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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TGF-β induces cholesterol accumulation to regulate the secretion of tumor-derived extracellular vesicles by Dorival Mendes Rodrigues-Junior, Chrysoula Tsirigoti, Konstantina Psatha, Dimitris Kletsas, Michalis Aivaliotis, Carl-Henrik Heldin, Aristidis Moustakas

“…To this end, we used a large number of cancer cell models, coupled to EV cell biological assays, unbiased proteomic and transcriptomic screens, followed by signaling and cancer biology analyses, including drug resistance assays. …”
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Improving serum redox balance, inflammatory status, physical function, and cognitive ability through dual-task resistance training and detraining in nursing home residents by Erivaldo Machado Araújo, Hélio José Coelho-Júnior, Caio Victor Sousa, Thiago dos Santos Rosa, Ivo Vieira Sousa Neto, Emanuele Marzetti, Octávio Luiz Franco, Samuel da Silva Aguiar

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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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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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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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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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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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Serpina3k lactylation protects from cardiac ischemia reperfusion injury by Le Wang, Dandan Li, Fang Yao, Shanshan Feng, Chao Tong, Rongjia Rao, Meiyan Zhong, Xianqiang Wang, Wei Feng, Zhan Hu, Bo Jin, Li Wang, Shengshou Hu, Bingying Zhou

“…By analyzing the lactylomes and proteomes of mouse myocardium during ischemia-reperfusion injury using mass spectrometry, we show that both Serpina3k protein expression and its lactylation at lysine 351 are increased upon reperfusion. …”
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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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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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The nonlinear cysteine redox dynamics in the i-space: A proteoform-centric theory of redox regulation by James N. Cobley, Panagiotis N. Chatzinikolaou, Cameron A. Schmidt

“…In support, even 90%-reduced proteomes can house vast numbers of unique, potentially functioanlly diverse, oxiforms. …”
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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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High Throughput Approaches to Unravel the Mechanism of Action of a New Vanadium-Based Compound against Trypanosoma cruzi by M. Florencia Mosquillo, Pablo Smircich, Analía Lima, Sergio A. Gehrke, Gonzalo Scalese, Ignacio Machado, Dinorah Gambino, Beatriz Garat, Leticia Pérez-Díaz

“…Concordantly, no drastic changes of the parasite transcriptome were detected after 6 h of treatment. Instead, proteomic analysis uncovered the modulation of proteins involved in different processes such as energy and redox metabolism, transport systems, detoxifying pathways, ribosomal protein synthesis, and proteasome protein degradation. …”
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Antibody Responses and the Vaccine Efficacy of Recombinant Glycosyltransferase and Nicastrin Against <i>Schistosoma japonicum</i> by Bowen Dong, Haoran Zhong, Danlin Zhu, Luobin Wu, Jinming Wang, Hao Li, Yamei Jin

“…While praziquantel remains the primary treatment, concerns about drug resistance highlight the urgent need for new drugs and effective vaccines to achieve sustainable control. Previous proteomic studies from our group revealed that the expression of <i>Schistosoma japonicum</i> glycosyltransferase and nicastrin as proteins was higher in single-sex males than mated males, suggesting their critical roles in parasite reproduction and their potential as vaccine candidates. …”
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Protein Glycation in Diabetes as Determined by Mass Spectrometry by Annunziata Lapolla, Laura Molin, Pietro Traldi

“…The development of mass spectrometric techniques able to give highly specific and reliable results in proteome field is of wide interest for physicians, giving them new tools to monitor the disease progression and the possible complications related to diabetes, as well as the effectiveness of therapeutic treatments. …”
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