses

James C. Wright, M. Pevsner-Fischer, E. Elinav, 2018, PLoS pathogens.

Interferon-driven alterations of the host’s amino acid metabolism in the pathogenesis of typhoid fever

James C. Wright, O. Ramilo, A. Mejias, 2016, The Journal of experimental medicine.

A Conserved Acetyl Esterase Domain Targets Diverse Bacteriophages to the Vi Capsular Receptor of Salmonella enterica Serovar Typhi

Nicola K. Petty, Andries J. van Tonder, B. Barrell, 2010, Journal of bacteriology.

UFMylation regulates translational homeostasis and cell cycle progression

J. Hampe, I. Glauche, Igor A. Gak, 2020, bioRxiv.

Ubiquitylation of MLKL at lysine 219 positively regulates necroptosis-induced tissue injury and pathogen clearance

J. Bertin, J. Choudhary, Lu Yu, 2021, Nature Communications.

Identification of protein complexes that bind to histone H3 combinatorial modifications using super-SILAC and weighted correlation network analysis

J. Choudhary, Lu Yu, M. Rotival, 2015, Nucleic acids research.

Prmt5 is essential for early mouse development and acts in the cytoplasm to maintain ES cell pluripotency.

M. Surani, J. Choudhary, T. W. Theunissen, 2010, Genes & development.

Multi-tissue integrative analysis of personal epigenomes

William Stafford Noble, James C. Wright, Jacob M. Schreiber, 2021 .

Cell Stem Cell Resource An Expanded Oct 4 Interaction Network : Implications for Stem Cell Biology , Development , and Disease

M. Madan Babu, Mercedes Pardo, Allan Bradley, 2022 .

UTX-mediated enhancer and chromatin remodeling suppresses myeloid leukemogenesis through noncatalytic inverse regulation of ETS and GATA programs

B. Göttgens, O. Dovey, L. Bullinger, 2018, Nature Genetics.

Mutations in FAM50A suggest that Armfield XLID syndrome is a spliceosomopathy

Cheol‐Hee Kim, C. Skinner, R. Stevenson, 2020, Nature Communications.

Nbeal2 interacts with Dock7, Sec16a, and Vac14.

William J. Astle, W. Ouwehand, P. Nurden, 2018, Blood.

Accurate and sensitive peptide identification with Mascot Percolator.

Markus Brosch, Lu Yu, Jyoti Choudhary, 2009, Journal of proteome research.

Resource Genomic Determinants of Protein Abundance Variation in Colorectal Cancer Cells

James C. Wright, Emanuel J. V. Gonçalves, A. Brazma, 2018 .

Genomic Determinants of Protein Abundance Variation in Colorectal Cancer Cells

Rodrigo Dienstmann, Justin Guinney, Julio Saez-Rodriguez, 2016, bioRxiv.

An E2-ubiquitin thioester-driven approach to identify substrates modified with ubiquitin and ubiquitin-like molecules

Igor A. Gak, J. Mansfeld, J. Choudhary, 2018, Nature Communications.

Robust Enrichment of Phosphorylated Species in Complex Mixtures by Sequential Protein and Peptide Metal-Affinity Chromatography and Analysis by Tandem Mass Spectrometry

S. Grant, H. Husi, M. Collins, 2005, Science's STKE.

Quantitative proteomic analysis of Shigella flexneri and Shigella sonnei Generalized Modules for Membrane Antigens (GMMA) reveals highly pure preparations

G. Dougan, N. Thomson, J. Choudhary, 2016, International journal of medical microbiology : IJMM.

The ubiquitin-dependent ATPase p97 removes cytotoxic trapped PARP1 from chromatin

Y. Pommier, A. Tutt, J. Bartek, 2022, Nature Cell Biology.

HMGB1 Protein Interactions in Prostate and Ovary Cancer Models Reveal Links to RNA Processing and Ribosome Biogenesis through NuRD, THOC and Septin Complexes

J. Choudhary, Lu Yu, M. Cerdán, 2021, Cancers.

Proteomic and Genomic Characterization of Highly Infectious Clostridium difficile 630 Spores

S. Clare, G. Dougan, J. Parkhill, 2009, Journal of bacteriology.

Activation of the Aryl Hydrocarbon Receptor Interferes with Early Embryonic Development

K. Niakan, Y. Li, B. Stockinger, 2017, Stem cell reports.

Myst2/Kat7 histone acetyltransferase interaction proteomics reveals tumour-suppressor Niam as a novel binding partner in embryonic stem cells

J. Choudhary, Lu Yu, W. Skarnes, 2017, Scientific Reports.

Functional genomics reveals that Clostridium difficile Spo0A coordinates sporulation, virulence and metabolism

G. Dougan, J. Choudhary, H. Flint, 2014, BMC Genomics.

Resolving Affinity Purified Protein Complexes by Blue Native PAGE and Protein Correlation Profiling

J. Choudhary, Lu Yu, M. Pardo, 2017, Journal of visualized experiments : JoVE.

Characterization of Two Distinct Nucleosome Remodeling and Deacetylase (NuRD) Complex Assemblies in Embryonic Stem Cells*

J. Choudhary, Lu Yu, M. Pardo, 2015, Molecular & Cellular Proteomics.

Nuclear receptor binding protein 1 regulates intestinal progenitor cell homeostasis and tumour formation

A. Fraser, A. Rust, D. Adams, 2012, The EMBO journal.

A Knockout Screen of ApiAP2 Genes Reveals Networks of Interacting Transcriptional Regulators Controlling the Plasmodium Life Cycle

J. Rayner, J. Choudhary, Lu Yu, 2017, Cell host & microbe.

Cyclin B1-Cdk1 binding to MAD1 links nuclear pore disassembly to chromosomal stability

J. Pines, J. Choudhary, Lu Yu, 2019, bioRxiv.

Mechanisms controlling the temporal degradation of Nek2A and Kif18A by the APC/C–Cdc20 complex

J. Pines, J. Nilsson, Lu Yu, 2013, The EMBO journal.

the Vi capsular receptor of Salmonella enterica serovar Typhi 2

Nicola K. Petty, B. Barrell, G. Dougan, 2010 .

The flagellotropic bacteriophage YSD1 targets Salmonella Typhi with a Chi‐like protein tail fibre

S. Clare, G. Dougan, T. Lithgow, 2019, Molecular microbiology.

Proteomic analysis of extracellular vesicles from a Plasmodium falciparum Kenyan clinical isolate defines a core parasite secretome

J. Rayner, J. Choudhary, Lu Yu, 2017, Wellcome open research.

Citrobacter rodentium Subverts ATP Flux and Cholesterol Homeostasis in Intestinal Epithelial Cells In Vivo

James C. Wright, M. Pevsner-Fischer, E. Elinav, 2017, Cell metabolism.

EROS-mediated control of NOX2 and P2X7 biosynthesis

Anneliese O. Speak, Kenneth G. C. Smith, A. Speak, 2021 .

The midbody interactome reveals unexpected roles for PP1 phosphatases in cytokinesis

A. Enright, J. Choudhary, Lu Yu, 2019, Nature Communications.

Multiple short windows of calcium-dependent protein kinase 4 activity coordinate distinct cell cycle events during Plasmodium gametogenesis

J. Choudhary, Lu Yu, M. Pardo, 2017, eLife.

Sub-minute Phosphoregulation of Cell Cycle Systems during Plasmodium Gamete Formation

P. Beltrão, J. Choudhary, Lu Yu, 2017, bioRxiv.

Faecal neutrophil elastase-antiprotease balance reflects colitis severity

J. Choudhary, Lu Yu, H. Williams, 2019, Mucosal Immunology.

A New Method To Determine In Vivo Interactomes Reveals Binding of the Legionella pneumophila Effector PieE to Multiple Rab GTPases

J. Choudhary, Lu Yu, A. Mousnier, 2014, mBio.

Landscape of the Plasmodium Interactome

J. Rayner, J. Choudhary, Lu Yu, 2019, SSRN Electronic Journal.

Functional genomics reveals that Clostridium difficile Spo0A coordinates sporulation, virulence and metabolism

G. Dougan, J. Choudhary, H. Flint, 2014, BMC Genomics.

An E2-ubiquitin thioester-driven approach to identify substrates modified with ubiquitin and ubiquitin-like molecules

Igor A. Gak, J. Mansfeld, J. Choudhary, 2018, bioRxiv.

The midbody interactome reveals unexpected roles for PP1 phosphatases in cytokinesis

Anton J. Enright, J. Choudhary, Lu Yu, 2019, Nature Communications.

Proteomic analysis of extracellular vesicles from a Plasmodium falciparum Kenyan clinical isolate defines a core parasite secretome

J. Rayner, J. Choudhary, Lu Yu, 2017, Wellcome open research.

Mechanisms controlling the temporal degradation of Nek2A and Kif18A by the APC/C–Cdc20 complex

J. Pines, J. Nilsson, Lu Yu, 2013, The EMBO journal.

UTX-mediated enhancer and chromatin remodeling suppresses myeloid leukemogenesis through noncatalytic inverse regulation of ETS and GATA programs

B. Göttgens, O. Dovey, L. Bullinger, 2018, Nature Genetics.

Analysis protein complexes by 1D-SDS-PAGE and tandem mass spectrometry

M. Collins, J. Choudhary, Lu Yu, 2008 .

Accurate and sensitive peptide identification with Mascot Percolator.

T. Hubbard, J. Choudhary, Lu Yu, 2009, Journal of proteome research.

Enhanced Peptide Identification by Electron Transfer Dissociation Using an Improved Mascot Percolator*

Markus Brosch, Lukas Käll, James C. Wright, 2012, Molecular & Cellular Proteomics.

The EN-TEx resource of multi-tissue personal epigenomes & variant-impact models

William Stafford Noble, James C. Wright, Jacob M. Schreiber, 2022, Cell.

Autoinhibition Mechanism of the Ubiquitin-Conjugating Enzyme UBE2S by Autoubiquitination.

C. Sotriffer, J. Mansfeld, J. Choudhary, 2019, Structure.

DIPG Harbors Alterations Targetable by MEK Inhibitors, with Acquired Resistance Mechanisms Overcome by Combinatorial Inhibition

T. Jacques, J. Choudhary, Sara Temelso, 2021, Cancer discovery.