J. Diedrich

发表

Improved Identification and Analysis of Small Open Reading Frame Encoded Polypeptides.

Manolis Kellis, Jiao Ma, J. Diedrich, 2016, Analytical chemistry.

Visualization of the HIV-1 Env glycan shield across scales

J. Diedrich, J. Yates, S. Gnanakaran, 2019, Proceedings of the National Academy of Sciences.

Visualization of the HIV-1 Env glycan shield across scales

Srirupa Chakraborty, S Gnanakaran, John R. Yates, 2019, Proceedings of the National Academy of Sciences.

Autism-linked Cullin3 germline haploinsufficiency impacts cytoskeletal dynamics and cortical neurogenesis through RhoA signaling

J. Sebat, L. Iakoucheva, J. Diedrich, 2020, bioRxiv.

Cortical organoids model early brain development disrupted by 16p11.2 copy number variants in autism

J. Sebat, L. Iakoucheva, J. Diedrich, 2020, bioRxiv.

Regulation of the ER stress response by a mitochondrial microprotein

Alan Saghatelian, Uri Manor, Sammy Weiser Novak, 2019, Nature Communications.

Proteomic Analysis of Peripheral Blood Mononuclear Cells after a High-Fat, High-Carbohydrate Meal with Orange Juice.

J. Diedrich, J. Yates, M. Rogero, 2017, Journal of proteome research.

Human Influenza Virus Hemagglutinins Contain Conserved Oligomannose N-Linked Glycans Allowing Potent Neutralization by Lectins

J. Diedrich, J. Yates, A. Thompson, 2020, Cell Host & Microbe.

Structural analysis of full-length SARS-CoV-2 spike protein from an advanced vaccine candidate

J. Diedrich, J. Yates, D. Nemazee, 2020, Science.

The human naive B cell repertoire contains distinct subclasses for a germline-targeting HIV-1 vaccine immunogen

Daniel W. Kulp, Xiaozhen Hu, J. Diedrich, 2018, Science Translational Medicine.

S-Nitrosylation of PINK1 Attenuates PINK1/Parkin-Dependent Mitophagy in hiPSC-Based Parkinson's Disease Models.

Daniel B. McClatchy, S. Lipton, R. Jaenisch, 2017, Cell reports.

Site-specific radical directed dissociation of peptides at phosphorylated residues.

J. Diedrich, R. Julian, 2008, Journal of the American Chemical Society.

A systems mechanism for KRAS mutant allele–specific responses to targeted therapy

J. Diedrich, A. Shaw, T. McFall, 2019, Science Signaling.

Proteomics Profiling of KAIMRC1 in Comparison to MDA-MB231 and MCF-7

J. Diedrich, J. Yates, J. Moresco, 2020, International journal of molecular sciences.

Isolation of chromatin from dysfunctional telomeres reveals an important role for Ring1b in NHEJ-mediated chromosome fusions.

J. Diedrich, J. Yates, D. Pasini, 2014, Cell reports.

Evolutionary Persistence of DNA Methylation for Millions of Years after Ancient Loss of a De Novo Methyltransferase

J. Pritchard, J. Diedrich, J. Yates, 2019, Cell.

A systems mechanism for KRAS mutant allele–specific responses to targeted therapy

J. Diedrich, A. Shaw, T. McFall, 2018, Science Signaling.

Amblyomma americanum serpin 41 (AAS41) inhibits inflammation by targeting chymase and chymotrypsin.

J. Diedrich, J. Yates, I. da Silva Vaz, 2020, International journal of biological macromolecules.

Evolutionary Persistence of DNA Methylation for Millions of Years after Ancient Loss of a De Novo Methyltransferase

Christina A. Cuomo, J. Pritchard, J. Diedrich, 2020, Cell.

Intracellular Action of a Secreted Peptide Required for Fungal Virulence.

Christina A. Cuomo, J. Diedrich, J. Yates, 2016, Cell host & microbe.

Heat shock chaperone HSPB1 regulates cytoplasmic TDP-43 phase separation and liquid-to-gel transition

J. Diedrich, J. Yates, Cong Liu, 2021, bioRxiv.

A proteomic insight into vitellogenesis during tick ovary maturation

J. Diedrich, J. Yates, I. da Silva Vaz, 2018, Scientific Reports.

Aberrant astrocyte protein secretion contributes to altered neuronal development in multiple models of neurodevelopmental disorders

J. Diedrich, M. Shokhirev, N. J. Allen, 2022, Nature Neuroscience.

A non-Dicer RNase III and four other novel factors required for RNAi-mediated transposon suppression in the human pathogenic yeast C. neoformans

J. Diedrich, J. Yates, H. Madhani, 2019, bioRxiv.

A Non-Dicer RNase III and Four Other Novel Factors Required for RNAi-Mediated Transposon Suppression in the Human Pathogenic Yeast Cryptococcus neoformans.

J. Diedrich, J. Yates, H. Madhani, 2019, G3.

Targeted protein S-nitrosylation of ACE2 inhibits SARS-CoV-2 infection

Rommie E. Amaro, S. Lipton, J. Diedrich, 2022, Nature Chemical Biology.

Human immunoglobulin repertoire analysis guides design of vaccine priming immunogens targeting HIV V2-apex broadly neutralizing antibody precursors

Jordan R. Willis, J. Diedrich, J. Yates, 2022, Immunity.

Mitochondrial DNA variation in Alzheimer’s disease reveals a unique microprotein called SHMOOSE

Evan T. Hare, A. Toga, J. Diedrich, 2022, Molecular Psychiatry.

Insulin secretion deficits in a Prader-Willi syndrome β-cell model are associated with a concerted downregulation of multiple endoplasmic reticulum chaperones

Simon C Watkins, J. Diedrich, J. Yates, 2022, bioRxiv.

Intracellular amyloid toxicity induces oxytosis/ferroptosis regulated cell death

Daniel B. McClatchy, J. Diedrich, J. Yates, 2020, Cell Death & Disease.

CBD-1 organizes two independent complexes required for eggshell vitelline layer formation and egg activation in C. elegans.

J. Diedrich, J. Yates, M. Harrison, 2018, Developmental biology.

CBD-1 scaffolds two independent complexes required for eggshell vitelline layer formation and egg activation in C. elegans

J. Diedrich, J. Yates, M. Harrison, 2018, bioRxiv.

Loss of MAGEL2 in Prader-Willi syndrome leads to decreased secretory granule and neuropeptide production

J. Diedrich, J. Yates, M. Talkowski, 2020, JCI insight.

Expression of Amyloidogenic Transthyretin Drives Hepatic Proteostasis Remodeling in an Induced Pluripotent Stem Cell Model of Systemic Amyloid Disease

Richard M. Giadone, Taylor M. Matte, Derek C. Liberti, 2020, Stem cell reports.

Amyloidogenic Proteins Drive Hepatic Proteostasis Remodeling in an Induced Pluripotent Stem Cell Model of Systemic Amyloid Disease

Richard M. Giadone, Taylor M. Matte, Derek C. Liberti, 2019, bioRxiv.

A short ORF-encoded transcriptional regulator

P. Schultz, J. Diedrich, A. Saghatelian, 2021, Proceedings of the National Academy of Sciences.

Site-Speciﬁc O-Glycosylation Analysis of SARS-CoV-2 Spike Protein Produced in Insect and Human Cells

J. Diedrich, J. Yates, A. Thompson, 2021 .

Interactome analysis illustrates diverse gene regulatory processes associated with LIN28A in human iPS cell-derived neural progenitor cells

J. Diedrich, J. Yates, A. Muotri, 2020, iScience.

Double mimicry evades tRNA synthetase editing by toxic vegetable-sourced non-proteinogenic amino acid

J. Diedrich, J. Yates, K. Musier-Forsyth, 2017, Nature Communications.

A proteomic comparison of excretion/secretion products in Fasciola hepatica newly excysted juveniles (NEJ) derived from Lymnaea viatrix or Pseudosuccinea columella.

J. Diedrich, J. Yates, I. da Silva Vaz, 2019, Experimental parasitology.

Tick Gené's organ engagement in lipid metabolism revealed by a combined transcriptomic and proteomic approach.

J. Diedrich, J. Yates, I. da Silva Vaz, 2019, Ticks and tick-borne diseases.

Site-selective fragmentation of peptides and proteins at quinone-modified cysteine residues investigated by ESI-MS.

J. Diedrich, R. Julian, 2010, Analytical Chemistry.

Regulation of ex-translational activities is the primary function of the multi-tRNA synthetase complex

J. Diedrich, J. Yates, S. Ackerman, 2020, Nucleic acids research.

Facile identification of photocleavable reactive metabolites and oxidative stress biomarkers in proteins via mass spectrometry

J. Diedrich, R. Julian, 2012, Analytical and Bioanalytical Chemistry.

Facile identification of phosphorylation sites in peptides by radical directed dissociation.

J. Diedrich, R. Julian, R. R. Julian, 2011, Analytical chemistry.

Targeted protein S-nitrosylation of ACE2 as potential treatment to prevent spread of SARS-CoV-2 infection

Rommie E. Amaro, S. Lipton, J. Diedrich, 2022, bioRxiv.

Global site-specific analysis of glycoprotein N-glycan processing

J. Diedrich, J. Yates, D. Burton, 2018, Nature Protocols.

Autoantibody mimicry of hormone action at the thyrotropin receptor

R. Dror, J. Diedrich, A. Saghatelian, 2022, Nature.

Structural analysis of full-length SARS-CoV-2 spike protein from an advanced vaccine candidate

J. Diedrich, J. Yates, D. Nemazee, 2020, bioRxiv.

Blood anticlotting activity of a Rhipicephalus microplus cathepsin L-like enzyme.

J. Diedrich, J. Yates, R. Torquato, 2019, Biochimie.

The San Diego Nathan Shock Center: tackling the heterogeneity of aging

T. Sharpee, K. Diffenderfer, J. Diedrich, 2021, GeroScience.

Arg-tRNA synthetase links inflammatory metabolism to RNA splicing and nuclear trafficking via SRRM2

B. Blencowe, J. Diedrich, J. Yates, 2021, bioRxiv.

The SARS-CoV-2 nucleocapsid phosphoprotein forms mutually exclusive condensates with RNA and the membrane-associated M protein

J. Diedrich, J. Yates, E. Villa, 2021, Nature Communications.

MIEF1 Microprotein Regulates Mitochondrial Translation.

John R Yates, Alan Saghatelian, J. Diedrich, 2018, Biochemistry.

Identification of Microprotein–Protein Interactions via APEX Tagging

J. Diedrich, C. Donaldson, J. Yates, 2017, Biochemistry.

Primate-Specific ORF0 Contributes to Retrotransposon-Mediated Diversity

F. Gage, Jiao Ma, J. Diedrich, 2015, Cell.

Aberrant astrocyte protein secretion contributes to altered neuronal development in diverse disorders

J. Diedrich, M. Shokhirev, N. J. Allen, 2020, bioRxiv.

Interlaboratory Study for Characterizing Monoclonal Antibodies by Top-Down and Middle-Down Mass Spectrometry.

Lloyd M. Smith, Norelle C. Wildburger, Anton N. Kozhinov, 2020, Journal of the American Society for Mass Spectrometry.

Cancer Conformational Landscape Shape Tumorigenesis.

J. Diedrich, J. Yates, C. Bamberger, 2022, Journal of proteome research.

Coupling of spliceosome complexity to intron diversity

J. Diedrich, J. Yates, H. Madhani, 2021, Current Biology.

Saliva from nymph and adult females of Haemaphysalis longicornis: a proteomic study

J. Diedrich, J. Yates, I. da Silva Vaz, 2015, Parasites & Vectors.

Time-resolved proteomic profile of Amblyomma americanum tick saliva during feeding

J. Diedrich, J. Yates, I. da Silva Vaz, 2019, bioRxiv.

Across intra-mammalian stages of the liver f luke Fasciola hepatica: a proteomic study

J. Diedrich, John R. Yates III, C. Carmona, 2016, Scientific Reports.

Global site-specific N-glycosylation analysis of HIV envelope glycoprotein

John R Yates, Yumiko Adachi, James C Paulson, 2017, Nature Communications.

Dataset supporting the proteomic differences found between excretion/secretion products from two isolates of Fasciola hepatica newly excysted juveniles (NEJ) derived from different snail hosts

J. Diedrich, J. Yates, I. da Silva Vaz, 2019, Data in brief.

Altered network and rescue of human neurons derived from individuals with early-onset genetic epilepsy

Daniel B. McClatchy, J. Diedrich, J. Yates, 2021, Molecular Psychiatry.

Identification and characterization of proteins in the Amblyomma americanum tick cement cone.

J. Diedrich, J. Yates, I. da Silva Vaz, 2017, International journal for parasitology.

Borrelia burgdorferi infection modifies protein content in saliva of Ixodes scapularis nymphs

J. Diedrich, J. Yates, A. Mulenga, 2021, BMC genomics.

A proteomic insight into vitellogenesis during tick ovary maturation

J. Diedrich, J. Yates, I. da Silva Vaz, 2018, Scientific Reports.

Extracting Accurate Precursor Information for Tandem Mass Spectra by RawConverter.

John R Yates, Yen-Yin Chu, J. Diedrich, 2015, Analytical chemistry.

SHMT2 and the BRCC36/BRISC deubiquitinase regulate HIV-1 Tat K63-ubiquitylation and destruction by autophagy

J. Diedrich, J. Yates, K. Jones, 2018, PLoS pathogens.

Direct elucidation of disulfide bond partners using ultraviolet photodissociation mass spectrometry.

J. Diedrich, R. Julian, A. Agarwal, 2011, Analytical chemistry.

A two-step mechanism for TRF2-mediated chromosome end protection

J. Diedrich, J. Yates, E. L. Denchi, 2013, Nature.

Energy Dependence of HCD on Peptide Fragmentation: Stepped Collisional Energy Finds the Sweet Spot

J. Diedrich, J. Yates, Jolene K. Diedrich, 2013, Journal of The American Society for Mass Spectrometry.

TargetSeeker-MS: A Computational Method for Drug Target Discovery using Protein Separation Coupled to Mass Spectrometry

J. Diedrich, J. Yates, S. Martínez-Bartolomé, 2019, bioRxiv.

Site-Specific O-Glycosylation Analysis of SARS-CoV-2 Spike Protein Produced in Insect and Human Cells

J. Diedrich, J. Yates, A. Thompson, 2021, Viruses.

Site-specific O-glycosylation analysis of SARS-CoV-2 spike protein produced in insect and human cells

J. Diedrich, J. Yates, A. Thompson, 2021, bioRxiv.

Protein Footprinting via Covalent Protein Painting Reveals Structural Changes of the Proteome in Alzheimer's Disease.

J. Diedrich, J. Yates, R. Rissman, 2021, Journal of proteome research.

Covalent Protein Painting Reveals Structural Changes in the Proteome in Alzheimer Disease

J. Diedrich, J. Yates, R. Rissman, 2020, bioRxiv.

The INO80 Complex Regulates Epigenetic Inheritance of Heterochromatin

J. Diedrich, J. Yates, S. Jia, 2020, Cell reports.

A genome-edited β-cell model of Prader-Willi syndrome reveals chronic deficits in endoplasmic reticulum chaperones and insulin secretion

Simon C Watkins, J. Diedrich, J. Yates, 2021 .

BRCA1/BARD1-dependent ubiquitination of NF2 regulates Hippo-YAP1 signaling

J. Diedrich, I. Verma, G. Pao, 2019, Proceedings of the National Academy of Sciences.

ProLuCID: An improved SEQUEST-like algorithm with enhanced sensitivity and specificity.

John D. Venable, T Xu, S K Park, 2015, Journal of proteomics.

Mechanism-Based Post-Translational Modification and Inactivation in Terpene Synthases

John R. Yates, J. Diedrich, J. Yates, 2015, ACS chemical biology.

Intercepting IRE1 kinase‐FMRP signaling prevents atherosclerosis progression

J. Diedrich, J. Yates, P. Walter, 2022, EMBO molecular medicine.

HtrA1 Proteolysis of ApoE In Vitro Is Allele Selective.

J. Diedrich, C. Donaldson, J. Vaughan, 2016, Journal of the American Chemical Society.

DeGlyPHER: An Ultrasensitive Method for the Analysis of Viral Spike N-Glycoforms.

J. Diedrich, J. Yates, W. Schief, 2021, Analytical chemistry.

An ultrasensitive method for analysis of viral spike N-glycoforms

J. Diedrich, J. Yates, W. Schief, 2021, bioRxiv.

Differential processing of HIV envelope glycans on the virus and soluble recombinant trimer

J. Diedrich, J. Yates, R. Wyatt, 2018, Nature Communications.

HIV-1 Envelope Glycoprotein Clone BG505 delCT N332T in complex with broadly neutralizing antibody Fab PGT151

J. Diedrich, J. Yates, R. Wyatt, 2018 .

Sequential Primed Kinases Create a Damage-Responsive Phosphodegron on Eco1

John R. Yates, Nicholas A. Lyons, David O. Morgan, 2012, Nature Structural &Molecular Biology.

Identification of myosin II as a cripto binding protein and regulator of cripto function in stem cells and tissue regeneration.

J. Diedrich, W. Fischer, J. Moresco, 2019, Biochemical and biophysical research communications.

EThcD and 213 nm UVPD for Top-Down Analysis of Bovine Seminal Plasma Proteoforms on Electrophoretic and Chromatographic Time Frames.

John R. Yates, Erdogan Memili, J. Diedrich, 2020, Analytical chemistry.

Census 2: isobaric labeling data analysis

Harshil Shah, John R. Yates, Xuemei Han, 2014, Bioinform..

Saliva from nymph and adult females of Haemaphysalis longicornis: a proteomic study

J. Diedrich, J. Yates, I. da Silva Vaz, 2015, Parasites & Vectors.

Double mimicry evades tRNA synthetase editing by toxic vegetable-sourced non-proteinogenic amino acid

J. Diedrich, J. Yates, K. Musier-Forsyth, 2017, Nature Communications.

In vivo Protein Footprinting Reveals the Dynamic Conformational Changes of Proteome of Multiple Tissues in Progressing Alzheimer’s Disease

Daniel B. McClatchy, J. Diedrich, J. Yates, 2023, bioRxiv.

Tandem Mass Tag Proteomic Analysis of In vitro and In vivo Models of Cutaneous Leishmaniasis Reveals Parasite-specific and Non-specific Modulation of Proteins in the Host.

J. Diedrich, J. Yates, M. Eberlin, 2019, ACS infectious diseases.

Evolving spike-protein N-glycosylation in SARS-CoV-2 variants

J. Diedrich, J. Yates, J. Torres, 2023, bioRxiv.

Comparative membrane proteomics reveals diverse cell regulators concentrated at the nuclear envelope

J. Diedrich, J. Yates, S. Martínez-Bartolomé, 2023, Life Science Alliance.

The Host Interactome of Spike Expands the Tropism of SARS-CoV-2

J. Diedrich, J. Yates, S. Martínez-Bartolomé, 2021, bioRxiv.

A non-acidic method using hydroxyapatite and phosphohistidine monoclonal antibodies allows enrichment of phosphopeptides containing non-conventional phosphorylations for mass spectrometry analysis

J. Diedrich, J. Yates, T. Hunter, 2019, bioRxiv.

Intrinsic mesoscale properties of a Polycomb protein underpin heterochromatin fidelity

J. Diedrich, H. Madhani, K. Armache, 2023, Nature Structural & Molecular Biology.

Comparative membrane proteomics reveals diverse cell regulators concentrated at the nuclear envelope

J. Diedrich, S. Martínez-Bartolomé, L. Gerace, 2023, Life science alliance.

Native top-down proteomics reveals EGFR–ERα signaling crosstalk in breast cancer cells dissociates NUTF2 dimers to modulate ERα signaling and cell growth

J. Diedrich, N. Kelleher, J. Nwachukwu, 2023, Research square.

Differential Precipitation of Proteins: A Simple Protein Fractionation Strategy to Gain Biological Insights with Proteomics.

J. Diedrich, J. Moresco, Antonio F. M. Pinto, 2023, Journal of the American Society for Mass Spectrometry.

Differential processing of HIV envelope glycans on the virus and soluble recombinant trimer

John R Yates, James C Paulson, Zachary Berndsen, 2018, Nature Communications.

HIV-1 Envelope Glycoprotein Clone BG505 delCT N332T in complex with broadly neutralizing antibody Fab PGT151

J. Diedrich, J. Yates, R. Wyatt, 2018 .

Amyloidogenic Proteins Drive Hepatic Proteostasis Remodeling in an Induced Pluripotent Stem Cell Model of Systemic Amyloid Disease

Richard M. Giadone, Taylor M. Matte, Derek C. Liberti, 2018, bioRxiv.

Separation of miRNA and its methylation products by capillary electrophoresis.

J. Diedrich, Wenwan Zhong, Ni Li, 2008, Journal of chromatography. A.

A super-enhancer-regulated RNA-binding protein cascade drives pancreatic cancer

J. Diedrich, E. Lenkiewicz, M. Downes, 2023, Nature communications.

A Non-Dicer RNase III and Four Other Novel Factors Required for RNAi-Mediated Transposon Suppression in the Human Pathogenic Yeast Cryptococcus neoformans

J. Diedrich, J. Yates, H. Madhani, 2019, G3: Genes, Genomes, Genetics.

Arg-tRNA synthetase links inflammatory metabolism to RNA splicing and nuclear trafficking via SRRM2

B. Blencowe, J. Diedrich, J. Yates, 2023, Nature Cell Biology.

Arg-tRNA synthetase links inflammatory metabolism to 1 RNA splicing via nuclear condensates 2

B. Blencowe, J. Diedrich, A. Lambowitz, 2021 .

PROTEINS DRIVE HEPATIC PROTEOSTASIS REMODELING INDUCED PLURIPOTENT STEM CELL MODEL OF SYSTEMIC AMYLOID DISEASE 2

Richard M. Giadone, Derek C. Liberti, J. Diedrich, 2019 .

DEFINING HEPATIC MODIFIERS OF ATTR AMYLOIDOSIS THROUGH THERAPEUTIC GENE EDITING IN PATIENT IPSCS

Richard M. Giadone, Derek C. Liberti, J. Diedrich, 2018 .

Diverse competitor B cell responses to a germline-targeting priming immunogen in human Ig loci transgenic mice

Daniel W. Kulp, J. Diedrich, W. Schief, 2024, bioRxiv.

Analysis of the Tropism of SARS-CoV-2 Based on the Host Interactome of the Spike Protein.

J. Diedrich, S. Martínez-Bartolomé, Sandra Pankow, 2023, Journal of proteome research.

Internal Fragments Generated from Different Top-Down Mass Spectrometry Fragmentation Methods Extend Protein Sequence Coverage.

J. Diedrich, J. Loo, Carter Lantz, 2021, Journal of the American Society for Mass Spectrometry.

Cross-editing by a tRNA synthetase allows vertebrates to abundantly express mischargeable tRNA without causing mistranslation

J. Diedrich, T. Pan, J. Moresco, 2020, Nucleic acids research.

Changes in saliva protein profile throughout Rhipicephalus microplus blood feeding

J. Diedrich, A. Mulenga, C. Termignoni, 2024, Parasites & vectors.

Direct elucidation of disulfide bond partners using ultraviolet photodissociation mass spectrometry.

J. Diedrich, A. Agarwal, R. R. Julian, 2011, Analytical chemistry.

HtrA1 Proteolysis of ApoE In Vitro Is Allele Selective.

J. Diedrich, C. Donaldson, J. Vaughan, 2016, Journal of the American Chemical Society.

Mocetinostat activates Krüppel-like factor 4 and protects against tissue destruction and inflammation in osteoarthritis

Daniel B. McClatchy, J. Diedrich, M. Olmer, 2023, JCI insight.

DRIVE HEPATIC PROTEOSTASIS

Richard M. Giadone, Derek C. Liberti, J. Diedrich, 2022 .

Evolutionary Persistence of DNA Methylation for Millions of Years after Ancient Loss of a De Novo Methyltransferase

Christina A. Cuomo, J. Pritchard, J. Diedrich, 2017, Cell.