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Aug 2021
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ncbi.nlm.nih.gov/pmc/articles/PMC6486480/
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Sex Differences in the Ventral Tegmental Area and Nucleus Accumbens Proteome at Baseline and Following Nicotine Exposure

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  DOI: 10.3389/fnmol.2021.657064
  
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Effects of microcompartmentation on flux distribution and metabolic pools in Chlamydomonas reinhardtii chloroplasts

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ncbi.nlm.nih.gov/pmc/articles/PMC6235561/
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DYRK1A Overexpression Alters Cognition and Neural-Related Proteomic Pathways in the Hippocampus That Are Rescued by Green Tea Extract and/or Environmental Enrichment

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ncbi.nlm.nih.gov/pmc/articles/PMC6873902/
Jul 2021
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Calcium-activated chloride channel regulator 1 (CLCA1) forms non-covalent oligomers in colonic mucus and has Mucin 2-processing properties

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jbc.org/content/294/45/17075.full
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NYX‐2925 induces metabotropic NMDAR signaling that enhances synaptic NMDAR and AMPAR

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onlinelibrary.wiley.com/doi/10.1111/jnc.14845
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Untitled document

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ncbi.nlm.nih.gov/pmc/articles/PMC6375727/
currentprotocols.onlinelibrary.wiley.com currentprotocols.onlinelibrary.wiley.com

In Vivo Identification of Protein Kinase Substrates by Kinase‐Oriented Substrate Screening (KIOSS)

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  DOI: 10.1002/cpch.60
  
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currentprotocols.onlinelibrary.wiley.com/doi/full/10.1002/cpch.60
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Regulation of the endosomal SNX27-retromer by OTULIN

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nature.com/articles/s41467-019-12309-z
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RIPLET and not TRIM25 is required for endogenous RIG‐I‐dependent anti‐viral responses

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  DOI: 10.1111/imcb.12284
  
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onlinelibrary.wiley.com/doi/full/10.1111/imcb.12284
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Proteomic analysis of a filaggrin-deficient skin organoid model shows evidence of increased transcriptional-translational activity, keratinocyte-immune crosstalk and disordered axon guidance

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wellcomeopenresearch.org/articles/4-134
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FAK activity sustains intrinsic and acquired ovarian cancer resistance to platinum chemotherapy

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  DOI: 10.7554/eLife.47327
  
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elifesciences.org/articles/47327
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The intramembrane protease SPPL2c promotes male germ cell development by cleaving phospholamban

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SALM1 controls synapse development by promoting F‐actin/PIP2‐dependent Neurexin clustering

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  DOI: 10.15252/embj.2018101289
  
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embopress.org/doi/full/10.15252/embj.2018101289
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Fragment-based discovery of a chemical probe for the PWWP1 domain of NSD3

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nature.com/articles/s41589-019-0310-x
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USP9X Deubiquitylates DVL2 to Regulate WNT Pathway Specification

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sciencedirect.com/science/article/pii/S2211124719308630
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In vivo identification of GTPase interactors by mitochondrial relocalization and proximity biotinylation

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Hyaluronan synthesis supports glutamate transporter activity

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onlinelibrary.wiley.com/doi/full/10.1111/jnc.14791
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Talin-mediated force transmission and talin rod domain unfolding independently regulate adhesion signaling

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Optimization of mass spectrometric parameters improve the identification performance of capillary zone electrophoresis for single-shot bottom-up proteomics analysis

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Effects of microcompartmentation on flux distribution and metabolic pools in Chlamydomonas reinhardtii chloroplasts

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Vps11 and Vps18 of Vps-C membrane traffic complexes are E3 ubiquitin ligases and fine-tune signalling

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nature.com/articles/s41467-019-09800-y
bpspubs.onlinelibrary.wiley.com bpspubs.onlinelibrary.wiley.com

Hydrogen sulfide regulates muscle RING finger‐1 protein S‐sulfhydration at Cys44 to prevent cardiac structural damage in diabetic cardiomyopathy

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  DOI: 10.1111/bph.14601
  
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Studying the Fate of Tumor Extracellular Vesicles at High Spatiotemporal Resolution Using the Zebrafish Embryo

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The Neuroprotective Role of the GM1 Oligosaccharide, II<Superscript>3</Superscript>Neu5Ac-Gg<Subscript>4</Subscript>, in Neuroblastoma Cells

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  DOI: 10.1007/s12035-019-1556-8
  
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Ribosomal Proteins Regulate MHC Class I Peptide Generation for Immunosurveillance

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Systematic Analysis of Human Protein Phosphatase Interactions and Dynamics

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sciencedirect.com/science/article/pii/S2405471217300832
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UBQLN4 Represses Homologous Recombination and Is Overexpressed in Aggressive Tumors

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Spatially Distinct Pools of TORC1 Balance Protein Homeostasis

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sciencedirect.com/science/article/pii/S1097276518309341
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Untitled document

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1. scibot 28 Jul 2021
  
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  DOI: 10.7554/eLife.30952
  
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  DOI: 10.7554/eLife.30952
  
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europepmc.org/articles/PMC5703644/
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Chemical Cross-Linking Enables Drafting ClpXP Proximity Maps and Taking Snapshots of In Situ Interaction Networks

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  DOI: 10.1016/j.chembiol.2018.10.007
  
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Genome-wide Rules of Nucleosome Phasing in Drosophila

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Akt phosphorylates insulin receptor substrate to limit PI3K-mediated PIP3 synthesis

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Symbiotic nitrogen fixation in the reproductive structures of a basidiomycete fungus

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Targeted protein degradation reveals a direct role of SPT6 in RNAPII elongation and termination

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Combined morphological and proteome profiling reveals target-independent impairment of cholesterol homeostasis

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Differences and commonalities in plasma membrane recruitment of the two morphogenetically distinct retroviruses HIV-1 and MMTV

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Quantitative mapping of human hair greying and reversal in relation to life stress

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Nascent RNA antagonizes the interaction of a set of regulatory proteins with chromatin

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TOR signaling regulates liquid phase separation of the SMN complex governing snRNP biogenesis

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May 2021
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Proteomic Exploration of Plasma Exosomes and Other Small Extracellular Vesicles in Pediatric Hodgkin Lymphoma: A Potential Source of Biomarkers for Relapse Occurrence

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1. scibot 29 May 2021
  
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Mass-spectrometry-based proteomics reveals mitochondrial supercomplexome plasticity

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Crosstalk between YAP and RAR-RXR drives expression of stemness genes to promote 5-FU resistance and self-renewal in colorectal cancer cells

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Diagnostic Biomarkers from Proteomic Characterization of Cerebrospinal Fluid in Patients with Brain Malignancies

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ATG4 family proteins drive phagophore growth independently of the LC3/GABARAP lipidation system

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Structural Basis for Bacterial Ribosome-Associated Quality Control by RqcH and RqcP

1
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A Cell-Autonomous Signature of Dysregulated Protein Phosphorylation Underlies Muscle Insulin Resistance in Type 2 Diabetes

1
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  DOI: 10.1016/j.cmet.2020.08.007
  
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Thermal proteome profiling identifies the membrane-bound purinergic receptor P2X4 as a target of the autophagy inhibitor indophagolin

1
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Erosion of human X chromosome inactivation causes major remodeling of the iPSC proteome

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Physical and Functional Analysis of the Putative Rpn13 Inhibitor RA190

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Triplexed Affinity Reagents to Sample the Mammalian Inositol Pyrophosphate Interactome

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Tissue-specific modulation of gene expression in response to lowered insulin signalling in Drosophila

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Developing Covalent Protein Drugs via Proximity-Enabled Reactive Therapeutics

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Integrated Omics of Metastatic Colorectal Cancer

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A membrane arm of mitochondrial complex I sufficient to promote respirasome formation

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Insight into the human pathodegradome of the V8 protease from Staphylococcus aureus

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BET Inhibition Blocks Inflammation-Induced Cardiac Dysfunction and SARS-CoV-2 Infection

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Mar 2021
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Discovery of a σ1 receptor antagonist by combination of unbiased cell painting and thermal proteome profiling

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Transcriptional programming drives Ibrutinib-resistance evolution in mantle cell lymphoma

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SUMO is a pervasive regulator of meiosis

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Post-transcriptional regulation of antiviral gene expression by N6-methyladenosine

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Proteogenomics of glioblastoma associates molecular patterns with survival

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Mapping of the contraction-induced phosphoproteome identifies TRIM28 as a significant regulator of skeletal muscle size and function

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Convergent organization of aberrant MYB complex controls oncogenic gene expression in acute myeloid leukemia

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Identification of host proteins differentially associated with HIV-1 RNA splice variants

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Fatal Perinatal Mitochondrial Cardiac Failure Caused by Recurrent De Novo Duplications in the ATAD3 Locus

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Population-scale proteome variation in human induced pluripotent stem cells

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Inverse Data-Driven Modeling and Multiomics Analysis Reveals Phgdh as a Metabolic Checkpoint of Macrophage Polarization and Proliferation

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Factor H Is Bound by Outer Membrane-Displayed Carbohydrate Metabolism Enzymes of Extraintestinal Pathogenic Escherichia coli and Contributes to Opsonophagocytosis Resistance in Bacteria

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The glucocorticoid receptor recruits the COMPASS complex to regulate inflammatory transcription at macrophage enhancers

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Homogentisic acid induces cytoskeleton and extracellular matrix alteration in alkaptonuric cartilage

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Impact of WIN site inhibitor on the WDR5 interactome

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B-Cell-Specific Myd88 L252P Expression Causes a Premalignant Gammopathy Resembling IgM MGUS

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The malaria parasite sheddase SUB2 governs host red blood cell membrane sealing at invasion

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RNF41 regulates the damage recognition receptor Clec9A and antigen cross-presentation in mouse dendritic cells

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Comprehensive Multi-omics Analysis Reveals Mitochondrial Stress as a Central Biological Hub for Spaceflight Impact

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Neuronal Autophagy Regulates Presynaptic Neurotransmission by Controlling the Axonal Endoplasmic Reticulum

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Identification of ubiquitin Ser57 kinases regulating the oxidative stress response in yeast

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An optimized quantitative proteomics method establishes the cell type‐resolved mouse brain secretome

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Characterization of the mechanism by which the RB/E2F pathway controls expression of the cancer genomic DNA deaminase APOBEC3B

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Re-establishment of the epigenetic state and rescue of kinome deregulation in Ts65Dn mice upon treatment with green tea extract and environmental enrichment

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Fatal Perinatal Mitochondrial Cardiac Failure Caused by Recurrent De Novo Duplications in the ATAD3 Locus

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Ordered dephosphorylation initiated by the selective proteolysis of cyclin B drives mitotic exit

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Identification of genes required for glucan exopolysaccharide production in Lactobacillus johnsonii suggests a novel mechanism of biosynthesis

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Comparative proteomics analysis of Tibetan hull-less barley under osmotic stress via data-independent acquisition mass spectrometry

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Inverse Data-Driven Modeling and Multiomics Analysis Reveals Phgdh as a Metabolic Checkpoint of Macrophage Polarization and Proliferation

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A Bartonella Effector Acts as Signaling Hub for Intrinsic STAT3 Activation to Trigger Anti-inflammatory Responses

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Profiling of myristoylation in Toxoplasma gondii reveals an N-myristoylated protein important for host cell penetration

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Single-Cell RNA Sequencing Maps Endothelial Metabolic Plasticity in Pathological Angiogenesis

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OsNSUN2-Mediated 5-Methylcytosine mRNA Modification Enhances Rice Adaptation to High Temperature

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Transferrin Receptor Is a Specific Ferroptosis Marker

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EDF1 coordinates cellular responses to ribosome collisions

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Heterochromatin-Driven Nuclear Softening Protects the Genome against Mechanical Stress-Induced Damage

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Differential accumulation of storage bodies with aging defines discrete subsets of microglia in the healthy brain

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Parkin contributes to synaptic vesicle autophagy in Bassoon-deficient mice

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Proteome dynamics during homeostatic scaling in cultured neurons

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

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Cerebrospinal fluid proteomic profiling in nusinersen‐treated patients with spinal muscular atrophy

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Metabolic reprogramming of fibro/adipogenic progenitors facilitates muscle regeneration

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Dissecting the Roles of Mitochondrial Complex I Intermediate Assembly Complex Factors in the Biogenesis of Complex I

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BPS Publications

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Mixotrophic Growth Under Micro-Oxic Conditions in the Purple Sulfur Bacterium “Thiodictyon syntrophicum”

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Population-scale proteome variation in human induced pluripotent stem cells

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Metabolic Insights Into Infochemicals Induced Colony Formation and Flocculation in Scenedesmus subspicatus Unraveled by Quantitative Proteomics

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The Aspartic Protease Ddi1 Contributes to DNA-Protein Crosslink Repair in Yeast

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ProTargetMiner as a proteome signature library of anticancer molecules for functional discovery

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Mesothelial Cell HIF1α Expression Is Metabolically Downregulated by Metformin to Prevent Oncogenic Tumor-Stromal Crosstalk

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On-Site Ribosome Remodeling by Locally Synthesized Ribosomal Proteins in Axons

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Increased expression of heme-binding protein 1 early in Alzheimer's disease is linked to neurotoxicity

1
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Tau-Mediated Disruption of the Spliceosome Triggers Cryptic RNA Splicing and Neurodegeneration in Alzheimer’s Disease

1
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Translational repression of the Drosophila nanos mRNA involves the RNA helicase Belle and RNA coating by Me31B and Trailer hitch

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Protein quality control in the nucleolus safeguards recovery of epigenetic regulators after heat shock

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Functional Translatome Proteomics Reveal Converging and Dose-Dependent Regulation by mTORC1 and eIF2α

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MitoRibo-Tag Mice Provide a Tool for In Vivo Studies of Mitoribosome Composition

1
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  DOI: 10.1016/j.celrep.2019.09.080
  
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Tau antibody chimerization alters its charge and binding, thereby reducing its cellular uptake and efficacy

1
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Noncanonical Modulation of the eIF2 Pathway Controls an Increase in Local Translation during Neural Wiring

1
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  DOI: 10.1016/j.molcel.2018.11.013
  
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Perturbation-Based Proteomic Correlation Profiling as a Target Deconvolution Methodology

1
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  DOI: 10.1016/j.chembiol.2018.10.012
  
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Drug Screening in Human PSC-Cardiac Organoids Identifies Pro-proliferative Compounds Acting via the Mevalonate Pathway

1
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  DOI: 10.1016/j.stem.2019.03.009
  
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Untitled document

1
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  DOI: 10.3389/fmicb.2019.00384
  
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currentprotocols.onlinelibrary.wiley.com currentprotocols.onlinelibrary.wiley.com

In Vivo Identification of Protein Kinase Substrates by Kinase‐Oriented Substrate Screening (KIOSS)

1
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  DOI: 10.1002/cpch.60
  
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Untitled document

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  DOI: 10.1016/j.celrep.2019.03.108
  
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Phosphoproteomics Reveals the GSK3-PDX1 Axis as a Key Pathogenic Signaling Node in Diabetic Islets

1
1. scibot 12 Jan 2020
  
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  DOI: 10.1016/j.cmet.2019.02.012
  
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Fission Yeast NDR/LATS Kinase Orb6 Regulates Exocytosis via Phosphorylation of the Exocyst Complex

1
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Novel RNA-Affinity Proteogenomics Dissects Tumor Heterogeneity for Revealing Personalized Markers in Precision Prognosis of Cancer

1
1. scibot 05 Nov 2018
  
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The Cdkn1aSUPER Mouse as a Tool to Study p53-Mediated Tumor Suppression

1
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Histone-lysine N-methyltransferase SETD7 is a potential serum biomarker for colorectal cancer patients

1
1. scibot 05 Nov 2018
  
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Organellar Proteomics and Phospho-Proteomics Reveal Subcellular Reorganization in Diet-Induced Hepatic Steatosis

1
1. scibot 05 Nov 2018
  
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Ubiquitin-Independent Disassembly by a p97 AAA-ATPase Complex Drives PP1 Holoenzyme Formation

1
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Untitled document

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Endogenous rRNA Sequence Variation Can Regulate Stress Response Gene Expression and Phenotype

1
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Spatial Reconstruction of Single Enterocytes Uncovers Broad Zonation along the Intestinal Villus Axis

1
1. scibot 05 Nov 2018
  
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Prospective Isolation and Characterization of Genetically and Functionally Distinct AML Subclones

1
1. scibot 05 Nov 2018
  
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Multi-level Proteomics Identifies CT45 as a Chemosensitivity Mediator and Immunotherapy Target in Ovarian Cancer

1
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Phosphorylation of the Ribosomal Protein RPL12/uL11 Affects Translation during Mitosis

1
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Targeting Epigenetic Crosstalk as a Therapeutic Strategy for EZH2-Aberrant Solid Tumors

1
1. scibot 05 Nov 2018
  
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Mutations in Disordered Regions Can Cause Disease by Creating Dileucine Motifs

1
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Selenocysteine-Specific Mass Spectrometry Reveals Tissue-Distinct Selenoproteomes and Candidate Selenoproteins

1
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Systems-wide Analysis of Serine ADP-Ribosylation Reveals Widespread Occurrence and Site-Specific Overlap with Phosphorylation

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Pseudouridylation of tRNA-Derived Fragments Steers Translational Control in Stem Cells

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A Family of Vertebrate-Specific Polycombs Encoded by the LCOR/LCORL Genes Balance PRC2 Subtype Activities

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Acyldepsipeptide Analogs Dysregulate Human Mitochondrial ClpP Protease Activity and Cause Apoptotic Cell Death

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Urea Cycle Dysregulation Generates Clinically Relevant Genomic and Biochemical Signatures

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Conventional and Neo-Antigenic Peptides Presented by β Cells Are Targeted by Circulating Naïve CD8+ T Cells in Type 1 Diabetic and Healthy Donors

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Decoupling Yeast Cell Division and Stress Defense Implicates mRNA Repression in Translational Reallocation during Stress

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Rapid Cue-Specific Remodeling of the Nascent Axonal Proteome

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MAP Kinase Cascades Regulate the Cold Response by Modulating ICE1 Protein Stability

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The H3K36me2 Methyltransferase Nsd1 Demarcates PRC2-Mediated H3K27me2 and H3K27me3 Domains in Embryonic Stem Cells

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An efficient and scalable pipeline for epitope tagging in mammalian stem cells using Cas9 ribonucleoprotein

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Transient and Partial Nuclear Lamina Disruption Promotes Chromosome Movement in Early Meiotic Prophase

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Arginine Methylation by PRMT2 Controls the Functions of the Actin Nucleator Cobl

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Chromatin Accessibility-Based Characterization of the Gene Regulatory Network Underlying Plasmodium falciparum Blood-Stage Development

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Discovery and Characterization of ZUFSP/ZUP1, a Distinct Deubiquitinase Class Important for Genome Stability

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Nov 2017
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Proteomic landscape of the primary somatosensory cortex upon sensory deprivation

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A Linear Diubiquitin-Based Probe for Efficient and Selective Detection of the Deubiquitinating Enzyme OTULIN

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Ketone Body Acetoacetate Buffers Methylglyoxal via a Non-enzymatic Conversion during Diabetic and Dietary Ketosis

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Quantitative Proteomics of Intestinal Mucosa From Male Mice Lacking Intestinal Epithelial Insulin Receptors

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Acylglycerol Kinase Mutated in Sengers Syndrome Is a Subunit of the TIM22 Protein Translocase in Mitochondria

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Centriolar Satellites Control GABARAP Ubiquitination and GABARAP-Mediated Autophagy

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TTC19 Plays a Husbandry Role on UQCRFS1 Turnover in the Biogenesis of Mitochondrial Respiratory Complex III

1
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SMYD2-Mediated Histone Methylation Contributes to HIV-1 Latency

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The RNA Exosome Syncs IAV-RNAPII Transcription to Promote Viral Ribogenesis and Infectivity

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Phosphoribosylation of Ubiquitin Promotes Serine Ubiquitination and Impairs Conventional Ubiquitination

1
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Covalent Protein Labeling at Glutamic Acids

1
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A Compendium of RNA-Binding Proteins that Regulate MicroRNA Biogenesis

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sciencedirect.com/science/article/pii/S1097276517302046
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Mps1 Regulates Kinetochore-Microtubule Attachment Stability via the Ska Complex to Ensure Error-Free Chromosome Segregation

1
1. scibot 08 Nov 2017
  
  in Public
  
  MaxQuant
  
  Curator: @gabimpine
  
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  (MaxQuant, RRID:SCR_014485)
  
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Hoxa9 and Meis1 Cooperatively Induce Addiction to Syk Signaling by Suppressing miR-146a in Acute Myeloid Leukemia

1
1. scibot 08 Nov 2017
  
  in Public
  
  MaxQuant
  
  Curator: @gabimpine
  
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An Approach to Spatiotemporally Resolve Protein Interaction Networks in Living Cells

1
1. scibot 08 Nov 2017
  
  in Public
  
  MaxQuant
  
  Curator: @Zeljana_Babic
  
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  (MaxQuant, RRID:SCR_014485)
  
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sciencedirect.com/science/article/pii/S0092867417303021
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L-Arginine Modulates T Cell Metabolism and Enhances Survival and Anti-tumor Activity

1
1. scibot 08 Nov 2017
  
  in Public
  
  MaxQuant
  
  Curator: @chewbeccax
  
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Kinetic Analysis of Protein Stability Reveals Age-Dependent Degradation

1
1. scibot 08 Nov 2017
  
  in Public
  
  MaxQuant
  
  Curator: @gabimpine
  
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  (MaxQuant, RRID:SCR_014485)
  
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CDK Substrate Phosphorylation and Ordering the Cell Cycle

1
1. scibot 08 Nov 2017
  
  in Public
  
  MaxQuant
  
  Curator: @chewbeccax
  
  Resource used:
  
  (MaxQuant, RRID:SCR_014485)
  
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The TRAIL-Induced Cancer Secretome Promotes a Tumor-Supportive Immune Microenvironment via CCR2

1
1. scibot 08 Nov 2017
  
  in Public
  
  MaxQuant
  
  Curator: @kaitlinsung
  
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  (MaxQuant, RRID:SCR_014485)
  
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An Interaction Landscape of Ubiquitin Signaling

1
1. scibot 08 Nov 2017
  
  in Public
  
  MaxQuant
  
  Curator: @kaitlinsung
  
  Resource used:
  
  (MaxQuant, RRID:SCR_014485)
  
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journals.plos.org journals.plos.org

Novel Endogenous, Insulin-Stimulated Akt2 Protein Interaction Partners in L6 Myoblasts

1
1. scibot 08 Nov 2017
  
  in Public
  
  MaxQuant
  
  Curator: @jcabotaj
  
  Resource used:
  
  (MaxQuant, RRID:SCR_014485)
  
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