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Robustness and applicability of transcription factor and pathway analysis tools on single-cell RNA-seq data

Genome Biology, 2020-02, Vol.21 (1), p.36-36, Article 36

2020

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Multiplexed relative and absolute quantitative immunopeptidomics reveals MHC I repertoire alterations induced by CDK4/6 inhibition

Nature communications, 2020-06, Vol.11 (1), p.2760-2760, Article 2760

2020

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DNA Repair Capacity in Multiple Pathways Predicts Chemoresistance in Glioblastoma Multiforme

Cancer research (Chicago, Ill.), 2017-01, Vol.77 (1), p.198-206

2017

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ROS and Oxidative Stress Are Elevated in Mitosis during Asynchronous Cell Cycle Progression and Are Exacerbated by Mitotic Arrest

Cell systems, 2019-02, Vol.8 (2), p.163-167.e2

2019

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Low Doses of Arsenic in a Mouse Model of Human Exposure and in Neuronal Culture Lead to S-Nitrosylation of Synaptic Proteins and Apoptosis via Nitric Oxide

International journal of molecular sciences, 2020-05, Vol.21 (11), p.3948

2020

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Phosphoproteomics identifies microglial Siglec‐F inflammatory response during neurodegeneration

Molecular systems biology, 2020-12, Vol.16 (12), p.e9819-n/a

2020

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Transite: A Computational Motif-Based Analysis Platform That Identifies RNA-Binding Proteins Modulating Changes in Gene Expression

Cell reports (Cambridge), 2020-08, Vol.32 (8), p.108064-108064, Article 108064

2020

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A genome-scale in vivo loss-of-function screen identifies Phf6 as a lineage-specific regulator of leukemia cell growth

Genes & development, 2015-03, Vol.29 (5), p.483-488

2015

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Comprehensive substrate specificity profiling of the human Nek kinome reveals unexpected signaling outputs

eLife, 2019-05, Vol.8

2019

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Tandem phosphorylation within an intrinsically disordered region regulates ACTN4 function

Science signaling, 2015-05, Vol.8 (378), p.ra51

2015

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An in vitro intestinal model captures immunomodulatory properties of the microbiota in inflammation

Gut microbes, 2022-12, Vol.14 (1), p.2039002-2039002

2022

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Quantitative Phospho-proteomics to Investigate the Polo-like Kinase 1-Dependent Phospho-proteome

Molecular & cellular proteomics, 2011-11, Vol.10 (11), p.M111.008540-M111.008540, Article M111.008540

2011

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PTP1B-dependent regulation of receptor tyrosine kinase signaling by the actin-binding protein Mena

Molecular biology of the cell, 2015-11, Vol.26 (21), p.3867-3878

2015

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Cancer-Associated Fibroblasts and Squamous Epithelial Cells Constitute a Unique Microenvironment in a Mouse Model of Inflammation-Induced Colon Cancer

Frontiers in oncology, 2022-05, Vol.12, p.878920-878920

2022

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Acidification of Tumor at Stromal Boundaries Drives Transcriptome Alterations Associated with Aggressive Phenotypes

Cancer research (Chicago, Ill.), 2019-04, Vol.79 (8), p.1952-1966

2019

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Shank3 mutation in a mouse model of autism leads to changes in the S-nitroso-proteome and affects key proteins involved in vesicle release and synaptic function

Molecular psychiatry, 2020-08, Vol.25 (8), p.1835-1848

2020

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Proteomics of Coagulopathy Following Injury Reveals Limitations of Using Laboratory Assessment to Define Trauma-Induced Coagulopathy to Predict Massive Transfusion

Annals of surgery open, 2022-06, Vol.3 (2), p.e167-e167

2022

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The injury response to DNA damage in live tumor cells promotes antitumor immunity

Science signaling, 2021-10, Vol.14 (705), p.eabc4764

2021

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A computational method for the analysis and prediction of protein:phosphopeptide‐binding sites

Protein science, 2005-01, Vol.14 (1), p.131-139

2005

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Multiplexed Plasma Immune Mediator Signatures Can Differentiate Sepsis From NonInfective SIRS: American Surgical Association 2020 Annual Meeting Paper

Annals of surgery, 2020-10, Vol.272 (4), p.604

2020

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Integrated mapping of pharmacokinetics and pharmacodynamics in a patient-derived xenograft model of glioblastoma

Nature communications, 2018-11, Vol.9 (1), p.4904-13, Article 4904

2018

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Early Immune Changes Support Signet Ring Cell Dormancy in CDH1-Driven Hereditary Diffuse Gastric Carcinogenesis

Molecular cancer research, 2023-12, Vol.21 (12), p.1356

2023

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Action‐at‐a‐distance interactions enhance protein binding affinity

Protein science, 2005-05, Vol.14 (5), p.1363-1369

2005

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Spatial exclusivity combined with positive and negative selection of phosphorylation motifs is the basis for context-dependent mitotic signaling

Science signaling, 2011-06, Vol.4 (179), p.ra42

2011

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Robustness and applicability of transcription factor and pathway analysis tools on single-cell RNA-seq data

Multiplexed relative and absolute quantitative immunopeptidomics reveals MHC I repertoire alterations induced by CDK4/6 inhibition

DNA Repair Capacity in Multiple Pathways Predicts Chemoresistance in Glioblastoma Multiforme

ROS and Oxidative Stress Are Elevated in Mitosis during Asynchronous Cell Cycle Progression and Are Exacerbated by Mitotic Arrest

Low Doses of Arsenic in a Mouse Model of Human Exposure and in Neuronal Culture Lead to S-Nitrosylation of Synaptic Proteins and Apoptosis via Nitric Oxide

Phosphoproteomics identifies microglial Siglec‐F inflammatory response during neurodegeneration

Transite: A Computational Motif-Based Analysis Platform That Identifies RNA-Binding Proteins Modulating Changes in Gene Expression

A genome-scale in vivo loss-of-function screen identifies Phf6 as a lineage-specific regulator of leukemia cell growth

Comprehensive substrate specificity profiling of the human Nek kinome reveals unexpected signaling outputs

Tandem phosphorylation within an intrinsically disordered region regulates ACTN4 function

An in vitro intestinal model captures immunomodulatory properties of the microbiota in inflammation

Quantitative Phospho-proteomics to Investigate the Polo-like Kinase 1-Dependent Phospho-proteome

PTP1B-dependent regulation of receptor tyrosine kinase signaling by the actin-binding protein Mena

Cancer-Associated Fibroblasts and Squamous Epithelial Cells Constitute a Unique Microenvironment in a Mouse Model of Inflammation-Induced Colon Cancer

Acidification of Tumor at Stromal Boundaries Drives Transcriptome Alterations Associated with Aggressive Phenotypes

Shank3 mutation in a mouse model of autism leads to changes in the S-nitroso-proteome and affects key proteins involved in vesicle release and synaptic function

Proteomics of Coagulopathy Following Injury Reveals Limitations of Using Laboratory Assessment to Define Trauma-Induced Coagulopathy to Predict Massive Transfusion

The injury response to DNA damage in live tumor cells promotes antitumor immunity

A computational method for the analysis and prediction of protein:phosphopeptide‐binding sites

Multiplexed Plasma Immune Mediator Signatures Can Differentiate Sepsis From NonInfective SIRS: American Surgical Association 2020 Annual Meeting Paper

Integrated mapping of pharmacokinetics and pharmacodynamics in a patient-derived xenograft model of glioblastoma

Early Immune Changes Support Signet Ring Cell Dormancy in CDH1-Driven Hereditary Diffuse Gastric Carcinogenesis

Action‐at‐a‐distance interactions enhance protein binding affinity

The intrinsic substrate specificity of the human tyrosine kinome

Spatial exclusivity combined with positive and negative selection of phosphorylation motifs is the basis for context-dependent mitotic signaling

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