Cardiac repair using regenerating neonatal heart tissue-derived extracellular vesicles by Hanjing Li, Yining Liu, Yuqing Lin, Sijia Li, Chenlu Liu, Ao Cai, Wei Li, Wanyu Zhang, Xinlu Gao, Zhongyu Ren, Haoyu Ji, Yang Yu, Xiuxiu Wang, Wenya Ma, Ning Wang, Dan Zhao, Tianlong Li, Yu Liu, Benzhi Cai

“…Here, we report that EVs from regenerating neonatal heart tissues, after apical resection surgery (AR-Neo-EVs), exhibit stronger pro-proliferative, anti-apoptotic, and pro-angiogenesis activities than EVs from neonatal mouse cardiac tissues (Neo-EVs), effects which are absent in adult mouse heart-derived EVs (Adu-EVs). Proteomic analysis reveals the expression of Wdr75 protein, a regulator of p53, is higher in AR-Neo-EVs than in Neo-EVs. …”
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Epitope mapping of recombinant Salmonella enterica serotype Heidelberg flagellar hook-associated protein by in silico and in vivo approaches by Hung-Yueh Yeh

“…The aim of the present study was to compare the epitope identification in the Salmonella enterica serotype Heidelberg FlgK protein by in silico prediction and in vivo experiment with mass spectrometry in association with immunoprecipitation proteomics. Results The Salmonella serotype Heidelberg FlgK protein contains 553 amino acids with a molecular mass of 61 kDa. …”
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<i>Helicobacter pylori</i> HP0135 Is a Small Lipoprotein That Has a Role in Outer Membrane Stability by Doreen Nguyen, Rachel G. Ivester, Kyle Rosinke, Timothy R. Hoover

“…The filament of the <i>H. pylori</i> flagellum is surrounded by a membranous sheath that is contiguous with the outer membrane. Proteomic analysis of isolated sheathed flagella from <i>H. pylori</i> B128 identified the lipoprotein HP0135 as a potential component of the flagellar sheath. …”
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Potential Pathways Involved in Elaidic Acid Induced Atherosclerosis in Human Umbilical Vein Endothelial Cells by Huahong Yu, Xiangmei Li, Zhongshang Liang, Bin Qiu, Siguang Li, Ting Luo, Jing Li, Hongyan Li, Zeyuan Deng

“…In the presented study, two-dimensional electrophoresis based proteomics was used to discover the role of elaidic acid in atherosclerosis. …”
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An updated reference genome of Barbatula barbatula (Linnaeus, 1758) by Levente Laczkó, Nikoletta Andrea Nagy, Ágnes Nagy, Ágnes Maroda, Péter Sály

“…We identified 23270 protein-coding genes, and the proteome exhibited high completeness with BUSCO (93.1%) and OMArk (90.81%). …”
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Analysis of Toll-Like Receptors in Human Milk: Detection of Membrane-Bound and Soluble Forms by Chiara Cattaneo, Alice Caramaschi, Elena Uga, Michela Braghin, Gianluca Cosi, Chiara Peila, Maria C. Strozzi, Miriam Sabatini, Diego Gazzolo, Marcello Manfredi, Maria Cavaletto

“…Here, we investigated the presence of Toll-like receptors TLR1/2/4/6 in colostrum and mature milk of women who delivered before (preterm) or after (term) 37 weeks of gestational age, integrating classical immune-related techniques with proteomic LC-MS/MS analysis. We have detected immunoreactivity for TLRs mostly in preterm samples, even for TLR1 and TLR6, until now not described in human milk. …”
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Molecular Characterization of the Onset and Progression of Colitis in Inoculated Interleukin-10 Gene-Deficient Mice: A Role for PPARα by Bianca Knoch, Matthew P. G. Barnett, Janine Cooney, Warren C. McNabb, Diane Barraclough, William Laing, Shuotun Zhu, Zaneta A. Park, Paul MacLean, Scott O. Knowles, Nicole C. Roy

“…The aims were to (1) characterize colitis onset and progression using a histopathological, transcriptomic, and proteomic approach and (2) investigate links between PPARα and IL10 using gene network analysis. …”
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A split-GAL4 driver line resource for Drosophila neuron types by Geoffrey W Meissner, Allison Vannan, Jennifer Jeter, Kari Close, Gina M DePasquale, Zachary Dorman, Kaitlyn Forster, Jaye Anne Beringer, Theresa Gibney, Joanna H Hausenfluck, Yisheng He, Kristin Henderson, Lauren Johnson, Rebecca M Johnston, Gudrun Ihrke, Nirmala A Iyer, Rachel Lazarus, Kelley Lee, Hsing-Hsi Li, Hua-Peng Liaw, Brian Melton, Scott Miller, Reeham Motaher, Alexandra Novak, Omotara Ogundeyi, Alyson Petruncio, Jacquelyn Price, Sophia Protopapas, Susana Tae, Jennifer Taylor, Rebecca Vorimo, Brianna Yarbrough, Kevin Xiankun Zeng, Christopher T Zugates, Heather Dionne, Claire Angstadt, Kelly Ashley, Amanda Cavallaro, Tam Dang, Guillermo A Gonzalez III, Karen L Hibbard, Cuizhen Huang, Jui-Chun Kao, Todd Laverty, Monti Mercer, Brenda Perez, Scarlett Rose Pitts, Danielle Ruiz, Viruthika Vallanadu, Grace Zhiyu Zheng, Cristian Goina, Hideo Otsuna, Konrad Rokicki, Robert R Svirskas, Han SJ Cheong, Michael-John Dolan, Erica Ehrhardt, Kai Feng, Basel EI Galfi, Jens Goldammer, Stephen J Huston, Nan Hu, Masayoshi Ito, Claire McKellar, Ryo Minegishi, Shigehiro Namiki, Aljoscha Nern, Catherine E Schretter, Gabriella R Sterne, Lalanti Venkatasubramanian, Kaiyu Wang, Tanya Wolff, Ming Wu, Reed George, Oz Malkesman, Yoshinori Aso, Gwyneth M Card, Barry J Dickson, Wyatt Korff, Kei Ito, James W Truman, Marta Zlatic, Gerald M Rubin, FlyLight Project Team

“…These tools enable functional, transcriptomic, and proteomic studies based on precise anatomical targeting. …”
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SMAP3-ID for Identification of Endogenous Protein–Protein Interactions Reveals Regulation of Mitochondrial Activity by Lamins by Julia Warren, Jian Wang, Francis Dhoro, Bo Chao, Ashok Reddy, Stefanie Kaech Petrie, Larry L. David, Xiangshu Xiao, Bingbing X. Li

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Paracrine activity of Smurf1-silenced mesenchymal stem cells enhances bone regeneration and reduces bone loss in postmenopausal osteoporosis by Alberto González-González, Itziar Álvarez-Iglesias, Daniel García-Sánchez, Monica Dotta, Ricardo Reyes, Ana Alfonso-Fernández, Alfonso Bolado-Carrancio, Patricia Díaz-Rodríguez, María Isabel Pérez-Núñez, José Carlos Rodríguez-Rey, Jesús Delgado-Calle, Flor M. Pérez-Campo

“…Ex vivo, human bone explants were treated with hCM-Smurf1 to assess anti-resorptive effects. Proteomic analysis of the soluble and vesicular CM fractions identified key proteins involved in bone regeneration. …”
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CAR-CIK vs. CAR-T: benchmarking novel cytokine-induced killer cells as solid tumor immunotherapy in ErbB2+ rhabdomyosarcoma by Laura M. Moser, Laura M. Moser, Laura M. Moser, Laura M. Moser, Laura M. Moser, Catrin Heim, Sebastian E. Koschade, Sebastian E. Koschade, Sebastian E. Koschade, Sebastian E. Koschade, Sebastian E. Koschade, Philipp Wendel, Philipp Wendel, Philipp Wendel, Philipp Wendel, Süleyman Bozkurt, Sabine Harenkamp, Hermann Kreyenberg, Hermann Kreyenberg, Michael Merker, Michael Merker, Christian Münch, Christian Münch, Christian Münch, Elise Gradhand, Meike Vogler, Meike Vogler, Meike Vogler, Evelyn Ullrich, Evelyn Ullrich, Evelyn Ullrich, Evelyn Ullrich, Evelyn Ullrich, Halvard Bönig, Halvard Bönig, Jan-Henning Klusmann, Jan-Henning Klusmann, Jan-Henning Klusmann, Jan-Henning Klusmann, Peter Bader, Peter Bader, Peter Bader, Peter Bader, Peter Bader, Winfried S. Wels, Winfried S. Wels, Winfried S. Wels, Eva Rettinger, Eva Rettinger, Eva Rettinger, Eva Rettinger, Eva Rettinger

“…Modes of action were assessed by comparing cytokine secretion profiles using bead-based multiplexed flow cytometry and by liquid chromatography mass spectrometry whole cell proteomics. Finally, we used an in vivo model of RMS mimicking minimal metastatic residual disease to compare anti-tumor potency of CAR-CIK vs. …”
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Brucella suis ΔmapB outer membrane vesicles as an acellular vaccine against systemic and mucosal B. suis infection by Florencia Muñoz González, Florencia Muñoz González, Magali G. Bialer, Maria L. Cerutti, Silvia M. Estein, Lila Y. Ramis, Pablo C. Baldi, Pablo C. Baldi, Ángeles Zorreguieta, Ángeles Zorreguieta, Mariana C. Ferrero, Mariana C. Ferrero

“…To determine the level of protection conferred by immunization, mice were challenged with virulent B. suis via intraperitoneal or intratracheal routes, and the bacterial load was quantified post-challenge.ResultsDynamic Light Scattering of the OMVs from both strains revealed the presence of spherical structures of 90-130 nm. Proteomic analysis identified 94 and 95 proteins in the wt and ΔmapB OMVs, respectively, including several known Brucella immunogens. …”
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Multi-omics approach in tea polyphenol research regarding tea plant growth, development and tea processing: current technologies and perspectives by Jingwen Li, Yu Wang, Joon Hyuk Suh

“…These new technologies combining genomics, metagenomics, transcriptomics, proteomics and/or metabolomics can pave a new avenue to address fundamental questions regarding polyphenol formation and changes in tea plants and products. …”
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Overexpression of PLCG2 and TMEM38A inhibit tumor progression in clear cell renal cell carcinoma by Yiqiao Zhao, Liang Yang, Xiaojie Bai, Lu Du, Huan Lai, Yiyang Liu, Ping Chen, Michael E. DiSanto, Xinhua Zhang

“…We further analyzed proteome and single-cell data and selected PLCG2 and TMEM38A for the following experiments. …”
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Identification of MORF4L1 as an endogenous substrate of CRBN and its potential role as a therapeutic target in cancer by Luyao Zhang, Shunfang Liu, Jingliang He, Zhongke Hu, Lan Zhu, Hongyi Huang, Qi Gao, Dan Wang, Lu Chen, Xingyu Zhang, Ruotong Liu, Jiayun Wang, Yizhuo Song, Kaile Zeng, Xiuming Li, Yulu Chen, Xun Zou, Shaojie Ma, Xiujun Wang, Guofeng Xu, Wei Liu, Bin Liu

“…Here, we identify MORF4L1, a member of the MRG family involved in chromatin remodeling and DNA damage response, as a substrate of CRBN. Using proteomic analysis, co-immunoprecipitation, and structural modeling, we demonstrate that CRBN promotes MORF4L1 degradation under physiological conditions, which is further enhanced by the modulator CC-885. …”
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Exosomes in Human Immunodeficiency Virus Type I Pathogenesis: Threat or Opportunity? by Sin-Yeang Teow, Alif Che Nordin, Syed A. Ali, Alan Soo-Beng Khoo

“…Collective findings demonstrated that exosomes from HIV-infected subjects share many commonalities with Human Immunodeficiency Virus Type I (HIV-1) particles in terms of proteomics and lipid profiles. These observations postulated that HIV-resembled exosomes may contribute to HIV pathogenesis. …”
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The Danger Model Approach to the Pathogenesis of the Rheumatic Diseases by César Pacheco-Tena, Susana Aideé González-Chávez

“…However recent insights in the proteomics of diverse tissular cells have revealed that under stressful conditions they have a significant potential to initiate, coordinate, and perpetuate autoimmune processes, in many cases, ruling over the adaptive immune response cells; this ruling potential can also be confirmed by observations in several genetically manipulated animal models. …”
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Unveiling immunogenic characteristics and neoantigens in endometrial cancer with POLE hotspot mutations for improved immunotherapy by Jian Huang, Shuangna Song, Yihua Yin, Yinyan He, Huimin Wang, Ye Gu, Laman He, Xintao Wang, Xiaocao Miao, Zhigang Zhang, Xueli Zhang, Yiran Li, Yiran Li

“…Consequently, by constructing human leukocyte antigen (HLA) tetramers and incubating them with patients’ peripheral blood mononuclear cells (PBMCs), T cells capable of recognizing the POLEP286R mutation were sorted for further transcriptomic, proteomic and T-cell receptor (TCR) sequencing analyses and for an organoid EC model.ResultsTumor- and immune-related pathways were shown to be activated in the POLEP286R mutant group. …”
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Stromal architecture and fibroblast subpopulations with opposing effects on outcomes in hepatocellular carcinoma by Yifei Cheng, Xiaofang Chen, Li Feng, Zhicheng Yang, Liyun Xiao, Bin Xiang, Xiaodong Wang, Dongbin Liu, Penghui Lin, Jieyi Shi, Guohe Song, Wulei Qian, Boan Zhang, Yanan Xu, Zheng Gao, Lv Chen, Yingcheng Wu, Jiaqiang Ma, Youpei Lin, Haichao Zhao, Lihua Peng, Xuebin Mao, Yang Liu, Hao Hou, Mingyu Yang, Yuan Ji, Xiaoying Wang, Jian Zhou, Xun Xu, Xiyang Liu, Wu Wei, Xiaoming Zhang, Qiang Gao, Hu Zhou, Yidi Sun, Kui Wu, Jia Fan

“…By combining pathological image analysis with spatial proteomics, we revealed two stromal archetypes in hepatocellular carcinoma (HCC) with different biological functions and extracellular matrix compositions. …”
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Proximity Labeling-Based Identification of MGAT3 Substrates and Revelation of the Tumor-Suppressive Role of Bisecting GlcNAc in Breast Cancer via GLA Degradation by Bowen Wang, Xin He, Yue Zhou, Zengqi Tan, Xiang Li, Feng Guan, Lei Lei

“…This approach enriched 116 and 189 proteins, respectively, identifying 17 common substrates shared with bisecting GlcNAc-bearing proteome obtained via intact glycopeptide enrichment methods. …”
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