NestedBD: Bayesian inference of phylogenetic trees from single-cell copy number profiles under a birth-death model
Algorithms Mol Biol. 2024 Apr 29;19(1):18. doi: 10.1186/s13015-024-00264-4.ABSTRACTCopy number aberrations (CNAs) are ubiquitous in many types of cancer. Inferring CNAs from cancer genomic data could help shed light on the initiation, progression, and potential treatment of cancer. While such data have traditionally been available via "bulk sequencing," the more recently introduced techniques for single-cell DNA sequencing (scDNAseq) provide the type of data that makes CNA inference possible at the single-cell resolution. We introduce a new birth-death evolutionary model of CNAs and a Bayesian method, NestedBD, for the inf...
Source: Algorithms for Molecular Biology : AMB - April 29, 2024 Category: Molecular Biology Authors: Yushu Liu Mohammadamin Edrisi Zhi Yan Huw A Ogilvie Luay Nakhleh Source Type: research
Targeted protein degradation: from mechanisms to clinic
Nat Rev Mol Cell Biol. 2024 Apr 29. doi: 10.1038/s41580-024-00729-9. Online ahead of print.ABSTRACTTargeted protein degradation refers to the use of small molecules to induce the selective degradation of proteins. In its most common form, this degradation is achieved through ligand-mediated neo-interactions between ubiquitin E3 ligases - the principal waste disposal machines of a cell - and the protein targets of interest, resulting in ubiquitylation and subsequent proteasomal degradation. Notable advances have been made in biological and mechanistic understanding of serendipitously discovered degraders. This improved unde...
Source: Mol Biol Cell - April 29, 2024 Category: Molecular Biology Authors: Jonathan M Tsai Rados ław P Nowak Benjamin L Ebert Eric S Fischer Source Type: research
NEAT1 inhibits the angiogenic activity of cerebral arterial endothelial cells by inducing the M1 polarization of microglia through the AMPK signaling pathway
CONCLUSIONS: NEAT1 inhibits the angiogenic activity of mCAECs by inducing M1 polarization of BV-2 cells through the AMPK signaling pathway. This study further clarified the impact and mechanism of NEAT1 on microglia and the angiogenic ability of cerebrovascular endothelial cells.PMID:38684954 | PMC:PMC11059773 | DOI:10.1186/s11658-024-00579-5 (Source: Cellular and Molecular Biology Letters)
Source: Cellular and Molecular Biology Letters - April 29, 2024 Category: Biochemistry Authors: Ting Chen Xin Huang Yi-Xuan Zhao Zhi-Wen Zhou Wen-Sheng Zhou Source Type: research
The Potential Role of Phytochemicals of < em > Juniperus procera < /em > in the Treatment of Ovarian Cancer and the Inhibition of Human Topoisomerase II Alpha Activity
Bioinform Biol Insights. 2024 Apr 25;18:11779322241248904. doi: 10.1177/11779322241248904. eCollection 2024.ABSTRACTA variety of active chemicals found in medicinal plants can be used to develop new medications with few adverse effects. In vitro and in silico analyses were used to evaluate the anticancer properties of Juniperus procera fruit and leaf extracts. Here, we show that the methanolic extract from J procera fruit and leaf extracts inhibits 2 human ovarian cancer cell lines, A2780CP and SKOV-3. The leaf extract demonstrated strong cytotoxicity against A2780CP with an IC50 of 1.2 μg/mL, almost matching the IC50 of ...
Source: Bioinformatics and Biology Insights - April 29, 2024 Category: Bioinformatics Authors: Ateeq A Al-Zahrani Source Type: research
Selenoprotein W engages in overactive osteoclast differentiation in multiple myeloma
CONCLUSION: Our findings suggest a possibility that feedforward signaling of osteoclastogenic SELENOW by TNFα derived from multiple myeloma induces overactive osteoclast differentiation, leading to bone loss during multiple myeloma.PMID:38683225 | PMC:PMC11058866 | DOI:10.1007/s11033-024-09517-2 (Source: Molecular Biology Reports)
Source: Molecular Biology Reports - April 29, 2024 Category: Molecular Biology Authors: Hyunsoo Kim Jiin Oh Min Kyoung Kim Kyung Hee Lee Daewon Jeong Source Type: research
Comparative evaluation of hesperetin-loaded graphene oxide nanosheets (Hsp-GO) as a drug delivery system for colon cancer: synthesis and anticancer efficiency assessment
CONCLUSIONS: These study highlight the potential of Hsp-GO as a promising anti-cancer nano-drug for colon cancer therapy.PMID:38683228 | DOI:10.1007/s11033-024-09504-7 (Source: Molecular Biology Reports)
Source: Molecular Biology Reports - April 29, 2024 Category: Molecular Biology Authors: Arezou Sabbagh Hadi Mehdi Haghi Abolfazl Barzegar Mohammad Ali Hosseinpour Feizi Source Type: research
Applicability of SCoT markers in unraveling genetic variation and population structure among sugar beet (Beta vulgaris L.) germplasm
CONCLUSION: The utilization of SCoT markers unveiled a noteworthy degree of genetic variation within the sugar beet germplasm in this study. These findings can be used in future breeding programs with the objective of enhancing both sugar beet yield and quality.PMID:38683231 | DOI:10.1007/s11033-024-09526-1 (Source: Molecular Biology Reports)
Source: Molecular Biology Reports - April 29, 2024 Category: Molecular Biology Authors: Nazl ı Aybar Yalinkiliç Sema Ba şbağ Muhammad Tanveer Altaf Amjad Ali Muhammad Azhar Nadeem Faheem Shehzad Baloch Source Type: research
Investigation of sperm hsa-mir-145-5p and MLH1 expressions, seminal oxidative stress and sperm DNA fragmentation in varicocele
CONCLUSION: This is the first study investigating the expressions of sperm miR-145 and MLH1 in varicocele patients. Further studies are needed to clarify the potential effect of miR-145 on male fertility.PMID:38683237 | DOI:10.1007/s11033-024-09534-1 (Source: Molecular Biology Reports)
Source: Molecular Biology Reports - April 29, 2024 Category: Molecular Biology Authors: Neslihan Hekim Sezgin Gunes Sercan Ergun Elzem Nisa Barhan Ramazan Asci Source Type: research
Two case reports of a novel missense mutation in the PNPLA6 gene in two siblings with chorioretinal dystrophy, hypogonadotropic hypogonadism, and cerebellar ataxia
CONCLUSIONS: This highlights the importance of considering rare inherited causes of visual loss, spinocerebellar ataxia, or/and HH in a neurology clinic and the significant role of genetic sequencing in the diagnostic process.PMID:38683245 | DOI:10.1007/s11033-024-09515-4 (Source: Molecular Biology Reports)
Source: Molecular Biology Reports - April 29, 2024 Category: Molecular Biology Authors: Andreas Liampas Paschalis Nicolaou Christina Votsi Anthi Georghiou Kyproula Christodoulou George A Tanteles Marios Pantzaris Source Type: research
Interplay between α-synuclein and parkin genes: Insights of Parkinson's disease
Mol Biol Rep. 2024 Apr 29;51(1):586. doi: 10.1007/s11033-024-09520-7.ABSTRACTParkinson's disease (PD) is a complex and debilitating neurodegenerative disorder characterized by the progressive loss of dopaminergic neurons in the substantia nigra. The pathogenesis of PD is intimately linked to the roles of two key molecular players, α-synuclein (α-syn) and Parkin. Understanding the intricate interplay between α-syn and Parkin is essential for unravelling the molecular underpinnings of PD. Their roles in synaptic function and protein quality control underscore their significance in neuronal health. Dysregulation of these p...
Source: Molecular Biology Reports - April 29, 2024 Category: Molecular Biology Authors: Kajal Sharma Shivani Chib Aniket Gupta Randhir Singh Rishabh Chalotra Source Type: research
Insights into metastatic roadmap of head and neck cancer squamous cell carcinoma based on clinical, histopathological and molecular profiles
Mol Biol Rep. 2024 Apr 29;51(1):597. doi: 10.1007/s11033-024-09476-8.ABSTRACTThe incidence of head and neck cancer (HNC), constituting approximately one in ten cancer cases worldwide, affects approximately 644,000 individuals annually. Managing this complex disease involves various treatment modalities such as systemic therapy, radiation, and surgery, particularly for patients with locally advanced disease. HNC treatment necessitates a multidisciplinary approach due to alterations in patients' genomes affecting their functionality. Predominantly, squamous cell carcinomas (SCCs), the majority of HNCs, arise from the upper a...
Source: Molecular Biology Reports - April 29, 2024 Category: Molecular Biology Authors: Nicholas S Mastronikolis Alexander Delides Efthymios Kyrodimos Zoi Piperigkou Despoina Spyropoulou Evangelos Giotakis Evangelos Tsiambas Nikos K Karamanos Source Type: research
Profile of metacaspase gene expression in Plasmodium vivax field isolates from the Brazilian Amazon
CONCLUSION: The detection of metacaspases in P. vivax blood-stage parasites reported herein, allows the inclusion of these proteases as a potential candidate drug target for vivax malaria, while further investigations are still required to evaluate the activity, role and essentiality of metacaspases in P. vivax biology.PMID:38683374 | PMC:PMC11058907 | DOI:10.1007/s11033-024-09538-x (Source: Molecular Biology Reports)
Source: Molecular Biology Reports - April 29, 2024 Category: Molecular Biology Authors: Carolina Moreira Blanco Hugo Amorim Dos Santos de Souza Priscilla da Costa Martins Camila Fabbri Fernanda Souza de Souza Josu é da Costa Lima-Junior Stefanie Costa Pinto Lopes Lilian Rose Pratt-Riccio Cl áudio Tadeu Daniel-Ribeiro Paulo Renato Rivas Tot Source Type: research
Cytotoxic and apoptotic effects of Ferula gummosa Boiss: extract on human breast adenocarcinoma cell line
CONCLUSION: F. gummosa exhibited pro-apoptotic, anti-proliferative, and anti-metastatic effects on MCF-7 cells. It is therefore recommended that detailed future research be done on different parts of the plant or its secondary metabolites to find anti-cancer lead compounds.PMID:38683376 | DOI:10.1007/s11033-024-09364-1 (Source: Molecular Biology Reports)
Source: Molecular Biology Reports - April 29, 2024 Category: Molecular Biology Authors: Roghayeh Rashidi Ali Roohbakhsh Leila Mohtashami Leila Mobasheri Hamidreza Kheradmand Mohammad Sadegh Amiri Ahmad Ghorbani Seyed Hadi Mousavi Source Type: research
Safranal exerts a neuroprotective effect on Parkinson's disease with suppression of NLRP3 inflammation activation
CONCLUSIONS: Safranal played a neuroprotective effect on the Parkinson's disease and its mechanism was related to the inhibition of NLRP3 inflammasome activation.PMID:38683404 | PMC:PMC11059006 | DOI:10.1007/s11033-024-09537-y (Source: Molecular Biology Reports)
Source: Molecular Biology Reports - April 29, 2024 Category: Molecular Biology Authors: Wenping Yang Yongyue Wei Jin Sun Caixia Yao Fen Ai Haixia Ding Source Type: research
The 5' untranslated region variant rs3811050 C/T of the interleukin-38 encoding gene is associated with susceptibility to rheumatoid arthritis in Iraqi women
CONCLUSIONS: The rs3811050 variant was more likely to affect RA susceptibility in Iraqi women, and the T allele may play a role in reducing disease risk. IL-38 concentrations were elevated in RA patients, but were not affected by the rs3811050 and rs3811051 genotypes.PMID:38683405 | DOI:10.1007/s11033-024-09529-y (Source: Molecular Biology Reports)
Source: Molecular Biology Reports - April 29, 2024 Category: Molecular Biology Authors: Dhuha F N Bani-Wais Ali H Ad'hiah Source Type: research
