A proximity proteomics pipeline with improved reproducibility and throughput

Authors: Xiaofang Zhong, Qiongyu Li, Benjamin J Polacco, Trupti Patil, Aaron Marley, Helene Foussard, Prachi Khare, Rasika Vartak, Jiewei Xu, Jeffrey F DiBerto, Bryan L Roth, Manon Eckhardt, Mark von Zastrow, Nevan J Krogan, Ruth Hüttenhain

Source: Molecular Systems Biology, Vol 20, Iss 8, Pp 952-971 (2024)

Subject Terms: Proximity Proteomics, APEX2-based Proximity Labeling, Protein–Protein Interaction, Subcellular Proteomics, G Protein-Coupled Receptor, Biology (General), QH301-705.5, Medicine (General), R5-920

File Description: electronic resource

Relation: https://doaj.org/toc/1744-4292

Access URL: https://doaj.org/article/b1fa4dc8556644079c79cd440ac3a387

Signaling Modulation Mediated by Ligand Water Interactions with the Sodium Site at μOR

Authors: Rohini S. Ople, Nokomis Ramos-Gonzalez, Qiongyu Li, Briana L. Sobecks, Deniz Aydin, Alexander S. Powers, Abdelfattah Faouzi, Benjamin J. Polacco, Sarah M. Bernhard, Kevin Appourchaux, Sashrik Sribhashyam, Shainnel O. Eans, Bowen A. Tsai, Ron O. Dror, Balazs R. Varga, Haoqing Wang, Ruth Hüttenhain, Jay P. McLaughlin, Susruta Majumdar

Source: ACS Central Science, Vol 10, Iss 8, Pp 1490-1503 (2024)

Subject Terms: Chemistry, QD1-999

File Description: electronic resource

Relation: https://doaj.org/toc/2374-7951

Access URL: https://doaj.org/article/85002e8675b5414c9f0b93723260a5ff

The colonic interleukin-19 aggravates the dextran sodium sulfate/stress-induced comorbidities due to colitis and anxiety

Authors: Qiongyu Li, Fantao Meng, Xiangxian Ma, Zhe Sun, Juanjuan Dai, Jing Liu, Dan Li, Peijia Cong, Ruixue Xu, Di Zhao, Wentao Wang, Dan Wang, Cuilan Liu, Faxiang Wang, Chen Li, Haifeng Lian

Source: Frontiers in Immunology, Vol 14 (2023)

Subject Terms: inflammatory bowel disease, anxiety, colitis, interleukin-19, hippocampus, brain-derived neurotrophic factor, Immunologic diseases. Allergy, RC581-607

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fimmu.2023.1153344/full; https://doaj.org/toc/1664-3224

Access URL: https://doaj.org/article/5a6030187c3945e790df9ac8a1fd296e

Spatial Transcriptomics for Tumor Heterogeneity Analysis

Authors: Qiongyu Li, Xinya Zhang, Rongqin Ke

Source: Frontiers in Genetics, Vol 13 (2022)

Subject Terms: tumor heterogeneity, spatial transcriptomics, tumor microenvironment, gene expression profiling, single-cell sequencing, Genetics, QH426-470

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fgene.2022.906158/full; https://doaj.org/toc/1664-8021

Access URL: https://doaj.org/article/804443e421424af4a2b48ccf730a2d6d

A Wrinkling and Etching-Assisted Regrowth Strategy for Large-Area Bilayer Graphene Preparation on Cu

Authors: Qiongyu Li, Tongzhi Liu, You Li, Fang Li, Yanshuai Zhao, Shihao Huang

Source: Nanomaterials, Vol 13, Iss 14, p 2059 (2023)

Subject Terms: graphene, growth mechanism, large area, wrinkle, Chemistry, QD1-999

File Description: electronic resource

Relation: https://www.mdpi.com/2079-4991/13/14/2059; https://doaj.org/toc/2079-4991

Access URL: https://doaj.org/article/13e6a354ff3e49bfada9d7f145b80d9a

New insights into the mechanism of hepatocyte apoptosis induced by typical organophosphate ester: An integrated in vitro and in silico approach

Authors: Xiaoqing Wang, Fei Li, Jialin Liu, Qiongyu Li, Chenglong Ji, Huifeng Wu

Source: Ecotoxicology and Environmental Safety, Vol 219, Iss , Pp 112342- (2021)

Subject Terms: Poly (ADP-ribose) polymerase-1 (PARP1), Toxicity pathways, Molecular docking, Triphenyl phosphate (TPP), Environmental pollution, TD172-193.5, Environmental sciences, GE1-350

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S014765132100453X; https://doaj.org/toc/0147-6513

Access URL: https://doaj.org/article/cb7b8fb74b964336b35908f70eabb5e7

Effects of N-Glycosylation on the Structure, Function, and Stability of a Plant-Made Fc-Fusion Anthrax Decoy Protein

Authors: Yongao Xiong, Kalimuthu Karuppanan, Austen Bernardi, Qiongyu Li, Vally Kommineni, Abhaya M. Dandekar, Carlito B. Lebrilla, Roland Faller, Karen A. McDonald, Somen Nandi

Source: Frontiers in Plant Science, Vol 10 (2019)

Subject Terms: anthrax decoy protein, N-glycosylation, molecular simulation, protein stability, kinetics of protein binding, Plant culture, SB1-1110

File Description: electronic resource

Relation: https://www.frontiersin.org/article/10.3389/fpls.2019.00768/full; https://doaj.org/toc/1664-462X

Access URL: https://doaj.org/article/6f9e972e787f44efbe55db5e1b8cb0d1

Protein oxidation of fucose environments (POFE) reveals fucose--protein interactions.

Authors: Yixuan Xie, Siyu Chen, Alvarez, Michael Russelle, Ying Sheng, Qiongyu Li, Maverakis, Emanual, Lebrilla, Carlito B.

Source: Chemical Science; 4/14/2024, Vol. 15 Issue 14, p5256-5267, 12p

Hedyotis Diffusa Willd Increase Drugs Accumulation by Regulating Hedgehog Pathway in Drug Resistant Colorectal Cancer Cells

Authors: Yiyi JIN, Qiongyu LI, Zijun LAI, Zhaokun YAN, Jianyu FENG, Jiumao LIN

Source: 康复学报, Vol 26, Pp 34-39 (2016)

Subject Terms: colorectal cancer, Hedyotis Diffusa Willd, drug resistance, Hedgehog signaling pathway, 5-Fluorouracil, adriamycin, Medicine

File Description: electronic resource

Relation: http://kfxb.publish.founderss.cn/thesisDetails#10.3724/SP.J.1329.2016.03034; https://doaj.org/toc/2096-0328

Access URL: https://doaj.org/article/11dd4429f083449aa381c2a0864a1ad0

Characterization of Cell Glycocalyx with Mass Spectrometry Methods

Authors: Qiongyu Li, Yixuan Xie, Maurice Wong, Carlito B. Lebrilla

Source: Cells, Vol 8, Iss 8, p 882 (2019)

Subject Terms: glycocalyx, glycomics, glycoproteomics, LC-MS/MS, cell membrane proteins, glycosphingolipids, C13 labeling, Cytology, QH573-671

File Description: electronic resource

Relation: https://www.mdpi.com/2073-4409/8/8/882; https://doaj.org/toc/2073-4409

Access URL: https://doaj.org/article/8ca8ec88641448f18d45dd77f57ace40

Hydrogen Induced Etching Features of Wrinkled Graphene Domains

Authors: Qiongyu Li, Fang Li, You Li, Yongping Du, Tien-Mo Shih, Erjun Kan

Source: Nanomaterials, Vol 9, Iss 7, p 930 (2019)

Subject Terms: CVD synthesis, graphene, hydrogen etching, wrinkling, Chemistry, QD1-999

File Description: electronic resource

Relation: https://www.mdpi.com/2079-4991/9/7/930; https://doaj.org/toc/2079-4991

Access URL: https://doaj.org/article/55cf9169ee874fa7be13f1b7eb9a2e92

Synthesis of Amorphous Carbon Film in Ethanol Inverse Diffusion Flames

Authors: Jie Zhu, Fang Li, Guannan Liu, Dong Liu, Qiongyu Li, Erjun Kan

Source: Nanomaterials, Vol 8, Iss 9, p 656 (2018)

Subject Terms: flame synthesis, amorphous carbon film, inverse diffusion flame, Chemistry, QD1-999

File Description: electronic resource

Relation: http://www.mdpi.com/2079-4991/8/9/656; https://doaj.org/toc/2079-4991

Access URL: https://doaj.org/article/b3388154b4244b41a240d2d0b282a9dc

Chitin Oligosaccharide Modulates Gut Microbiota and Attenuates High-Fat-Diet-Induced Metabolic Syndrome in Mice

Authors: Junping Zheng, Gong Cheng, Qiongyu Li, Siming Jiao, Cui Feng, Xiaoming Zhao, Heng Yin, Yuguang Du, Hongtao Liu

Source: Marine Drugs, Vol 16, Iss 2, p 66 (2018)

Subject Terms: chitin oligosaccharide, gut microbiota, high-fat diet, insulin resistance, metabolic syndrome, Biology (General), QH301-705.5

File Description: electronic resource

Relation: http://www.mdpi.com/1660-3397/16/2/66; https://doaj.org/toc/1660-3397

Access URL: https://doaj.org/article/43843364a8534148b697d713154ead8f

Antrodia cinnamomea Oligosaccharides Suppress Lipopolysaccharide-Induced Inflammation through Promoting O-GlcNAcylation and Repressing p38/Akt Phosphorylation

Authors: Junping Zheng, Siming Jiao, Qiongyu Li, Peiyuan Jia, Heng Yin, Xiaoming Zhao, Yuguang Du, Hongtao Liu

Source: Molecules, Vol 23, Iss 1, p 51 (2017)

Subject Terms: Antrodia cinnamomea, Akt, inflammation, O-GlcNAcylation, oligosaccharides, Organic chemistry, QD241-441

File Description: electronic resource

Relation: https://www.mdpi.com/1420-3049/23/1/51; https://doaj.org/toc/1420-3049

Access URL: https://doaj.org/article/3580851fb8904c18892ff069b6abe2f9

Hedyotis diffusa Willd overcomes 5-fluorouracil resistance in human colorectal cancer HCT-8/5-FU cells by downregulating the expression of P-glycoprotein and ATP-binding casette subfamily G member 2.

Authors: QIONGYU LI¹, XIANGFENG WANG², ALING SHEN^1,3, YUCHEN ZHANG¹, YOUQIN CHEN⁴, SFERRA, THOMAS J.⁴, JIUMAO LIN^1,3 jiumaolin@hotmail.com, JUN PENG^1,3 pjunlab@hotmal.com

Source: Experimental & Therapeutic Medicine. Nov2015, Vol. 10 Issue 5, p1845-1850. 6p.

Subject Terms: *FLUOROURACIL, *HEDYOTIS, *FLUOROPYRIMIDINES, *ANTINEOPLASTIC agents, *CARCINOGENS, *CYTOPROTECTION

Scutellaria barbata D. Don inhibits growth and induces apoptosis by suppressing IL-6-inducible STAT3 pathway activation in human colorectal cancer cells.

Authors: QIQIN JIANG^1,2, QIONGYU LI¹, HONGWEI CHEN¹, ALING SHEN¹, QIAOYAN CAI^1,3, JIUMAO LIN^1,3 jiumaolin@hotmail.com, JUN PENG^1,3 pjunlab@hotmail.com

Source: Experimental & Therapeutic Medicine. Oct2015, Vol. 10 Issue 4, p1602-1609. 8p.

Subject Terms: *SCUTELLARIA, *APOPTOSIS, *COLON cancer, *INTERLEUKIN-6, *CHINESE medicine

Hedyotis diffusa Willd. extract suppresses proliferation and induces apoptosis via IL-6-inducible STAT3 pathway inactivation in human colorectal cancer cells.

Authors: JIUMAO LIN^1,2, QIONGYU LI¹, HONGWEI CHEN¹, HUI LIN¹, ZIJUN LAI¹, JUN PENG^1,2 pjunlab@hotmail.com

Source: Oncology Letters. 2015, Vol. 9 Issue 4, p1962-1970. 9p.

Subject Terms: *COLON cancer, *INTERLEUKIN-6 receptors, *NEOPLASTIC cell transformation, *TUMOR growth, *APOPTOSIS

Metastasis of cholangiocarcinoma is promoted byextended high-mannose glycans.

Authors: Park a, Diane Dayoung, b, Chatchai Phoomak, a, Gege Xu, Olney c, Laura P., Tran c, Khiem A., Park d, Simon S., Haigh c, Nathan E., c, Guillaume Luxardi, b, Worachart Lert-itthiporn, c, Michiko Shimoda, a, Qiongyu Li, e, Nobuyuki Matoba, f, Fernando Fierro, b, Sopit Wongkham, c, Emanual Maverakis, Lebrilla a, Carlito B.

Source: Proceedings of the National Academy of Sciences of the United States of America; 4/7/2020, Vol. 117 Issue 14, p7633-7644, 12p

Subject Terms: MEMBRANE proteins, BILIARY tract cancer, GLYCANS, MEMBRANE glycoproteins, TRANSFERRIN receptors

Transient Recombinant Protein Production in Glycoengineered Nicotiana benthamiana Cell Suspension Culture.

Authors: Sukenik, Sara C., Karuppanan, Kalimuthu, Qiongyu Li, Lebrilla, Carlito B., Nandi, Somen, McDonald, Karen A.

Source: International Journal of Molecular Sciences; Apr2018, Vol. 19 Issue 4, p1205, 14p, 2 Color Photographs, 1 Diagram, 1 Chart, 4 Graphs

Subject Terms: RECOMBINANT proteins, NICOTIANA benthamiana, PROTEOMICS, CELL suspensions, PROTEIN expression, GENE expression, PHYTOPATHOGENIC microorganisms

Recent Advances in the Mass Spectrometry Methods for Glycomics and Cancer.

Authors: Kailemia, Muchena J.¹, Gege Xu¹, Maurice Wong¹, Qiongyu Li¹, Elisha Goonatilleke¹, Leon, Frank¹, Lebrilla, Carlito B.^1,2,3, cblebrilla@ucdavis.edu

Source: Analytical Chemistry; 1/2/2018, Vol. 90 Issue 1, p208-224, 17p