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Assessing the Relationship Between Mass Window Width and Retention Time Scheduling on Protein Coverage for Data-Independent Acquisition

Journal of the American Society for Mass Spectrometry, 2019-08, Vol.30 (8), p.1396-1405

2019

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Isoform‐resolved correlation analysis between mRNA abundance regulation and protein level degradation

Molecular systems biology, 2020-03, Vol.16 (3), p.e9170-n/a

2020

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An optogenetic-phosphoproteomic study reveals dynamic Akt1 signaling profiles in endothelial cells

Nature communications, 2023-06, Vol.14 (1), p.3803-3803, Article 3803

2023

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Peroxiredoxin 6 protects irradiated cells from oxidative stress and shapes their senescence-associated cytokine landscape

Redox biology, 2022-02, Vol.49, p.102212-102212, Article 102212

2022

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Post‐translational modification and phenotype

Proteomics (Weinheim), 2023-02, Vol.23 (3-4), p.e2200535-n/a

2023

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Quantitative Proteome Profiling of Coxiella burnetii Reveals Major Metabolic and Stress Differences Under Axenic and Cell Culture Cultivation

Frontiers in microbiology, 2019-09, Vol.10, p.2022-2022

2019

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Quantification of cellular protein and redox imbalance using SILAC-iodoTMT methodology

Redox biology, 2019-06, Vol.24, p.101227-101227, Article 101227

2019

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Aberrantly elevated suprabasin in the bone marrow as a candidate biomarker of advanced disease state in myelodysplastic syndromes

Molecular oncology, 2020-10, Vol.14 (10), p.2403-2419

2020

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Phosphoproteomics: Searching for a needle in a haystack

Journal of proteomics, 2011-11, Vol.74 (12), p.2786-2797

2011

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Phosphoproteomic analysis of metformin signaling in colorectal cancer cells elucidates mechanism of action and potential therapeutic opportunities

Clinical and translational medicine, 2023-02, Vol.13 (2), p.e1179-n/a

2023

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Interferon‐regulated suprabasin is essential for stress‐induced stem‐like cell conversion and therapy resistance of human malignancies

Molecular oncology, 2019-07, Vol.13 (7), p.1467-1489

2019

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Chemical inhibition of DNA repair kinases as a promising tool in oncology

Biomedical papers of the Medical Faculty of the University Palacký, Olomouc, Czechoslovakia, 2016-03, Vol.160 (1), p.11-19

2016

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Analysis of proteomes released from in vitro cultured eight Clostridium difficile PCR ribotypes revealed specific expression in PCR ribotypes 027 and 176 confirming their genetic relatedness and clinical importance at the proteomic level

Gut pathogens, 2017-08, Vol.9 (1), p.45-45, Article 45

2017

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BoxCarmax: A High-Selectivity Data-Independent Acquisition Mass Spectrometry Method for the Analysis of Protein Turnover and Complex Samples

Analytical chemistry (Washington), 2021-02, Vol.93 (6), p.3103-3111

2021

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Radio-sensitizing effects of VE-821 and beyond: Distinct phosphoproteomic and metabolomic changes after ATR inhibition in irradiated MOLT-4 cells

PloS one, 2018-07, Vol.13 (7), p.e0199349-e0199349

2018

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Combining Rapid Data Independent Acquisition and CRISPR Gene Deletion for Studying Potential Protein Functions: A Case of HMGN1

Proteomics (Weinheim), 2019-07, Vol.19 (13), p.e1800438-n/a

2019

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Towards a Hypothesis-free Understanding of How Phosphorylation Dynamically Impacts Protein Turnover

Proteomics (Weinheim), 2022-12, Vol.23 (3-4), p.e2100387-e2100387

2022

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Limited Proteolysis-Coupled Mass Spectrometry Identifies Phosphatidylinositol 4,5-Bisphosphate Effectors in Human Nuclear Proteome

Cells (Basel, Switzerland), 2021-01, Vol.10 (1), p.68

2021

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Enrichment strategies for phosphoproteomics: state-of-the-art

Reviews in analytical chemistry, 2012-03, Vol.31 (1), p.29-41

2012

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Global and Site-Specific Effect of Phosphorylation on Protein Turnover

Developmental cell, 2021-01, Vol.56 (1), p.111-124.e6

2021

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Toward a hypothesis‐free understanding of how phosphorylation dynamically impacts protein turnover

Proteomics (Weinheim), 2023-02, Vol.23 (3-4), p.e2100387-n/a

2023

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Respective, Time‐dependent Phosphorylation Modules Shaping Phosphoproteome Abundance and Turnover

The FASEB journal, 2021-05, Vol.35 (S1), p.n/a, Article fasebj.2021.35.S1.00307

2021

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Radiosensitization of human leukemic HL-60 cells by ATR kinase inhibitor (VE-821): phosphoproteomic analysis

International journal of molecular sciences, 2014-07, Vol.15 (7), p.12007-12026

2014

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Oncogene-like addiction to aneuploidy in human cancers

Science (American Association for the Advancement of Science), 2023-08, Vol.381 (6660), p.eadg4521-eadg4521

2023

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Exosomes released by imatinib‑resistant K562 cells contain specific membrane markers, IFITM3, CD146 and CD36 and increase the survival of imatinib‑sensitive cells in the presence of imatinib

International journal of oncology, 2021-02, Vol.58 (2), p.238-250

2021

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Assessing the Relationship Between Mass Window Width and Retention Time Scheduling on Protein Coverage for Data-Independent Acquisition

Isoform‐resolved correlation analysis between mRNA abundance regulation and protein level degradation

An optogenetic-phosphoproteomic study reveals dynamic Akt1 signaling profiles in endothelial cells

Peroxiredoxin 6 protects irradiated cells from oxidative stress and shapes their senescence-associated cytokine landscape

Post‐translational modification and phenotype

Quantitative Proteome Profiling of Coxiella burnetii Reveals Major Metabolic and Stress Differences Under Axenic and Cell Culture Cultivation

Quantification of cellular protein and redox imbalance using SILAC-iodoTMT methodology

Aberrantly elevated suprabasin in the bone marrow as a candidate biomarker of advanced disease state in myelodysplastic syndromes

Phosphoproteomics: Searching for a needle in a haystack

Phosphoproteomic analysis of metformin signaling in colorectal cancer cells elucidates mechanism of action and potential therapeutic opportunities

Interferon‐regulated suprabasin is essential for stress‐induced stem‐like cell conversion and therapy resistance of human malignancies

Chemical inhibition of DNA repair kinases as a promising tool in oncology

Analysis of proteomes released from in vitro cultured eight Clostridium difficile PCR ribotypes revealed specific expression in PCR ribotypes 027 and 176 confirming their genetic relatedness and clinical importance at the proteomic level

BoxCarmax: A High-Selectivity Data-Independent Acquisition Mass Spectrometry Method for the Analysis of Protein Turnover and Complex Samples

Radio-sensitizing effects of VE-821 and beyond: Distinct phosphoproteomic and metabolomic changes after ATR inhibition in irradiated MOLT-4 cells

Combining Rapid Data Independent Acquisition and CRISPR Gene Deletion for Studying Potential Protein Functions: A Case of HMGN1

Towards a Hypothesis-free Understanding of How Phosphorylation Dynamically Impacts Protein Turnover

Limited Proteolysis-Coupled Mass Spectrometry Identifies Phosphatidylinositol 4,5-Bisphosphate Effectors in Human Nuclear Proteome

Enrichment strategies for phosphoproteomics: state-of-the-art

Global and Site-Specific Effect of Phosphorylation on Protein Turnover

Toward a hypothesis‐free understanding of how phosphorylation dynamically impacts protein turnover

Respective, Time‐dependent Phosphorylation Modules Shaping Phosphoproteome Abundance and Turnover

Radiosensitization of human leukemic HL-60 cells by ATR kinase inhibitor (VE-821): phosphoproteomic analysis

Oncogene-like addiction to aneuploidy in human cancers

Exosomes released by imatinib‑resistant K562 cells contain specific membrane markers, IFITM3, CD146 and CD36 and increase the survival of imatinib‑sensitive cells in the presence of imatinib

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