Publications by authors named "Pengyuan Yang"

100Publications

An ultrafast and highly efficient enrichment method for both N-Glycopeptides and N-Glycans by bacterial cellulose.

Anal Chim Acta 2020 Dec 8;1140:60-68. Epub 2020 Oct 8.

Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai, 200032, China; The Fifth People's Hospital, Fudan University, and the Shanghai Key Laboratory of Medical Epigenetics, the International Co-laboratory of Medical Epigenetics and Metabolism, Ministry of Science and Technology, Fudan University, Shanghai, 200032, China; NHC Key Laboratory of Glycoconjugates Research (Fudan University), Shanghai, 200032, China. Electronic address:

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http://dx.doi.org/10.1016/j.aca.2020.10.006DOI Listing
December 2020

SIRT5 Contributes to Colorectal Cancer Growth by Regulating T Cell Activity.

J Immunol Res 2020 1;2020:3792409. Epub 2020 Sep 1.

Institutes of Biomedical Sciences & Minhang Hospital, Shanghai Medical College, Fudan University, Shanghai 200032, China.

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http://dx.doi.org/10.1155/2020/3792409DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7481950PMC
September 2020

Quantitative proteomics reveals stage-specific protein regulation of triple negative breast cancer.

Breast Cancer Res Treat 2020 Sep 12. Epub 2020 Sep 12.

Institutes of Biomedical Sciences of Shanghai Medical School, Fudan University, Shanghai, China.

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http://dx.doi.org/10.1007/s10549-020-05916-8DOI Listing
September 2020

Fast and precise quantification of serum biomarkers and simultaneous recognition of multiple diseases enabled by a stable isotope-labelled peptides assisted high-throughput MRM strategy.

Analyst 2020 Aug 17;145(15):5299-5306. Epub 2020 Jul 17.

Minhang Hospital and Institutes of Biomedical Sciences, Fudan University, Shanghai, 201199, China.

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http://dx.doi.org/10.1039/d0an01100bDOI Listing
August 2020

Boronic acid-functionalized mesoporous magnetic particles with a hydrophilic surface for the multimodal enrichment of glycopeptides for glycoproteomics.

Analyst 2020 Aug 3;145(15):5252-5259. Epub 2020 Jul 3.

Institutes of Biomedical Sciences & Minhang hospital, Fudan University, Shanghai, 200032, China.

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http://dx.doi.org/10.1039/d0an00648cDOI Listing
August 2020

Recent advances in software tools for more generic and precise intact glycopeptide analysis.

Mol Cell Proteomics 2020 07 1. Epub 2020 Jul 1.

Fudan University, China

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http://dx.doi.org/10.1074/mcp.R120.002090DOI Listing
July 2020

WD repeat-containing protein 1 maintains β-Catenin activity to promote pancreatic cancer aggressiveness.

Br J Cancer 2020 Sep 30;123(6):1012-1023. Epub 2020 Jun 30.

Department of Pancreatic surgery, Huashan Hospital, Fudan University, Shanghai, 200040, P. R. China.

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http://dx.doi.org/10.1038/s41416-020-0929-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7492282PMC
September 2020

HBV induced hepatocellular carcinoma and related potential immunotherapy.

Pharmacol Res 2020 09 4;159:104992. Epub 2020 Jun 4.

Key Laboratory of Infection and Immunity of CAS, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, 100101 Beijing, China; University of Chinese Academy of Sciences, 100049 Beijing, China. Electronic address:

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http://dx.doi.org/10.1016/j.phrs.2020.104992DOI Listing
September 2020

Protein-protein correlations based variable dimension expansion algorithm for high efficient serum biomarker discovery.

Anal Chim Acta 2020 Jul 12;1119:25-34. Epub 2020 Apr 12.

Minhang Hospital and Institutes of Biomedical Sciences, Fudan University, Shanghai, 201199, China; Department of Systems Biology for Medicine and School of Basic Medical Sciences, Fudan University, Shanghai, China; NHC Key Laboratory of Glycoconjugates Research, Fudan University, Shanghai, 200032, PR China. Electronic address:

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http://dx.doi.org/10.1016/j.aca.2020.04.013DOI Listing
July 2020

SIRT5 is important for bacterial infection by regulating insulin secretion and glucose homeostasis.

Protein Cell 2020 Nov;11(11):846-851

Minhang Hospital & Institutes of Biomedical Sciences, Department of Systems Biology for Medicine, School of Basic Medical Sciences, Fudan University, Shanghai, 200032, China.

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http://dx.doi.org/10.1007/s13238-020-00709-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7647967PMC
November 2020

Lipidomic profiling of virus infection identifies mediators that resolve herpes simplex virus-induced corneal inflammatory lesions.

Analyst 2020 Jun 22;145(11):3967-3976. Epub 2020 Apr 22.

Minhang Hospital & Institutes of Biomedical Sciences & Department of Systems Biology for Medicine, Fudan University, Shanghai, 200032, P. R. China.

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http://dx.doi.org/10.1039/d0an00263aDOI Listing
June 2020

CCL22 signaling contributes to sorafenib resistance in hepatitis B virus-associated hepatocellular carcinoma.

Pharmacol Res 2020 07 8;157:104800. Epub 2020 Apr 8.

CAS Key Laboratory of Infection and Immunity, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Beijing, 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.phrs.2020.104800DOI Listing
July 2020

LC-MS/MS and SWATH based serum metabolomics enables biomarker discovery in pancreatic cancer.

Clin Chim Acta 2020 Jul 31;506:214-221. Epub 2020 Mar 31.

Institutes of Biomedical Sciences and The Fifth People's Hospital of Shanghai, Fudan University, Shanghai 200032, China. Electronic address:

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http://dx.doi.org/10.1016/j.cca.2020.03.043DOI Listing
July 2020

In silico spectral libraries by deep learning facilitate data-independent acquisition proteomics.

Nat Commun 2020 01 9;11(1):146. Epub 2020 Jan 9.

Department of Chemistry, Shanghai Stomatological Hospital, and Institutes of Biomedical Sciences, Fudan University, Shanghai, 200000, China.

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http://dx.doi.org/10.1038/s41467-019-13866-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6952453PMC
January 2020

Outer Membrane Protease OmpT-Based Strategy for Simplified Analysis of Histone Post-Translational Modifications by Mass Spectrometry.

Anal Chem 2020 01 12;92(1):732-739. Epub 2019 Dec 12.

Shanghai Stomatological Hospital & Institutes of Biomedical Sciences , Fudan University , Shanghai 200433 , China.

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http://dx.doi.org/10.1021/acs.analchem.9b02766DOI Listing
January 2020

Aperture-controllable nano-electrospray emitter and its application in cardiac proteome analysis.

Talanta 2020 Jan 9;207:120340. Epub 2019 Sep 9.

Department of Chemistry and Zhongshan Hospital, Fudan University, Shanghai, 200433, China; Institutes of Biomedical Sciences, Fudan University, Shanghai, 200032, China.

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http://dx.doi.org/10.1016/j.talanta.2019.120340DOI Listing
January 2020

Targeting Histone Deacetylase 6 Reprograms Interleukin-17-Producing Helper T Cell Pathogenicity and Facilitates Immunotherapies for Hepatocellular Carcinoma.

Hepatology 2020 Jun 14;71(6):1967-1987. Epub 2020 Feb 14.

Key Laboratory of Infection and Immunity of CAS, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Beijing, China.

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http://dx.doi.org/10.1002/hep.30960DOI Listing
June 2020

Mettl17, a regulator of mitochondrial ribosomal RNA modifications, is required for the translation of mitochondrial coding genes.

FASEB J 2019 11 5;33(11):13040-13050. Epub 2019 Sep 5.

Key Laboratory of Epigenetics and Metabolism, Ministry of Science and Technology, Institutes of Biomedical Sciences, and Key Laboratory of Carcinogenesis and Cancer Invasion, Ministry of Education, Liver Cancer Institute, Zhongshan Hospital, Fudan University, Shanghai, China.

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http://dx.doi.org/10.1096/fj.201901331RDOI Listing
November 2019

Quantitative analysis of post-translational modifications of histone H3 variants during the cell cycle.

Anal Chim Acta 2019 Nov 12;1080:116-126. Epub 2019 Jun 12.

Affiliated Stomatological Hospital & Institutes of Biomedical Sciences, Fudan University, Shanghai, 200433, China. Electronic address:

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http://dx.doi.org/10.1016/j.aca.2019.06.028DOI Listing
November 2019

ER-residential Nogo-B accelerates NAFLD-associated HCC mediated by metabolic reprogramming of oxLDL lipophagy.

Nat Commun 2019 07 29;10(1):3391. Epub 2019 Jul 29.

Key Laboratory of Infection and Immunity of CAS, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, 100101, Beijing, China.

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http://dx.doi.org/10.1038/s41467-019-11274-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6662851PMC
July 2019

A multi-parallel N-glycopeptide enrichment strategy for high-throughput and in-depth mapping of the N-glycoproteome in metastatic human hepatocellular carcinoma cell lines.

Talanta 2019 Jul 8;199:254-261. Epub 2019 Feb 8.

The Fifth People's Hospital of Shanghai and Institutes of Biomedical Sciences, Fudan University, Shanghai 200433, People's Republic of China; Department of Chemistry, Fudan University, Shanghai 200433, People's Republic of China; NHC Key Laboratory of Glycoconjugates Research, Fudan University, Shanghai 200433, People's Republic of China. Electronic address:

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http://dx.doi.org/10.1016/j.talanta.2019.02.010DOI Listing
July 2019

Time-Gated Ratiometric Detection with the Same Working Wavelength To Minimize the Interferences from Photon Attenuation for Accurate Detection.

ACS Cent Sci 2019 Feb 14;5(2):299-307. Epub 2019 Jan 14.

Institutes of Biomedical Sciences & Department of Chemistry & State Key Laboratory of Molecular Engineering of Polymers, Fudan University, 220 Handan Road, Shanghai 200433, P. R. China.

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http://dx.doi.org/10.1021/acscentsci.8b00763DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6396381PMC
February 2019

RPS3A positively regulates the mitochondrial function of human periaortic adipose tissue and is associated with coronary artery diseases.

Cell Discov 2018 21;4:52. Epub 2018 Aug 21.

1Key Laboratory of Metabolism and Molecular Medicine of Chinese Ministry of Education, Department of Biochemistry and Molecular Biology of School of Basic Medical Sciences and Department of Endocrinology of Zhongshan Hospital, Fudan University, 200032 Shanghai, China.

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http://dx.doi.org/10.1038/s41421-018-0041-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6102269PMC
August 2018

Lipid metabolism in inflammation-related diseases.

Analyst 2018 Sep;143(19):4526-4536

Key Laboratory of Medical Epigenetics and Metabolism, Institutes of Biomedical Sciences, Fudan University, Shanghai, 200032, China.

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http://dx.doi.org/10.1039/c8an01046cDOI Listing
September 2018

Three-Dimensional Plasmonic Trap Array for Ultrasensitive Surface-Enhanced Raman Scattering Analysis of Single Cells.

Anal Chem 2018 09 14;90(17):10394-10399. Epub 2018 Aug 14.

Department of Chemistry, Shanghai Stomatological Hospital, Institute of Biomedical Sciences, and State Key Lab of Molecular Engineering of Polymers , Fudan University , Shanghai , 200433 , People's Republic of China.

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http://dx.doi.org/10.1021/acs.analchem.8b02252DOI Listing
September 2018

In Situ Synthesis of Magnetic Mesoporous Phenolic Resin for the Selective Enrichment of Glycopeptides.

Anal Chem 2018 06 8;90(12):7357-7363. Epub 2018 Jun 8.

The Fifth People's Hospital of Shanghai and Institutes of Biomedical Sciences , Fudan University , Shanghai 200032 , People's Republic of China.

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http://dx.doi.org/10.1021/acs.analchem.8b00708DOI Listing
June 2018

Ultradeep Palmitoylomics Enabled by Dithiodipyridine-Functionalized Magnetic Nanoparticles.

Anal Chem 2018 05 23;90(10):6161-6168. Epub 2018 Apr 23.

Department of Chemistry and Institutes of Biomedical Sciences , Fudan University , Shanghai 200433 , China.

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http://dx.doi.org/10.1021/acs.analchem.8b00534DOI Listing
May 2018

Study on behaviors and performances of universal N-glycopeptide enrichment methods.

Analyst 2018 Apr;143(8):1870-1880

Department of Chemistry, Fudan University, Shanghai, 200433, P.R. China and Minhang Hospital and Institutes of Biomedical Sciences, Fudan University, Shanghai, 201199, P.R. China.

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http://dx.doi.org/10.1039/C7AN02062GDOI Listing
April 2018

Zc3h13 Regulates Nuclear RNA mA Methylation and Mouse Embryonic Stem Cell Self-Renewal.

Mol Cell 2018 03;69(6):1028-1038.e6

Institute of Clinical Science, Zhongshan Hospital, and Institutes of Biomedical Sciences, Fudan University, Shanghai 200032, P.R. China; Key Laboratory of Metabolism and Molecular Medicine, Ministry of Education, School of Basic Medical Sciences, Fudan University, Shanghai 200032, China; Key Laboratory of Epigenetics, Department of Cellular and Genetic Medicine, School of Basic Medical Sciences, Fudan University, Shanghai 200032, China; The Fifth People's Hospital of Shanghai, Fudan University, Shanghai 200240, China. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2018.02.015DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5858226PMC
March 2018

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

Cell Chem Biol 2018 05 1;25(5):619-633.e5. Epub 2018 Mar 1.

Department of Biochemistry & Biophysics, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA; Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA; Department of Chemistry & Institute of Biomedical Sciences, Fudan University, Shanghai 200032, China. Electronic address:

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http://dx.doi.org/10.1016/j.chembiol.2018.01.016DOI Listing
May 2018

Multi-laboratory analysis of the variability of shipped samples for proteomics following non-cooled international transport.

Anal Biochem 2018 05 25;548:60-65. Epub 2018 Feb 25.

Mass Spectrometric Proteomics Group, Department of Clinical Chemistry and Central Laboratories, University Medical Center Hamburg-Eppendorf (UKE), Martinistrasse 52, Building N27, Room 00.008, Hamburg, 20246, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.ab.2018.02.026DOI Listing
May 2018

A new panel of pancreatic cancer biomarkers discovered using a mass spectrometry-based pipeline.

Br J Cancer 2018 03 13;118(6):e15. Epub 2018 Feb 13.

The Fifth People's Hospital of Shanghai, Fudan University, Shanghai 200240, China.

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http://dx.doi.org/10.1038/bjc.2018.5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5908675PMC
March 2018

The Sodium-Glucose Cotransporter 2 Inhibitor Dapagliflozin Prevents Renal and Liver Disease in Western Diet Induced Obesity Mice.

Int J Mol Sci 2018 Jan 3;19(1). Epub 2018 Jan 3.

Department of Renal & Hypertension, Department of Pediatrics and Department of Pathology, University of Colorado Denver, Anschutz Medical Campus, 12800 19th Ave., Aurora, CO 80045, USA.

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http://dx.doi.org/10.3390/ijms19010137DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5796086PMC
January 2018

A new panel of pancreatic cancer biomarkers discovered using a mass spectrometry-based pipeline.

Br J Cancer 2017 Dec 9;117(12):1846-1854. Epub 2017 Nov 9.

The Fifth People's Hospital of Shanghai, Fudan University, Shanghai 200240, China.

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http://dx.doi.org/10.1038/bjc.2017.365DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5729477PMC
December 2017

Bacterial Whole Cell Typing by Mass Spectra Pattern Matching with Bootstrapping Assessment.

Anal Chem 2017 11 10;89(22):12556-12561. Epub 2017 Nov 10.

Department of Chemistry, Shanghai Stomatological Hospital, Fudan University , Shanghai 200000, China.

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http://dx.doi.org/10.1021/acs.analchem.7b03820DOI Listing
November 2017

Engineering human ventricular heart muscles based on a highly efficient system for purification of human pluripotent stem cell-derived ventricular cardiomyocytes.

Stem Cell Res Ther 2017 09 29;8(1):202. Epub 2017 Sep 29.

Department of Physiology and Pathophysiology, School of Basic Medical Sciences, State Key Laboratory of Medical Neurobiology, Fudan University, Shanghai, 200032, China.

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http://dx.doi.org/10.1186/s13287-017-0651-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5622416PMC
September 2017

Facile preparation of 3-D floor-like ordered mesoporous carbon functionalized graphene composites and its application for selective enrichment of N-glycans from human serum.

Talanta 2017 Nov 15;174:689-695. Epub 2017 Jun 15.

Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai 200433, China. Electronic address:

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http://dx.doi.org/10.1016/j.talanta.2017.06.008DOI Listing
November 2017

SIRT5 Desuccinylates and Activates Pyruvate Kinase M2 to Block Macrophage IL-1β Production and to Prevent DSS-Induced Colitis in Mice.

Cell Rep 2017 06;19(11):2331-2344

Department of Systems Biology for Medicine, School of Basic Medical Sciences, Fudan University, Shanghai 200032, China; Institutes of Biomedical Sciences, Fudan University, Shanghai 200032, China. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2017.05.065DOI Listing
June 2017

Energy Transfer Highway in Nd-Sensitized Nanoparticles for Efficient near-Infrared Bioimaging.

ACS Appl Mater Interfaces 2017 Jun 24;9(22):18540-18548. Epub 2017 May 24.

Department of Chemistry & Institute of Biomedicine Sciences & State Key Laboratory of Molecular Engineering of Polymers & Collaborative Innovation Center of Chemistry for Energy Materials, Fudan University , 220 Handan Road, Shanghai, P.R. China.

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http://dx.doi.org/10.1021/acsami.7b04305DOI Listing
June 2017

In-depth proteomic profiling of left ventricular tissues in human end-stage dilated cardiomyopathy.

Oncotarget 2017 Jul;8(29):48321-48332

Institutes of Biomedical Sciences of Shanghai Medical School and Minhang Hospital, Fudan University, Shanghai, China.

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http://dx.doi.org/10.18632/oncotarget.15689DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5564650PMC
July 2017

Quantitative profiling of glycerophospholipids during mouse and human macrophage differentiation using targeted mass spectrometry.

Sci Rep 2017 03 24;7(1):412. Epub 2017 Mar 24.

Department of Systems Biology for Medicine and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University, Shanghai, 200032, China.

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http://dx.doi.org/10.1038/s41598-017-00341-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5428309PMC
March 2017

Locus-specific Retention Predictor (LsRP): A Peptide Retention Time Predictor Developed for Precision Proteomics.

Sci Rep 2017 03 17;7:43959. Epub 2017 Mar 17.

Institutes of Biomedical Sciences and Department of Systems Biology for Medicine, School of Basic Medical, Fudan University, Shanghai, 200032, P. R. China.

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http://dx.doi.org/10.1038/srep43959DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5356008PMC
March 2017

Deficiency Accumulates l-2-Hydroxyglutarate with Progressive Leukoencephalopathy and Neurodegeneration.

Mol Cell Biol 2017 04 31;37(8). Epub 2017 Mar 31.

Molecular and Cell Biology Laboratory, Institute of Biomedical Sciences, Shanghai Medical College, Key Laboratory of Metabolism and Molecular Medicine, Ministry of Education, and Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, State Key Laboratory of Genetic Engineering and National Center for International Research of Development and Disease, Institute of Developmental Biology and Molecular Medicine, Collaborative Innovation Center of Genetics and Development, School of Life Sciences, Fudan University, Shanghai, China.

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http://dx.doi.org/10.1128/MCB.00492-16DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5376639PMC
April 2017

3D-SISPROT: A simple and integrated spintip-based protein digestion and three-dimensional peptide fractionation technology for deep proteome profiling.

J Chromatogr A 2017 May 13;1498:207-214. Epub 2017 Jan 13.

Department of Chemistry, Southern University of Science and Technology, Shenzhen 518055, China; Shenzhen Key Laboratory of Cell Microenvironment, Southern University of Science and Technology, Shenzhen 518055, China. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S00219673173008
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http://dx.doi.org/10.1016/j.chroma.2017.01.033DOI Listing
May 2017

Functional lipidomics: Palmitic acid impairs hepatocellular carcinoma development by modulating membrane fluidity and glucose metabolism.

Hepatology 2017 08 16;66(2):432-448. Epub 2017 Jun 16.

Department of Systems Biology for Medicine, School of Basic Medical Sciences, Fudan University, Shanghai, China.

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http://dx.doi.org/10.1002/hep.29033DOI Listing
August 2017

Sensitive and Precise Characterization of Combinatorial Histone Modifications by Selective Derivatization Coupled with RPLC-EThcD-MS/MS.

J Proteome Res 2017 02 11;16(2):780-787. Epub 2017 Jan 11.

Novartis Institutes for BioMedical Research (China) Co., Ltd. , 4218 Jinke Road, Shanghai 201203, China.

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http://dx.doi.org/10.1021/acs.jproteome.6b00788DOI Listing
February 2017

Microfluidic Air Sampler for Highly Efficient Bacterial Aerosol Collection and Identification.

Anal Chem 2016 12 16;88(23):11504-11512. Epub 2016 Nov 16.

Department of Chemistry, Fudan University , Shanghai 200433, P. R. China.

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http://dx.doi.org/10.1021/acs.analchem.6b02708DOI Listing
December 2016

Distinct Receptor Tyrosine Kinase Subsets Mediate Anti-HER2 Drug Resistance in Breast Cancer.

J Biol Chem 2017 Jan 30;292(2):748-759. Epub 2016 Nov 30.

From the Department of Pharmacology and Cancer Biology, Duke University Medical Center, Durham, North Carolina 27710 and

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http://dx.doi.org/10.1074/jbc.M116.754960DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5241747PMC
January 2017

In-tip nanoreactors for cancer cells proteome profiling.

Anal Chim Acta 2017 Jan 11;949:43-52. Epub 2016 Nov 11.

Department of Chemistry, Institute of Biomedical Sciences, State Key Lab of Molecular Engineering of Polymers, Fudan University, Shanghai, 200433, China. Electronic address:

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http://dx.doi.org/10.1016/j.aca.2016.11.021DOI Listing
January 2017

Highlights of the Biology and Disease-driven Human Proteome Project, 2015-2016.

J Proteome Res 2016 11 20;15(11):3979-3987. Epub 2016 Sep 20.

Center for Computational Medicine and Bioinformatics, University of Michigan , Ann Arbor, Michigan 48109, United States.

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http://dx.doi.org/10.1021/acs.jproteome.6b00444DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5129618PMC
November 2016

Nono, a Bivalent Domain Factor, Regulates Erk Signaling and Mouse Embryonic Stem Cell Pluripotency.

Cell Rep 2016 10;17(4):997-1007

Key Laboratory of Birth Defects, Children's Hospital and Key Laboratory of Epigenetics, Institutes of Biomedical Sciences, Fudan University, Shanghai 201102, China; Key Laboratory of Metabolism and Molecular Medicine, Ministry of Education, Department of Cellular and Genetic Medicine, School of Basic Medical Sciences, Fudan University, Shanghai 200032, China; Newborn Medicine Division, Boston Children's Hospital, Boston, MA 02115, USA; Department of Cell Biology, Harvard Medical School, Boston, MA 02115, USA. Electronic address:

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5086807PMC
http://dx.doi.org/10.1016/j.celrep.2016.09.078DOI Listing
October 2016

Development of Versatile Metal-Organic Framework Functionalized Magnetic Graphene Core-Shell Biocomposite for Highly Specific Recognition of Glycopeptides.

ACS Appl Mater Interfaces 2016 Oct 6;8(41):27482-27489. Epub 2016 Oct 6.

Department of Chemistry and Institutes of Biomedical Sciences, Fudan University , Shanghai 200433, China.

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http://dx.doi.org/10.1021/acsami.6b08218DOI Listing
October 2016

Targeting Negative Surface Charges of Cancer Cells by Multifunctional Nanoprobes.

Theranostics 2016 7;6(11):1887-98. Epub 2016 Aug 7.

The Institute for Translational Nanomedicine, Shanghai East Hospital, The Institute for Biomedical Engineering & Nano Science, Tongji University School of Medicine, Shanghai, 200120, China;; Department of Pathology, Wake Forest University School of Medicine, Winston-Salem, North Carolina, USA.

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http://dx.doi.org/10.7150/thno.16358DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4997244PMC
October 2017

Epigenetic Activation of Wnt/β-Catenin Signaling in NAFLD-Associated Hepatocarcinogenesis.

Cancers (Basel) 2016 Aug 20;8(8). Epub 2016 Aug 20.

School of Biomedical Sciences, The Chinese University of Hong Kong, Hong Kong, China.

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http://dx.doi.org/10.3390/cancers8080076DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4999785PMC
August 2016

Sensitive and fast beverage/fruit antioxidant evaluation by TiO2 -Au/graphene nanocomposites coupled with MALDI-MS.

Rapid Commun Mass Spectrom 2016 08;30 Suppl 1:128-32

Department of Chemistry, Institutes of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers, Fudan University, Shanghai, 200433, China.

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http://dx.doi.org/10.1002/rcm.7617DOI Listing
August 2016

Self-aspiration sampling extractive electrospray ionization mass spectrometry (EESI-MS) for high-throughput analysis of liquid samples.

Rapid Commun Mass Spectrom 2016 08;30 Suppl 1:56-61

Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai, 200433, China.

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http://dx.doi.org/10.1002/rcm.7616DOI Listing
August 2016

Mapping and analyzing the human liver proteome: progress and potential.

Expert Rev Proteomics 2016 09 2;13(9):833-43. Epub 2016 Aug 2.

a Department of Systems Biology for Medicine, School of Basic Medical Sciences , Fudan University , Shanghai , China.

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http://dx.doi.org/10.1080/14789450.2016.1213132DOI Listing
September 2016

Highly Selective Enrichment of Glycopeptides Based on Zwitterionically Functionalized Soluble Nanopolymers.

Sci Rep 2016 07 14;6:29776. Epub 2016 Jul 14.

Department of Chemistry, Fudan University, Shanghai 200433, P. R. China.

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http://www.nature.com/articles/srep29776
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4944192PMC
July 2016

Target induced interfacial self-assembly of nanoparticles: A new platform for reproducible quantification of copper ions.

Talanta 2016 Sep 19;158:254-261. Epub 2016 May 19.

Department of Chemistry, State Key Lab of Molecular Engineering of Polymers and Institutes of Biomedical Sciences, Fudan University, Shanghai 200433, China. Electronic address:

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http://dx.doi.org/10.1016/j.talanta.2016.05.054DOI Listing
September 2016

Versatile metal-organic framework-functionalized magnetic graphene nanoporous composites: As deft matrix for high-effective extraction and purification of the N-linked glycans.

Anal Chim Acta 2016 Aug 24;932:41-8. Epub 2016 May 24.

Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai 200433, China.

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http://dx.doi.org/10.1016/j.aca.2016.05.023DOI Listing
August 2016

Sensitive and fast identification of bacteria in blood samples by immunoaffinity mass spectrometry for quick BSI diagnosis.

Chem Sci 2016 May 26;7(5):2987-2995. Epub 2016 Jan 26.

Laboratoire d'Electrochimie Physique et Analytique , École Polytechnique Fedérale de Lausanne , Rue de l'industrie 17 , CH-1951 Sion , Switzerland . Email:

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http://dx.doi.org/10.1039/c5sc04919aDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6004777PMC
May 2016

SIRT5 promotes IDH2 desuccinylation and G6PD deglutarylation to enhance cellular antioxidant defense.

EMBO Rep 2016 06 9;17(6):811-22. Epub 2016 Apr 9.

Key Laboratory of Metabolism and Molecular Medicine, Ministry of Education, Fudan University, Shanghai, China Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Fudan University, Shanghai, China State Key Laboratory of Genetic Engineering, Collaborative Innovation Center of Genetics and Development, School of Life Sciences, Fudan University, Shanghai, China Molecular and Cell Biology Lab, Institute of Biomedical Sciences, Shanghai Medical College, Fudan University, Shanghai, China Department of General Surgery, Huashan Hospital, Fudan University, Shanghai, China

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http://dx.doi.org/10.15252/embr.201541643DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5278614PMC
June 2016

Simple and Integrated Spintip-Based Technology Applied for Deep Proteome Profiling.

Anal Chem 2016 05 20;88(9):4864-71. Epub 2016 Apr 20.

Department of Chemistry, Fudan University , Shanghai 200433, China.

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http://dx.doi.org/10.1021/acs.analchem.6b00631DOI Listing
May 2016

Suppression of Enhancer Overactivation by a RACK7-Histone Demethylase Complex.

Cell 2016 Apr;165(2):331-42

Key Laboratory of Metabolism and Molecular Medicine, Ministry of Education, and Key Laboratory of Epigenetics, Department of Cellular and Genetic Medicine, School of Basic Medical Sciences and Institutes of Biomedical Sciences, Fudan University, Shanghai 200032, China; Key Laboratory of Birth Defect, Children's Hospital of Fudan University, Shanghai 201102, China; Key Laboratory of Breast Cancer in Shanghai, Department of Breast Surgery, Shanghai Cancer Center, Fudan University, Shanghai 200032, China. Electronic address:

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http://www.cell.com/cell/pdf/S0092-8674(16)30214-8.pdf
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http://linkinghub.elsevier.com/retrieve/pii/S009286741630214
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http://dx.doi.org/10.1016/j.cell.2016.02.064DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4826479PMC
April 2016

Ambient ionization based on mesoporous graphene coated paper for therapeutic drug monitoring.

J Chromatogr B Analyt Technol Biomed Life Sci 2016 Mar 28;1015-1016:142-149. Epub 2016 Jan 28.

Department of Chemistry, Fudan University, 220 Handan Road, Shanghai 200433, China; Institutes of Biomedical Sciences, Fudan University, 220 Handan Road, Shanghai 200433, China. Electronic address:

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http://dx.doi.org/10.1016/j.jchromb.2016.01.040DOI Listing
March 2016

Polydopamine Grafted Porous Graphene as Biocompatible Nanoreactor for Efficient Identification of Membrane Proteins.

ACS Appl Mater Interfaces 2016 Mar 3;8(10):6363-70. Epub 2016 Mar 3.

Department of Chemistry, Institute of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers, Fudan University , Shanghai 200433, China.

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http://dx.doi.org/10.1021/acsami.6b00407DOI Listing
March 2016

Identification of Palmitoylated Transitional Endoplasmic Reticulum ATPase by Proteomic Technique and Pan Antipalmitoylation Antibody.

J Proteome Res 2016 Mar 17;15(3):956-62. Epub 2016 Feb 17.

Department of Chemistry and Institutes of Biomedical Sciences, Fudan University , Shanghai 200433, China.

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http://dx.doi.org/10.1021/acs.jproteome.5b00979DOI Listing
March 2016

Facile synthesis of hydrophilic polyamidoxime polymers as a novel solid-phase extraction matrix for sequential characterization of glyco- and phosphoproteomes.

Anal Chim Acta 2016 Feb 18;907:69-76. Epub 2015 Dec 18.

Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai 200433, China.

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http://dx.doi.org/10.1016/j.aca.2015.12.015DOI Listing
February 2016

Quantitative Profiling of Combinational K27/K36 Modifications on Histone H3 Variants in Mouse Organs.

J Proteome Res 2016 Mar 5;15(3):1070-9. Epub 2016 Feb 5.

China Novartis Institutes for BioMedical Research Co. Ltd. , Building 8, Lane 898 Halei Road, Shanghai 201203, China.

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http://dx.doi.org/10.1021/acs.jproteome.5b01164DOI Listing
March 2016

An MRM-based workflow for absolute quantitation of lysine-acetylated metabolic enzymes in mouse liver.

Analyst 2015 Dec 2;140(23):7868-75. Epub 2015 Nov 2.

Minhang Hospital and Institutes of Biomedical Sciences, Fudan University, 201199, Shanghai, China.

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http://dx.doi.org/10.1039/c5an01832cDOI Listing
December 2015

Structural insight into substrate preference for TET-mediated oxidation.

Nature 2015 Nov 28;527(7576):118-22. Epub 2015 Oct 28.

Fudan University Shanghai Cancer Center, Institute of Biomedical Sciences, Shanghai Medical College of Fudan University, Shanghai 200032, China.

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http://dx.doi.org/10.1038/nature15713DOI Listing
November 2015

TGF-β-Regulated MicroRNAs and Their Function in Cancer Biology.

Methods Mol Biol 2016 ;1344:325-39

Department of Pharmacology and Cancer Biology, Duke University Medical Center, 3813, Research Drive, Durham, NC, 27710, USA.

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http://link.springer.com/10.1007/978-1-4939-2966-5_21
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May 2016

Facile synthesis of novel magnetic silica nanoparticles functionalized with layer-by-layer detonation nanodiamonds for secretome study.

Analyst 2015 Dec 15;140(23):7886-95. Epub 2015 Oct 15.

Department of Chemistry & Institutes of Biomedical Sciences, Fudan University, Shanghai, 200032, China.

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http://dx.doi.org/10.1039/c5an01432hDOI Listing
December 2015

Controlling nonspecific trypsin cleavages in LC-MS/MS-based shotgun proteomics using optimized experimental conditions.

Analyst 2015 Nov;140(22):7613-21

Minhang Hospital and Institutes of Biomedical Sciences, Fudan University, Shanghai, 201199, P. R. China. and Department of Chemistry, Fudan University, Shanghai, 200433, P. R. China.

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http://dx.doi.org/10.1039/c5an01505gDOI Listing
November 2015

Positive enrichment of C-terminal peptides using oxazolone chemistry and biotinylation.

Anal Chem 2015 Oct;87(19):9916-22

Shanghai Cancer Center and Institutes of Biomedical Sciences, Fudan University , Shanghai 200032, People's Republic of China.

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http://dx.doi.org/10.1021/acs.analchem.5b02437DOI Listing
October 2015

In-gel NHS-propionate derivatization for histone post-translational modifications analysis in Arabidopsis thaliana.

Anal Chim Acta 2015 Jul 13;886:107-13. Epub 2015 Jul 13.

Department of Chemistry & Institutes of Biomedical Sciences, Fudan University, Shanghai 200433, China. Electronic address:

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http://dx.doi.org/10.1016/j.aca.2015.06.019DOI Listing
July 2015

Multifunctional nanoreactor for comprehensive characterization of membrane proteins based on surface functionalized mesoporous foams.

Anal Chem 2015 Sep 1;87(18):9360-7. Epub 2015 Sep 1.

Department of Chemistry, Institutes of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers, Fudan University , Shanghai 200433, China.

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http://dx.doi.org/10.1021/acs.analchem.5b02135DOI Listing
September 2015

Tissue-Based Proteogenomics Reveals that Human Testis Endows Plentiful Missing Proteins.

J Proteome Res 2015 Sep;14(9):3583-94

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences , Beijing 100101, China.

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http://dx.doi.org/10.1021/acs.jproteome.5b00435DOI Listing
September 2015

Fishing the PTM proteome with chemical approaches using functional solid phases.

Chem Soc Rev 2015 Nov 10;44(22):8260-87. Epub 2015 Aug 10.

Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai 200032, P. R. China.

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http://dx.doi.org/10.1039/c4cs00529eDOI Listing
November 2015

Glycan reducing end dual isotopic labeling (GREDIL) for mass spectrometry-based quantitative N-glycomics.

Chem Commun (Camb) 2015 Sep;51(71):13603-6

Institutes of Biomedical Sciences, Fudan University, Shanghai 200032, P. R. China.

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http://dx.doi.org/10.1039/c5cc05365jDOI Listing
September 2015

Finding Missing Proteins from the Epigenetically Manipulated Human Cell with Stringent Quality Criteria.

J Proteome Res 2015 Sep 6;14(9):3645-57. Epub 2015 Aug 6.

Key Laboratory of Functional Protein Research of Guangdong Higher Education Institutes, Institute of Life and Health Engineering, College of Life Science and Technology, Jinan University , Guangzhou 510632, China.

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http://dx.doi.org/10.1021/acs.jproteome.5b00480DOI Listing
September 2015

Large scale systematic proteomic quantification from non-metastatic to metastatic colorectal cancer.

Sci Rep 2015 Jul 15;5:12120. Epub 2015 Jul 15.

1] Department of Systems Biology for Medicine, Fudan University Shanghai Medical College, Shanaghai 200032, China [2] Department of Chemistry and Institutes of Biomedical Sciences of Shanghai medical School, Fudan University, Shanghai 200032, China.

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http://dx.doi.org/10.1038/srep12120DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4648419PMC
July 2015

Multilayer Hydrophilic Poly(phenol-formaldehyde resin)-Coated Magnetic Graphene for Boronic Acid Immobilization as a Novel Matrix for Glycoproteome Analysis.

ACS Appl Mater Interfaces 2015 Jul 20;7(29):16011-7. Epub 2015 Jul 20.

Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai 200433, China.

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https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6044954/
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http://pubs.acs.org/doi/10.1021/acsami.5b04295
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July 2015

Special Enrichment Strategies Greatly Increase the Efficiency of Missing Proteins Identification from Regular Proteome Samples.

J Proteome Res 2015 Sep 15;14(9):3680-92. Epub 2015 Jul 15.

State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Engineering Research Center for Protein Drugs, National Center for Protein Sciences, Beijing Institute of Radiation Medicine , Beijing 102206, China.

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http://dx.doi.org/10.1021/acs.jproteome.5b00481DOI Listing
September 2015

Designed synthesis of aptamer-immobilized magnetic mesoporous silica/Au nanocomposites for highly selective enrichment and detection of insulin.

ACS Appl Mater Interfaces 2015 Apr 17;7(16):8451-6. Epub 2015 Apr 17.

Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, 220 Handan Road, Shanghai 200433, China.

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http://dx.doi.org/10.1021/acsami.5b00515DOI Listing
April 2015

Crosstalk of homocysteinylation, methylation and acetylation on histone H3.

Analyst 2015 May 25;140(9):3057-63. Epub 2015 Mar 25.

Minhang Hospital and Institutes of Biomedical Sciences, Fudan University Shanghai Medical College, 131 Dongan Road, Shanghai 200032, China.

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http://dx.doi.org/10.1039/c4an02355bDOI Listing
May 2015

The hepatitis B virus-associated tumor microenvironment in hepatocellular carcinoma.

Natl Sci Rev 2014 Jul;1(3):396-412

Department of Pharmacology and Cancer Biology, Duke University Medical Center, Durham, NC 27710, USA.

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https://academic.oup.com/nsr/article-lookup/doi/10.1093/nsr/
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http://dx.doi.org/10.1093/nsr/nwu038DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4346158PMC
July 2014

Identification of HPV integration and gene mutation in HeLa cell line by integrated analysis of RNA-Seq and MS/MS data.

J Proteome Res 2015 Apr 10;14(4):1678-86. Epub 2015 Mar 10.

†Shanghai Center for Bioinformation Technology, Shanghai Academy of Science and Technology, 1278 Ke Yuan Road, Shanghai 201203, China.

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http://dx.doi.org/10.1021/pr500944cDOI Listing
April 2015

Transcriptome and proteome of human hepatocellular carcinoma reveal shared metastatic pathways with significant genes.

Proteomics 2015 Jun 18;15(11):1793-800. Epub 2015 Mar 18.

Department of Systems Biology for Medicine and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University, Shanghai, P. R. China.

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http://dx.doi.org/10.1002/pmic.201400275DOI Listing
June 2015

Systematic comparison between SDS-PAGE/RPLC and high-/low-pH RPLC coupled tandem mass spectrometry strategies in a whole proteome analysis.

Analyst 2015 Feb;140(4):1314-22

Department of Chemistry and Institutes of Biomedical Science Shanghai Medical School, Fudan University, Shanghai 200032, China.

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http://dx.doi.org/10.1039/c4an02119cDOI Listing
February 2015