Effect of Jingui Shenqi Pill on the Differential Proteins in Femoral Cortical Bone of Kidney-yang Deficiency Rats Model by Naixi ZHENG, Zhengxuan ZHAN, Yingjie ZHANG, Xu WANG, Ziyi ZHANG, Youxin SU

“…We used two-dimensional electrophoresis (2-DE) to show the proteomic maps of femoral cortical bone, compared the differential protein spots between the groups, analyzed and identified them by mass spectrometry.Results:There were 480 discernible proteins points in each 2-DE gel map. …”
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Generation of a human induced pluripotent stem cell line NTUHi006-A from a polycystic ovarian syndrome patient by Chia-Eng Wu, Hsiang-Po Huang, Hong-Nerng Ho, Mei-Jou Chen

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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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YgaE Regulates Out Membrane Proteins in Salmonella enterica Serovar Typhi under Hyperosmotic Stress by Min Wang, Ping Feng, Xun Chen, Haifang Zhang, Bin Ni, Xiaofang Xie, Hong Du

“…Two-dimensional electrophoresis was applied to analyze proteomics of total proteins in wild-type strain and ΔygaE strain and we found that YgaE represses the expression of OmpA at the late stage of hyperosmotic stress. …”
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Role of Eukaryotic Initiation Factors during Cellular Stress and Cancer Progression by Divya Khandige Sharma, Kamiko Bressler, Harshil Patel, Nirujah Balasingam, Nehal Thakor

“…Extensive evidence shows that the transcriptome and corresponding proteome do not invariably correlate with each other in a variety of contexts. …”
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Unveiling unique effector function-related bulk antibody profiles in long-term hemodialysis patients following COVID-19 mRNA booster vaccination by Chia-Yi Chou, Chung-Yi Cheng, Chih-Hsin Lee, Makoto Kuro-O, Tso-Hsiao Chen, San-Yuan Wang, Yung-Kun Chuang, Yun-Jung Yang, Yun-Hsuan Lin, I-Lin Tsai

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Integrative computational analysis of anti-influenza potential in Caesalpinia mimosoides Lamk hydroethanolic extract by Anuwatchakij Klamrak, Shaikh Shahinur Rahman, Napapuch Nopkuesuk, Jaran Nabnueangsap, Jaraspim Narkpuk, Piyapon Janpan, Yutthakan Saengkun, Thananya Soonkum, Supawadee Sriburin, Samaporn Teeravechyan, Poramet Sitthiwong, Nisachon Jangpromma, Sirinan Kulchat, Kiattawee Choowongkomon, Rina Patramanon, Arunrat Chaveerach, Jureerut Daduang, Sakda Daduang

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Characterizing the omics landscape based on 10,000+ datasets by Eva Brombacher, Oliver Schilling, Clemens Kreutz

“…In this study, we investigate over ten thousand datasets to understand how proteomics, metabolomics, lipidomics, transcriptomics, and microbiome data vary in specific data characteristics. …”
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Disorders in brassinosteroids signal transduction triggers the profound molecular alterations in the crown tissue of barley under drought. by Anetta Kuczyńska, Martyna Michałek, Piotr Ogrodowicz, Michał Kempa, Paweł Krajewski, Vladimiro Cardenia, Maria Teresa Rodriguez-Estrada, Marina Pérez-Llorca, Sergi Munné-Bosch, Krzysztof Mikołajczak

“…Large-scale transcriptomic and proteomic profiling confirmed the specific re-modeling of behavior of the BRs-insensitive barley uzu1.a mutant under drought. …”
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The RNA-dependent association of phosphatidylinositol 4,5-bisphosphate with intrinsically disordered proteins contribute to nuclear compartmentalization. by Martin Sztacho, Jakub Červenka, Barbora Šalovská, Ludovica Antiga, Peter Hoboth, Pavel Hozák

“…In this study, we unveiled the RNA-dependent PIP2-associated (RDPA) nuclear proteome in human cells by mass spectrometry. We found that intrinsically disordered regions (IDRs) with polybasic PIP2-binding K/R motifs are prevalent features of RDPA proteins. …”
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Acetylation of the yeast Hsp40 chaperone protein Ydj1 fine-tunes proteostasis and translational fidelity. by Siddhi Omkar, Megan M Mitchem, Joel R Hoskins, Courtney Shrader, Jake T Kline, Nitika, Luca Fornelli, Sue Wickner, Andrew W Truman

“…By mutating acetylation sites on Ydj1's J-domain to either abolish or mimic constitutive acetylation, we observed that preventing acetylation had no noticeable phenotypic impact, whereas acetyl-mimic mutants exhibited various defects indicative of impaired Ydj1 function. Proteomic analysis revealed several Ydj1 interactions affected by J-domain acetylation, notably with proteins involved in translation. …”
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Minimally invasive determination of pancreatic ductal adenocarcinoma (PDAC) subtype by means of circulating cell‐free RNA by Martin Metzenmacher, Gregor Zaun, Marija Trajkovic‐Arsic, Phyllis Cheung, Timm M. Reissig, Hendrik Schürmann, Nils vonNeuhoff, Grainne O'Kane, Stephanie Ramotar, Anna Dodd, Steven Gallinger, Alexander Muckenhuber, Jennifer J. Knox, Volker Kunzmann, Peter A. Horn, Jörg D. Hoheisel, Jens T. Siveke, Smiths S. Lueong

“…We used whole transcriptome sequencing of 10 plasma samples with tumor‐informed subtypes, complemented by proteomic analysis for minimally invasive identification of PDAC subtype markers. …”
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Mechanisms and Consequences of Dopamine Depletion-Induced Attenuation of the Spinophilin/Neurofilament Medium Interaction by Andrew C. Hiday, Michael C. Edler, Asma B. Salek, Cameron W. Morris, Morrent Thang, Tyler J. Rentz, Kristie L. Rose, Lisa M. Jones, Anthony J. Baucum

“…Spinophilin association with PP1 is increased concurrent with decreases in PP1 activity in an animal model of PD. Using proteomic-based approaches, we observed dopamine depletion-induced decreases in spinophilin binding to multiple protein classes in the striatum. …”
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