RNA structure in alternative splicing regulation: from mechanism to therapy by Bao Nengcheng, Wang Zhechao, Fu Jiayan, Dong Haiyang, Jin Yongfeng

“…Alternative splicing is a highly intricate process that plays a crucial role in post-transcriptional regulation and significantly expands the functional proteome of a limited number of coding genes in eukaryotes. …”
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Phenotypic alterations in articulating joint cells: Role of mechanically loaded MSC secretome by Yann D. Ladner, Ursula Menzel, Keith Thompson, Angela R. Armiento, Martin J. Stoddart

“…Previously, we employed a small-panel microarray to demonstrate differences within conditioned medium (CM) of MSCs that were mechanically stimulated within a joint-mimicking bioreactor and their unloaded controls.This study analyzed the proteomic content within CM from 4 week mechanically loaded MSCs with a larger protein microarray. …”
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Identification of Osteosarcoma-Related Specific Proteins in Serum Samples Using Surface-Enhanced Laser Desorption/Ionization-Time-of-Flight Mass Spectrometry by Jianli Gu, Jitian Li, Manyu Huang, Zhiyong Zhang, Dongsheng Li, Guoying Song, Xingpo Ding, Wuyin Li

“…Two proteins showed a significantly different expression in OS serum samples from control groups. Proteomic profiles and external leave-one-out cross-validation analysis showed that the correct rate of allocation, the sensitivity, and the specificity of diagnosis were 100%. …”
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Classifications of triple-negative breast cancer: insights and current therapeutic approaches by Ziqi Chen, Yumeng Liu, Minchuan Lyu, Chi Ho Chan, Meiheng Sun, Xin Yang, Shuangying Qiao, Zheng Chen, Sifan Yu, Meishen Ren, Aiping Lu, Ge Zhang, Fangfei Li, Yuanyuan Yu

“…Additionally, TNBC exhibits significant heterogeneity at histopathological, proteomic, transcriptomic, and genomic levels, further complicating the development of effective treatments. …”
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<i>Pseudomonas aeruginosa pqs</i> Quorum Sensing Mediates Interaction with <i>Mycobacterium abscessus</i> In Vitro by Yun Long, Zhi Li, Menglu Li, Peiyi Lu, Yujia Deng, Pengyao Wu, Xue Li, Gangjian Qin, Jiamin Huang, Wenying Gao, Guobao Li, Tianyuan Jia, Liang Yang

“…In this study, we first demonstrated that <i>P. aeruginosa</i> inhibits the growth of <i>M. abscessus</i> by iron chelating via <i>pqs</i> quorum sensing. Next, through proteomic analysis, we discovered that the PQS molecule significantly changed a large amount of protein expression in <i>M. abscessus</i>, including proteins involved in the type VII secretion system and iron homeostasis. …”
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Psychrophilic Enzymes: From Folding to Function and Biotechnology by Georges Feller

“…Psychrophiles thriving permanently at near-zero temperatures synthesize cold-active enzymes to sustain their cell cycle. Genome sequences, proteomic, and transcriptomic studies suggest various adaptive features to maintain adequate translation and proper protein folding under cold conditions. …”
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Assessment of Salivary Adipokines Resistin, Visfatin, and Ghrelin as Type 2 Diabetes Mellitus Biomarkers by Mythily Srinivasan, Melinda L. Meadows, Lisa Maxwell

“…Human saliva is an easily accessible biospecimen amenable for painless frequent collection and possesses nearly 50% of serum proteome. In this study, we measured the adipokines resistin, visfatin, TNF-α, and ghrelin as markers for T2DM in unstimulated whole saliva (UWS) using specific assay kits. …”
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SIRT5 Contributes to Colorectal Cancer Growth by Regulating T Cell Activity by Ke Wang, Zuojian Hu, Cuiping Zhang, Lujie Yang, Li Feng, Pengyuan Yang, Hongxiu Yu

“…In this work, we found that Sirt5 knockout mice were resistant to AOM and DSS-induced colitis-associated colorectal tumorigenesis and the level of IFN-γ in their tumor microenvironment was higher. Additionally, proteome and network analysis revealed that SIRT5 was important in the T cell receptor signaling pathway. …”
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Phytochemical Evaluation of Moth Bean (Vigna aconitifolia L.) Seeds and Their Divergence by Neha Gupta, Nidhi Shrivastava, Pramod Kumar Singh, Sameer S. Bhagyawant

“…Over 20 individual protein fractions were distributed over the gel as a series of spots in two moth bean accessions. Seed proteome accumulated spots of high intensity over a broad range of pI values of 3–10 in a molecular weight range of 11–170 kDa. …”
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Physicochemical properties and cytochromes P-450 kinetics of the trifluoroacetamido derivative of phenacetin by Hannah L. Cure, Thomas A. Shell

“…Phenacetin and TFA-phenacetin have the same apparent binding affinity for the SD rat liver microsome CYP proteome and undergo CYP catalyzed oxidation at the same rate in the presence of SD rat liver microsomes.…”
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Mechanistic insights into PROS1 inhibition of bladder cancer progression and angiogenesis via the AKT/GSK3β/β-catenin pathway by Xin-peng Fan, Ji-rong Wang, Si-yu Chen, Xiao-ran Li, Jin-long Cao, Hua-bin Wang, Li-yun Ding, Tuan-jie Che, Li Yang

“…However, the deregulation of PROS1 and its specific function in BLCA is not well understood. By combining proteomic and transcriptomic datasets, we discovered PROS1 expression was significantly reduced in BLCA tissues and revealed the clinical relevance of PROS1 with BLCA. …”
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Cancer multi-omics-based differential expression analysis and prognostic potential of identified hub targets of myco-metabolites for breast carcinoma and lung carcinoma by Singh Shreya, Debadatta Mohapatra, Gaurav Gopal Naik, Pooja Kathait, Soki Malang, Pradeep Patel, Shambhavi, Gulzar Alam, Alakh N. Sahu

“…In the present work, web servers UALCAN, GEPIA2, and KM plotter were used to explore the genomic and proteomic expression of these hub targets, along with their prognosis potential in BC and LC. …”
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Nanobody-thioesterase chimeras to specifically target protein palmitoylation by Chien-Wen Kuo, Caglar Gök, Hannah Fulton, Eleanor Dickson-Murray, Samuel Adu, Emily K. Gallen, Sheon Mary, Alan D. Robertson, Fiona Jordan, Emma Dunning, William Mullen, Godfrey L. Smith, William Fuller

“…Abstract The complexity of the cellular proteome is massively expanded by a repertoire of chemically distinct reversible post-translational modifications (PTMs) that control protein localisation, interactions, and function. …”
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Cdk6’s functions are critically regulated by its unique C-terminus by Alessia Schirripa, Helge Schöppe, Sofie Nebenfuehr, Markus Zojer, Thorsten Klampfl, Valentina Kugler, Belinda S. Maw, Huriye Ceylan, Iris Z. Uras, Lisa Scheiblecker, Elisabeth Gamper, Ulrich Stelzl, Eduard Stefan, Teresa Kaserer, Veronika Sexl, Karoline Kollmann

“…C-terminally truncated Cdk6 (Cdk6 ΔC) shows reduced nuclear translocation and therefore chromatin interaction and fails to enhance proliferation and disease progression. The combination of proteomic analysis and protein modeling highlights that Cdk6’s C-terminus is essential for protein flexibility and for its binding potential to cyclin D, p27Kip1 and INK4 proteins but not cyclin B. …”
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Proteostasis and Mitochondrial Role on Psychiatric and Neurodegenerative Disorders: Current Perspectives by Pablo Olivero, Carlo Lozano, Ramón Sotomayor-Zárate, Nicolás Meza-Concha, Marcelo Arancibia, Claudio Córdova, Wilfredo González-Arriagada, Ricardo Ramírez-Barrantes, Ivanny Marchant

“…Proteostasis alterations in the prefrontal cortex implicate proteome instability and accumulation of misfolded proteins. …”
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Alternative 3′ UTR polyadenylation is disrupted in the rNLS8 mouse model of ALS/FTLD by Randall J. Eck, Paul N. Valdmanis, Nicole F. Liachko, Brian C. Kraemer

“…Here, we identify significant disruptions to 3` UTR polyadenylation in the ALS/FTLD-TDP mouse model rNLS8 that correlate with changes in gene expression and protein levels through the re-analysis of published RNA sequencing and proteomic data. A subset of these changes are shared with TDP-43 knock-down mice suggesting depletion of endogenous mouse TDP-43 is a contributor to polyadenylation dysfunction in rNLS8 mice. …”
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Cytokine Patterns in Brain Tumour Progression by Radu Albulescu, Elena Codrici, Ionela Daniela Popescu, Simona Mihai, Laura Georgiana Necula, Daniel Petrescu, Mihaela Teodoru, Cristiana Pistol Tanase

“…The body’s response to cancer has many parallels with inflammation and repair; the inflammatory cells and cytokines present in tumours are more likely to contribute to tumour growth, progression, and immunosuppression, rather than in building an effective antitumour defence. Using new proteomic technology, we have investigated serum profile of pro- (IL-1β, IL-6, IL-8, IL-12, GM-CSF, and TNF-α) and anti-inflammatory cytokines (IL-4, IL-10), along with angiogenic factors (VEGF, bFGF) in order to assess tumoural aggressiveness. …”
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High-Dimensional Cox Regression Analysis in Genetic Studies with Censored Survival Outcomes by Jinfeng Xu

“…With the advancement of high-throughput technologies, nowadays high-dimensional genomic and proteomic data are easy to obtain and have become ever increasingly important in unveiling the complex etiology of many diseases. …”
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Activators of the 26S proteasome when protein degradation increases by Donghoon Lee

“…Abstract In response to extra- and intracellular stimuli that constantly challenge and disturb the proteome, cells rapidly change their proteolytic capacity to maintain proteostasis. …”
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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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