keyword
https://read.qxmd.com/read/38482416/construction-and-validation-of-a-joint-diagnosis-model-based-on-random-forest-and-artificial-intelligence-network-for-hepatitis-b-related-hepatocellular-carcinoma
#1
JOURNAL ARTICLE
Xili Jiang, Jiyun Hu, Shucai Xie
BACKGROUND: Hepatitis B virus (HBV) is the dominant pathogenic factor of hepatocellular carcinoma (HCC) in Asia and Africa. Early identification and clinical diagnosis are crucial for HBV-related HCC. Random forest (RF) and artificial neural network (ANN) were an innovative and highly effective supervised machine learning (ML) algorithm for the early diagnosis and screening of HBV-related HCC. This study aims to identify significant biomarkers and develop a novel genetic model for the efficient diagnosis of HBV-related HCC...
February 29, 2024: Translational Cancer Research
https://read.qxmd.com/read/38481894/poor-prognosis-in-low-grade-endometrial-stromal-sarcoma-with-cyclin-dependent-kinase-inhibitor-2a-homozygous-deletion-a-case-study
#2
Atsushi Mori, Kyosuke Kamijo, Megumi Sano, Tsutomu Muramoto, Yaeko Kobayashi
Low-grade endometrial stromal sarcoma (LGESS) typically has a favorable prognosis. Hormone therapy is considered the first choice of treatment for recurrent LGESS. In this report, we describe a case of recurrent LGESS where hormone therapy was ineffective, chemotherapy showed a partial response (PR), and pazopanib resulted in stable disease (SD). A 50-year-old patient with LGESS underwent a simple total hysterectomy and bilateral adnexectomy (pT1aN0M0, stage IA). Five years later, pelvic tumors and ascites were observed...
February 2024: Curēus
https://read.qxmd.com/read/38481096/primary-cutaneous-nut-carcinoma-with-brd4-nutm1-fusion
#3
Ahmed Shah, Adrian Box, Thomas Brenn, Ashley Flaman
Nuclear protein in testis (NUT) carcinoma, molecularly defined by the NUTM1 gene rearrangement, is most commonly reported in young adults in the sinonasal tract, nasopharynx, or thorax. At these sites, NUT carcinoma is an extremely aggressive malignancy with dismal prognosis. Recently, five cases of primary cutaneous NUT adnexal carcinoma have been reported with BRD3 and NSD3 fusion partners. Although NUT adnexal carcinomas are shown to have metastatic potential, they may behave less aggressively than extracutaneous NUT carcinomas...
March 13, 2024: Journal of Cutaneous Pathology
https://read.qxmd.com/read/38474183/cgcfem1-is-required-for-the-full-virulence-of-colletotrichum-gloeosporioides
#4
JOURNAL ARTICLE
Liping Feng, Meixia Dong, Zhirui Huang, Qian Wang, Bang An, Chaozu He, Qiannan Wang, Hongli Luo
Colletotrichum gloeosporioides is widely distributed and causes anthracnose on many crops, resulting in serious economic losses. Common fungal extracellular membrane (CFEM) domain proteins have been implicated in virulence and their interaction with the host plant, but their roles in C. gloeosporioides are still unknown. In this study, a CFEM-containing protein of C. gloeosporioides was identified and named as CgCFEM1. The expression levels of CgCFEM1 were found to be markedly higher in appressoria, and this elevated expression was particularly pronounced during the initial stages of infection in the rubber tree...
March 2, 2024: International Journal of Molecular Sciences
https://read.qxmd.com/read/38473870/adult-neurogenesis-of-the-medial-geniculate-body-in-vitro-and-molecular-genetic-analyses-reflect-the-neural-stem-cell-capacity-of-the-rat-auditory-thalamus-over-time
#5
JOURNAL ARTICLE
Jonas Engert, Bjoern Spahn, Sabine Sommerer, Totta Ehret Kasemo, Stephan Hackenberg, Kristen Rak, Johannes Voelker
Neural stem cells (NSCs) have been recently identified in the neonatal rat medial geniculate body (MGB). NSCs are characterized by three cardinal features: mitotic self-renewal, formation of progenitors, and differentiation into all neuroectodermal cell lineages. NSCs and the molecular factors affecting them are particularly interesting, as they present a potential target for treating neurologically based hearing disorders. It is unclear whether an NSC niche exists in the rat MGB up to the adult stage and which neurogenic factors are essential during maturation...
February 23, 2024: International Journal of Molecular Sciences
https://read.qxmd.com/read/38469150/the-pcm-scaffold-enables-rna-localization-to-centrosomes
#6
Junnan Fang, Weiyi Tian, Melissa A Quintanilla, Jordan R Beach, Dorothy A Lerit
As microtubule-organizing centers, centrosomes direct assembly of the bipolar mitotic spindle required for chromosome segregation and genome stability. Centrosome activity requires the dynamic assembly of pericentriolar material (PCM), the composition and organization of which changes throughout the cell cycle. Recent studies highlight the conserved localization of several mRNAs encoded from centrosome-associated genes enriched at centrosomes, including Pericentrin-like protein ( Plp ) mRNA. However, relatively little is known about how RNAs localize to centrosomes and influence centrosome function...
January 14, 2024: bioRxiv
https://read.qxmd.com/read/38467619/the-pancancer-overexpressed-nfyc-antisense-1-controls-cell-cycle-mitotic-progression-through-in-cis-and-in-trans-modes-of-action
#7
JOURNAL ARTICLE
Cecilia Pandini, Giulia Pagani, Martina Tassinari, Emanuele Vitale, Eugenia Bezzecchi, Mona Kamal Saadeldin, Valentina Doldi, Giuliana Giannuzzi, Roberto Mantovani, Matteo Chiara, Alessia Ciarrocchi, Paolo Gandellini
Antisense RNAs (asRNAs) represent an underappreciated yet crucial layer of gene expression regulation. Generally thought to modulate their sense genes in cis through sequence complementarity or their act of transcription, asRNAs can also regulate different molecular targets in trans, in the nucleus or in the cytoplasm. Here, we performed an in-depth molecular characterization of NFYC Antisense 1 (NFYC-AS1), the asRNA transcribed head-to-head to NFYC subunit of the proliferation-associated NF-Y transcription factor...
March 11, 2024: Cell Death & Disease
https://read.qxmd.com/read/38466053/comprehensive-analysis-indicated-that-nde1-is-a-potential-biomarker-for-pan-cancer-and-promotes-bladder-cancer-progression
#8
JOURNAL ARTICLE
Peihan Wang, Jinzhuo Ning, Wu Chen, Fan Zou, Weimin Yu, Ting Rao, Fan Cheng
BACKGROUND: The nuclear distribution E homologue 1 (NDE1) is a crucial dynein binding partner. The NDE1 protein has the potential to disrupt the normal functioning of centrosomes, leading to a compromised ability to generate spindles and ensure precise separation of chromosomes during cell division. The potential consequences of this phenomenon include genomic instability, malignant transformation and the proliferation of neoplastic growths. However, studies examining the connection between NDE1 and cancer is still very rare...
March 2024: Cancer Medicine
https://read.qxmd.com/read/38465220/cytokinin-signaling-promotes-root-secondary-growth-and-bud-formation-in-panax-ginseng
#9
JOURNAL ARTICLE
Kyoung Rok Geem, Yookyung Lim, Jeongeui Hong, Wonsil Bae, Jinsu Lee, Soeun Han, Jinsu Gil, Hyunwoo Cho, Hojin Ryu
BACKGROUND: Panax ginseng , one of the valuable perennial medicinal plants, stores numerous pharmacological substrates in its storage roots. Given its perennial growth habit, organ regeneration occurs each year, and cambium stem cell activity is necessary for secondary growth and storage root formation. Cytokinin (CK) is a phytohormone involved in the maintenance of meristematic cells for the development of storage organs; however, its physiological role in storage-root secondary growth remains unknown...
March 2024: Journal of Ginseng Research
https://read.qxmd.com/read/38464517/key-candidate-genes-and-pathways-in-t-lymphoblastic-leukemia-lymphoma-identified-by-bioinformatics-and-serological-analyses
#10
JOURNAL ARTICLE
Yansong Ren, Haoyue Liang, Yali Huang, Yuyang Miao, Ruihua Li, Junlian Qiang, Lihong Wu, Jinfeng Qi, Ying Li, Yonghui Xia, Lunhui Huang, Shoulei Wang, Xiaodong Kong, Yuan Zhou, Qiang Zhang, Guoqing Zhu
T-cell acute lymphoblastic leukemia (T - ALL)/T-cell lymphoblastic lymphoma (T-LBL) is an uncommon but highly aggressive hematological malignancy. It has high recurrence and mortality rates and is challenging to treat. This study conducted bioinformatics analyses, compared genetic expression profiles of healthy controls with patients having T-ALL/T-LBL, and verified the results through serological indicators. Data were acquired from the GSE48558 dataset from Gene Expression Omnibus (GEO). T-ALL patients and normal T cells-related differentially expressed genes (DEGs) were investigated using the online analysis tool GEO2R in GEO, identifying 78 upregulated and 130 downregulated genes...
2024: Frontiers in Immunology
https://read.qxmd.com/read/38464252/lysine-demethylase-4a-is-a-centrosome-associated-protein-required-for-centrosome-integrity-and-genomic-stability
#11
Pratim Chowdhury, Xiaoli Wang, Julia F Love, Sofia Vargas-Hernandez, Yuya Nakatani, Sandra L Grimm, Dereck Mezquita, Frank M Mason, Elisabeth D Martinez, Cristian Coarfa, Cheryl L Walker, Anna-Karin Gustavsson, Ruhee Dere
Centrosomes play a fundamental role in nucleating and organizing microtubules in the cell and are vital for faithful chromosome segregation and maintenance of genomic stability. Loss of structural or functional integrity of centrosomes causes genomic instability and is a driver of oncogenesis. The lysine demethylase 4A (KDM4A) is an epigenetic 'eraser' of chromatin methyl marks, which we show also localizes to the centrosome with single molecule resolution. We additionally discovered KDM4A demethylase enzymatic activity is required to maintain centrosome homeostasis, and is required for centrosome integrity, a new functionality unlinked to altered expression of genes regulating centrosome number...
February 21, 2024: bioRxiv
https://read.qxmd.com/read/38463966/a-multi-looping-chromatin-signature-predicts-dysregulated-gene-expression-in-neurons-with-familial-alzheimer-s-disease-mutations
#12
Harshini Chandrashekar, Zoltan Simandi, Heesun Choi, Han-Seul Ryu, Abraham J Waldman, Alexandria Nikish, Srikar S Muppidi, Wanfeng Gong, Dominik Paquet, Jennifer E Phillips-Cremins
Mammalian genomes fold into tens of thousands of long-range loops, but their functional role and physiologic relevance remain poorly understood. Here, using human post-mitotic neurons with rare familial Alzheimer's disease (FAD) mutations, we identify hundreds of reproducibly dysregulated genes and thousands of miswired loops prior to amyloid accumulation and tau phosphorylation. Single loops do not predict expression changes; however, the severity and direction of change in mRNA levels and single-cell burst frequency strongly correlate with the number of FAD-gained or -lost promoter-enhancer loops...
February 27, 2024: bioRxiv
https://read.qxmd.com/read/38462164/o-glcnacylation-stimulates-the-deubiquitination-activity-of-usp16-and-regulates-cell-cycle-progression
#13
JOURNAL ARTICLE
Jianxin Zhao, Jie Hua, Yahui Zhan, Chunxu Chen, Yue Liu, Liqian Yang, Haiying Wang, Hengbin Wang, Jing Li
Histone 2A monoubiquitination (uH2A) underscores a key epigenetic regulation of gene expression. In this report, we show that the deubiquitinase (DUB) for uH2A, Ubiquitin Specific Peptidase 16 (USP16), is modified by O-linked N-acetylglucosamine (O-GlcNAc). O-GlcNAcylation involves the installation of the O-GlcNAc moiety to Ser/Thr residues. It crosstalks with Ser/Thr phosphorylation, affects protein-protein interaction, alters enzyme activity or protein folding, and changes protein subcellular localization...
March 8, 2024: Journal of Biological Chemistry
https://read.qxmd.com/read/38461424/investigating-the-mechanisms-of-drug-resistance-and-prognosis-in-ovarian-cancer-using-single-cell-rna-sequencing-and-bulk-rna-sequencing
#14
JOURNAL ARTICLE
Pengfei Liu, Jinbao Liu, Jinxing Liu, Xiao Yu
Ovarian cancer stands as a prevalent malignancy within the realm of gynecology, and the emergence of resistance to chemotherapeutic agents remains a pivotal impediment to both prognosis and treatment. Through a single-cell level investigation, we scrutinize the drug resistance and mitotic activity of the core tumor cells in ovarian cancer. Our study revisits the interrelationships and temporal trajectories of distinct epithelial cells (EPCs) subpopulations, while identifying genes associated with ovarian cancer prognosis...
March 8, 2024: Aging
https://read.qxmd.com/read/38460673/intra-abdominal-epithelioid-neoplasm-with-ewsr1-creb-fusions-involving-the-kidney-a-clinicopathologic-and-molecular-characterization-with-an-emphasis-on-differential-diagnosis
#15
JOURNAL ARTICLE
Ming Zhao, Hualei Gan, Shan Zhong, Qiuyan Xia, Yanfeng Bai, Jiayun Xu, Xiaodong Teng, Jian Wang
Soft tissue neoplasms harboring fusions between EWSR1 or FUS with genes encoding CREB transcription factors family (ATF1, CREB1, and CREM) are an emerging heterogeneous group of mesenchymal tumors that differ significantly in morphology, immunophenotypes, and behavior. Recently, EWSR1/FUS::CREB fusions have been recognized to define a group of aggressive neoplasms of epithelioid morphology with multiple growth patterns and a striking predilection for mesothelial-lined cavities. These neoplasms presenting as a primary neoplasm of intra-abdominal visceral organs is rare, which could elicit a wide range of differential diagnoses due to their diverse morphologies and immunohistochemical profiles...
March 7, 2024: Modern Pathology
https://read.qxmd.com/read/38452915/mobile-phone-specific-radiation-disturbs-cytokinesis-and-causes-cell-death-but-not-acute-chromosomal-damage-in-buccal-cells-results-of-a-controlled-human-intervention-study
#16
JOURNAL ARTICLE
Michael Kundi, Armen Nersesyan, Gernot Schmid, Hans-Peter Hutter, Florian Eibensteiner, Miroslav Mišík, Siegfried Knasmüller
Several human studies indicate that mobile phone specific electromagnetic fields may cause cancer in humans but the underlying molecular mechanisms are currently not known. Studies concerning chromosomal damage (which is causally related to cancer induction) are controversial and are based on the use of questionnaires to assess the exposure. We realized the first human intervention trial in which chromosomal damage and acute toxic effects were studied under controlled conditions. The participants were exposed via headsets at one randomly assigned side of the head to low and high doses of a UMTS signal (n = 20, to 0...
March 5, 2024: Environmental Research
https://read.qxmd.com/read/38449737/ezh2-inhibition-reactivates-epigenetically-silenced-fmr1-and-normalizes-molecular-and-electrophysiological-abnormalities-in-fragile-x-syndrome-neurons
#17
JOURNAL ARTICLE
Minggang Fang, Sara K Deibler, Pranathi Meda Krishnamurthy, Feng Wang, Paola Rodriguez, Shahid Banday, Ching-Man Virbasius, Miguel Sena-Esteves, Jonathan K Watts, Michael R Green
Fragile X Syndrome (FXS) is a neurological disorder caused by epigenetic silencing of the FMR1 gene. Reactivation of FMR1 is a potential therapeutic approach for FXS that would correct the root cause of the disease. Here, using a candidate-based shRNA screen, we identify nine epigenetic repressors that promote silencing of FMR1 in FXS cells (called FMR1 Silencing Factors, or FMR1 - SFs). Inhibition of FMR1 -SFs with shRNAs or small molecules reactivates FMR1 in cultured undifferentiated induced pluripotent stem cells, neural progenitor cells (NPCs) and post-mitotic neurons derived from FXS patients...
2024: Frontiers in Neuroscience
https://read.qxmd.com/read/38446663/rnap-ii-antagonizes-mitotic-chromatin-folding-and-chromosome-segregation-by-condensin
#18
JOURNAL ARTICLE
Jérémy Lebreton, Léonard Colin, Elodie Chatre, Pascal Bernard
Condensin shapes mitotic chromosomes by folding chromatin into loops, but whether it does so by DNA-loop extrusion remains speculative. Although loop-extruding cohesin is stalled by transcription, the impact of transcription on condensin, which is enriched at highly expressed genes in many species, remains unclear. Using degrons of Rpb1 or the torpedo nuclease Dhp1XRN2 to either deplete or displace RNAPII on chromatin in fission yeast metaphase cells, we show that RNAPII does not load condensin on DNA. Instead, RNAPII retains condensin in cis and hinders its ability to fold mitotic chromatin and to support chromosome segregation, consistent with the stalling of a loop extruder...
March 5, 2024: Cell Reports
https://read.qxmd.com/read/38442839/bee-venom-genotoxicity-on-saccharomyces-cerevisiae-cells-the-role-of-mitochondria-and-yap1-transcription-factor
#19
JOURNAL ARTICLE
Teodora Todorova, Krassimir Boyadzhiev, Martin Dimitrov, Petya Parvanova
The present work aims to clarify the genotype differences of a model organism Saccharomyces cerevisiae in response to bee venom. The study evaluated various endpoints including cell survival, induction of physiologically active superoxide anions, mitotic gene conversion, mitotic crossing-over, reverse mutations, DNA double-strand breaks, and Ty1 retrotransposition. The role of the intact mitochondria and the YAP1 transcription factor was also evaluated. Our results indicate a genotype-specific response. The first experimental evidence has been provided that bee venom induces physiologically active superoxide anions and DNA double-strand breaks in S...
March 3, 2024: Toxicology
https://read.qxmd.com/read/38441556/lack-of-ccdc146-a-ubiquitous-centriole-and-microtubule-associated-protein-leads-to-non-syndromic-male-infertility-in-human-and-mouse
#20
JOURNAL ARTICLE
Jana Muroňová, Zine Eddine Kherraf, Elsa Giordani, Emeline Lambert, Simon Eckert, Caroline Cazin, Amir Amiri-Yekta, Magali Court, Geneviève Chevalier, Guillaume Martinez, Yasmine Neirijnck, Francoise Kühne, Lydia Wehrli, Nikolai Klena, Virginie Hamel, Lisa De Macedo, Jessica Escoffier, Paul Guichard, Charles Coutton, Selima Fourati Ben Mustapha, Mahmoud Kharouf, Anne-Pacale Bouin, Raoudha Zouari, Nicolas Thierry-Mieg, Serge Nef, Stefan Geimer, Corinne Loeuillet, Pierre F Ray, Christophe Arnoult
From a cohort of 167 infertile patients suffering from multiple morphological abnormalities of the flagellum (MMAF), pathogenic bi-allelic mutations were identified in the CCDC146 gene. In somatic cells, CCDC146 is located at the centrosome and at multiple microtubule-related organelles during mitotic division, suggesting that it is a microtubule-associated protein (MAP). To decipher the molecular pathogenesis of infertility associated with CCDC146 mutations, a Ccdc146 knock-out (KO) mouse line was created...
March 5, 2024: ELife
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