Residue-resolved insights into the stabilization of therapeutic proteins by excipients: A case study of two monoclonal antibodies with arginine and glutamate by Tobias M. Prass, Patrick Garidel, Lars V. Schäfer, Michaela Blech

“…Protein formulation development relies on the selection of excipients that inhibit protein–protein interactions preventing aggregation. Empirical strategies involve screening many excipient and buffer combinations by physicochemical characterization using forced degradation or temperature-induced stress, mostly under accelerated conditions. …”
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Regulation of stress granule maturation and dynamics by poly(ADP-ribose) interaction with PARP13 by Shang-Jung Cheng, Temitope Gafaar, Jijin R. A. Kuttiyatveetil, Aleksandr Sverzhinsky, Carla Chen, Minghui Xu, Allison Lilley, John M. Pascal, Anthony K. L. Leung

“…Overall, our study uncovers the important role of PAR-protein interactions in stress granule dynamics and maturation, mediated through PARP13.…”
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Serum Glycoproteomics and Identification of Potential Mechanisms Underlying Alzheimer’s Disease by Naphatthakarn Kerdsaeng, Sittiruk Roytrakul, Suwannee Chanprasertyothin, Piangporn Charernwat, Sirintorn Chansirikarnjana, Piyamitr Sritara, Jintana Sirivarasai

“…Functions and pathways associated with protein-protein interactions were identified in AD. Significant changes in these proteins can indicate the molecular mechanisms involved in the pathogenesis of AD, and they have the potential to serve as AD biomarkers. …”
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Investigation of the physicochemical properties and pharmacokinetics of the active compounds in Quercus infectoria gall extract by Roohallah Yousefi

“…Ellagic acid, a polyphenol with antioxidant and anticancer properties, has complex pharmacokinetics due to conjugate formation and protein interactions. Gallic acid may impact its distribution, while phlorizin is being studied for its potential to inhibit glucosidase in diabetes management. …”
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Changes in RNA Splicing: A New Paradigm of Transcriptional Responses to Probiotic Action in the Mammalian Brain by Xiaojie Yue, Lei Zhu, Zhigang Zhang

“…The Lacidofil^® altogether altered 2941 differential splicing events, predominantly, skipped exon (SE) and mutually exclusive exon (MXE) events. Protein–protein interactions and a KEGG analysis of differentially spliced genes (DSGs) revealed consistent enrichment in the spliceosome and vesicle transport complexes, as well as in pathways related to neurodegenerative diseases, synaptic function and plasticity, and substance addiction across brain regions. …”
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A multiscale functional map of somatic mutations in cancer integrating protein structure and network topology by Yingying Zhang, Alden K. Leung, Jin Joo Kang, Yu Sun, Guanxi Wu, Le Li, Jiayang Sun, Lily Cheng, Tian Qiu, Junke Zhang, Shayne D. Wierbowski, Shagun Gupta, James G. Booth, Haiyuan Yu

“…Two distinct methodologies—one analyzing mutation clustering within protein sequences and 3D structures, the other leveraging protein-protein interaction network topology—offer complementary strengths. …”
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Extraction, GC-MS analysis, cytotoxic, anti-inflammatory and anticancer potential of Cannabis sativa female flower; in vitro, in vivo and in silico by Waqas Safir, Arif Malik, Arif Malik, Haleema Saadia, Ayesha Zahid, Jinyao Li

“…The bioinformatics analysis of molecular docking proved significant ligand-protein interactions of CBD, THC, and humulene with cancer-associated proteins such as PD-1/PD-L1, TNF-α, and MMP-9. …”
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Transcriptional Activity of PGC-1α and NT-PGC-1α Is Differentially Regulated by Twist-1 in Brown Fat Metabolism by Hee-Jin Jun, Thomas W. Gettys, Ji Suk Chang

“…These findings show that differences in inhibitory protein-protein interactions of PGC-1α and NT-PGC-1α with Twist-1 lead to differential regulation of their function by Twist-1.…”
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Replication-transcription complex of coronaviruses: functions of individual viral non-structural subunits, properties and architecture of their complexes by E. L. Mishchenko, V. A. Ivanisenko

“…This review will encompass current, modern studies on the properties and complexes of individual non-structural subunits of the RTC, the structures of individual coronavirus RTC subunits, domain organization and functions of subunits, protein-protein interactions, properties and architectures of subunit complexes, the effect of mutations, and the identif ication of mutations affecting the viability of the virus in cell culture.…”
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Networking Salt Inducible Kinase 1 Regulatory Perturbations on Type 2 Diabetes- Breast Cancer Co-Morbidity Associated Molecular Bridge by Durrani I.A., John P., Bhatti A.

“…Gene mutations, and transcription factors (TF), hub proteins and microRNA (miRNA) associated with SIK1 and its protein-protein interactions (PPIs) were extracted from MuTarget and EnrichR, respectively. …”
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Effect of Pea Resistant Starch on Emulsion Gel Properties and in Vitro Digestibility of Myofibrillar Proteins by CHEN Jinyu, HU Fangyang, JI Zhirui, WU Zijian

“…The addition of pea RS3 significantly decreased the surface hydrophobicity (P < 0.05) while increasing the fluorescence intensity of MP, indicating enhanced protein-protein interactions. The addition of pea RS3 resulted in improved stability of MP emulsions, as manifested by higher absolute values of zeta potential, smaller droplet sizes and reduced creaming index. …”
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Candidate Genes Associated with Delayed Neuropsychomotor Development and Seizures in a Patient with Ring Chromosome 20 by Thiago Corrêa, Amanda Cristina Venâncio, Marcial Francis Galera, Mariluce Riegel

“…Therefore, in this study, we can explore molecular cytogenetic data, identify proteins through network analysis of protein-protein interactions, and identify new candidate genes associated with the main clinical findings in patients with 20q13.33 deletions.…”
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Investigating the functional and structural effect of non-synonymous single nucleotide polymorphisms in the cytotoxic T-lymphocyte antigen-4 gene: An in-silico study. by Md Mostafa Kamal, Kazi Fahmida Haque Shantanu, Shamiha Tabassum Teeya, Md Motiar Rahman, A K M Munzurul Hasan, Douglas P Chivers, Tanveer A Wani, Atekah Hazzaa Alshammari, Mahesh Rachamalla, Francisco Carlos da Silva Junior, Md Munnaf Hossen

“…ConSurf predicted conservation scores for four nsSNPs, and Project Hope suggested that all mutations could disrupt protein interactions. Furthermore, mCSM and DynaMut2 analyses indicated a decrease in ΔΔG stability for the mutants. …”
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Computational and In silico study of novel fungicides against combating root rot, gray mold, fusarium wilt, and cereal rust. by Mollah Naimuzzaman, Md Mahabub Hasan, Ajoy Kumer, Abu Yousuf Hossin, Mohammad Harun-Ur-Rashid, Swapan Kumar Roy, Abu Noman Faruq Ahmmed, Jamal Uddin

“…Next, two docking tools, such as AutoDock by PyRx and Molecular Docking by Glide from the Schrödinger suite, were used to convey the docking score, and ligand protein interactions against four main proteases, for instance 7VEM, 8H6Q, 8EBB, and 7XDS having name of pathogens: Phytophthora capsici, Botrytis cinerea, Fusarium oxysporum f. sp. lycopersici, and Puccinia graminis f. sp. tritici, respectively. …”
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Acyl-CoA Thioesterase 1 Contributes to Transition of Steatosis to Metabolic-Associated Steatohepatitis by Elisa Pasini, Cristina Baciu, Marc Angeli, Bianca Arendt, Diogo Pellegrina, Jüri Reimand, Keyur Patel, George Tomlinson, Mohammad T. Mazhab-Jafari, Lakshmi P. Kotra, Sandra Fischer, Johane P. Allard, Atul Humar, Mamatha Bhat

“…Acyl-CoA thioesterase 1 (ACOT1) was identified as a critical node in the protein-protein interaction (PPI) network of the transition from steatosis to MASH in patient samples. …”
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An Overview of the Intrinsic Role of Citrullination in Autoimmune Disorders by Mohammed Alghamdi, Doaa Alasmari, Amjad Assiri, Ehab Mattar, Abdullah A. Aljaddawi, Sana G. Alattas, Elrashdy M. Redwan

“…This modification leads to a charge shift, which affects the protein structure, protein-protein interactions, and hydrogen bond formation, and it may cause protein denaturation. …”
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Molecular characterization and functional annotation of a hypothetical protein (SCO0618) of A3(2) by Nadim Ferdous, Mahjerin Nasrin Reza, Md. Tabassum Hossain Emon, Md. Shariful Islam, A. K. M. Mohiuddin, Mohammad Uzzal Hossain

“…Furthermore, protein-protein interactions of selected hypothetical protein revealed several functional partners those have the significant role for the bacterial survival. …”
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Problems of creating antibody phage libraries and their solutions by V. S. Aripov, N. V. Volkova, A. A. Ilyichev, D. N. Shcherbakov

“…It has also become the basis for efficient and relatively inexpensive methods for studying protein–protein interactions, receptor binding sites, as well as epitope and mimotope identification. …”
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In Vitro Antibacterial, Antioxidant, Cytotoxicity Activity, and In Silico Molecular Modelling of Compounds Isolated from Roots of Hydnora johannis by Teshome Degfie, Milkyas Endale, Muhdin Aliye, Rajalakshmanan Eswaramoorthy, Tariku Nefo Duke, Aman Dekebo

“…Binding affinity scores of catechin (3)-protein interactions are in line with those from in vitro tests, indicating its potential antibacterial effect. …”
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A graph neural network approach for hierarchical mapping of breast cancer protein communities by Xiao Zhang, Qian Liu

“…Deep learning can automatically learn features from protein sequences and protein–protein interactions for hierarchical clustering. Results Using a large amount of publicly available proteomics data, we created a hierarchical tree for breast cancer protein communities using a novel hierarchical graph neural network, with the supervision of gene ontology terms and assistance of a pre-trained deep contextual language model. …”
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