Identification of KIFC1 as an independent prognostic marker in renal clear cell carcinoma correlates with tumor proliferation and immune infiltration by Bin Du, Jia Wang, Jinping Zheng, Jing Huo, Pu Wang

“…We analyzed the prognostic value, associated signaling pathways, and regulatory mechanisms of KIFC1 in ccRCC through bioinformatics and proteomics. Concretely, both mRNA and protein expression levels of KIFC1 were dramatically upregulated. …”
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Microbial signatures in head and neck squamous cell carcinoma: an in silico study by Loganathan KAVITHA, Manogaran KUZHALMOZHI, Jayaseelan VIJAYASHREE PRIYADHARSINI, Arunachalam ARUN KUMAR, Krishna Mohan Rao UMADEVI, Kannan RANGANATHAN

“…Methodology The microbe-host transcriptomic, proteomic, and epigenetic analyses of HNSCC and GI carcinomas were performed using The Cancer Microbiome Atlas (TCMA) database. …”
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Corrigendum to “Depletion of ß1,6-N-acetylglucosaminyltransferase reduces E-selectin binding capacity and migratory potential of human gastrointestinal adenocarcinoma cells” [Neopl... by Lisa Staffeldt, Hanna Maar, Julia Beimdiek, Samuel Chambers, Kristoffer Riecken, Mark von Itzstein, Falk FR Buettner, Arun Everest-Dass, Tobias Lange

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Increased cardiac myosin super-relaxation as an energy saving mechanism in hibernating grizzly bears by Robbert J. Van der Pijl, Weikang Ma, Christopher T.A. Lewis, Line Haar, Amalie Buhl, Gerrie P. Farman, Marcus Rhodehamel, Vivek P. Jani, O Lynne Nelson, Chengxin Zhang, Henk Granzier, Julien Ochala

“…Methods: Thin cardiac strips were isolated from the left ventricles of active and hibernating grizzly bears; and subjected to loaded Mant-ATP chase assays, X-ray diffraction and proteomics. Main findings: Hibernating grizzly bears displayed an unusually high proportion of ATP-conserving super-relaxed cardiac myosin molecules that are likely due to altered levels of phosphorylation and rod region stability. …”
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A Molecular, Genetic, and Diagnostic Spotlight on Fanconi Anemia by Laura E. Hays, Stefan Meyer, Henri J. van de Vrugt

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Cytotoxic mechanisms of pemetrexed and HDAC inhibition in non-small cell lung cancer cells involving ribonucleotides in DNA by Tobias Solli Iveland, Lars Hagen, Mirta Mittelstedt Leal de Sousa, Nina Beate Liabakk, Per Arne Aas, Animesh Sharma, Bodil Kavli, Geir Slupphaug

“…To explore this further, A549 NSCLC cells were treated with various combinations of pemetrexed and the HDACi MS275 (Entinostat), and subsequently assessed for cell viability, cell cycle changes, and genotoxic markers. Proteomic alterations were analyzed using label-free shotgun and targeted LC–MS/MS. …”
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Bioprocess exploitation of microaerobic auto-induction using the example of rhamnolipid biosynthesis in Pseudomonas putida KT2440 by Jakob Grether, Holger Dittmann, Leon Willems, Tabea Schmiegelt, Elvio Henrique Benatto Perino, Philipp Hubel, Lars Lilge, Rudolf Hausmann

“…Proteomics indicated a remodeling of the respiratory chain and the regulation of stress-related proteins under oxygen limitation. …”
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Development of an in vitro model to study muscle maladaptation to overtraining by Giuseppe Sirago, Clément Lanfranchi, Justin Carrard, Vincent Gremeaux, Nadège Zanou, Nicolas Place

“…Mitochondrial biogenesis biomarkers have been measured, alongside proteomics analysis and mitochondrial respiration. …”
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Toward spatial glycomics and glycoproteomics: Innovations and applications by Patcharaporn Boottanun, Sayaka Fuseya, Atsushi Kuno

“…We discuss glycopathology and tissue glycomic profiling using highly sensitive lectin-based analyses and introduce deep visual proteomics for glycomic/glycoproteomic sample preparation. …”
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Functions of Fasciculation and Elongation Protein Zeta-1 (FEZ1) in the Brain by Andrés D. Maturana, Toshitsugu Fujita, Shun'ichi Kuroda

“…Suppression of FEZ1 expression in cultured embryonic neurons causes deficiency of neuronal differentiation. Recently, proteomic techniques revealed that FEZ1 interacts with various intracellular partners, such as signaling, motor, and structural proteins. …”
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Characterizing Antimicrobial Effects of Radiation and Antibiotic Interactions on <i>Staphylococcus aureus</i> and <i>Escherichia coli</i> Using MALDI-TOF MS by Ali Haider, Renáta Homlok, Csilla Mohácsiné Farkas, Tamás Kocsis

“…The findings highlight MALDI-TOF MS as a valuable tool in detecting proteomic biomarkers linked to bacterial resistance and stress adaptation.…”
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Effects of GS-CA1 on nuclear envelope-associated early HIV-1 infection steps by Amita Singh, Victor Fourcassié, Victor Fourcassié, Karen Cristine Gonçalves Dos Santos, Hocine Chelbi, Natacha Merindol, Arnaud Droit, Arnaud Droit, Hugo Germain, Lionel Berthoux

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Triple-negative breast cancer modifies the systemic immune landscape and alters neutrophil functionality by Noor A. M. Bakker, Hannah Garner, Ewald van Dyk, Elisa Champanhet, Chris Klaver, Maxime Duijst, Leonie Voorwerk, Iris Nederlof, Rosie Voorthuis, Marte C. Liefaard, Marja Nieuwland, Iris de Rink, Onno B. Bleijerveld, Hendrika M. Oosterkamp, Lodewyk F. A. Wessels, Marleen Kok, Karin E. de Visser

“…Chemotherapy-naïve mTNBC patients showed increased classical monocytes and neutrophils. Transcriptional, proteomic, and functional analyses revealed that neutrophils in mTNBC exhibited enhanced migratory capacity, elevated granule proteins, and higher ROS production. …”
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Polygenic prediction of human longevity on the supposition of pervasive pleiotropy by M. Reza Jabalameli, Jhih-Rong Lin, Quanwei Zhang, Zhen Wang, Joydeep Mitra, Nha Nguyen, Tina Gao, Mark Khusidman, Sanish Sathyan, Gil Atzmon, Sofiya Milman, Jan Vijg, Nir Barzilai, Zhengdong D. Zhang

“…Together, our approach demonstrates a promising framework for polygenic modeling of additive liability conferred by ARTs in defining exceptional longevity and assisting the identification of individuals at a higher risk of mortality for targeted lifestyle modifications earlier in life. Furthermore, the proteomic signature associated with iLGS highlights the functional pathway upstream of the PI3K-Akt that can be effectively targeted to slow down aging and extend lifespan.…”
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Protocol for generating liver metastasis microtissues to decipher cellular interactions between metastatic intestinal cancer and liver tissue by Maria Lamprou, Ana Krotenberg Garcia, Saskia Jacoba Elisabeth Suijkerbuijk

“…Here, we present a protocol for generating matrix-free microtissues recapitulating cellular interactions between intestinal cancer and hepatocyte-like cells using microscopy or transcriptomics/proteomics. We describe steps for generating and differentiating liver progenitor organoids and microtissue formation. …”
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RECONSTRUCTION OF AMINO ACID SEQUENCES OF CYCLIC PEPTIDES FROM THEIR MASS SPECTRA by E. S. Fomin

“…Mass spectrometry is a physical method, which can be applied to the investigation of proteomes of different organisms. It allows us both to solve the problem of identification of biological macromolecules and to sequence peptide chains in cases where information on the genomes is scarce or absent. …”
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Accurate Identification of Cancerlectins through Hybrid Machine Learning Technology by Jieru Zhang, Ying Ju, Huijuan Lu, Ping Xuan, Quan Zou

“…Our work provides a basis for the computational identification of cancerlectins and reveals the power of hybrid machine learning techniques in computational proteomics.…”
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α-catenin phosphorylation is elevated during mitosis to resist apical rounding and epithelial barrier leak by Phuong M. Le, Jeanne M. Quinn, Annette S. Flozak, Adam W. T. Steffeck, Che-Fan Huang, Cara J. Gottardi

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Mesenchymal stem cell‐derived exosomes mitigate amyloid β‐induced retinal toxicity: Insights from rat model and cellular studies by Amanda Qarawani, Efrat Naaman, Rony Ben‐Zvi Elimelech, Michal Harel, Shahaf Sigal‐Dror, Tali Ben‐Zur, Tamar Ziv, Daniel Offen, Shiri Zayit‐Soudry

“…Fluorescent labelling demonstrated increased migration of AT‐MSC‐Exosomes towards retinal cells under conditions of amyloid‐related toxicity. Proteomic analysis indicated a decrease in the retinal levels of heat‐shock proteins activated by pathogenic Aβ fibrils following AT‐MSC‐Exosome treatment. …”
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Functional mass spectrometry indicates anti-protease and complement activity increase with COVID-19 severity by Douglas D. Fraser, Douglas D. Fraser, Swapan Roy, Matt Kuruc, Maritza Quintero, Logan R. Van Nynatten, Gediminas Cepinskas, Gediminas Cepinskas, Haiyan Zheng, Amenah Soherwardy, Devjit Roy

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