keyword
https://read.qxmd.com/read/38443680/tirna-val-cac-2-interacts-with-fubp1-to-promote-pancreatic-cancer-metastasis-by-activating-c%C3%A2-myc-transcription
#1
JOURNAL ARTICLE
Qunli Xiong, Yaguang Zhang, Yongfeng Xu, Yang Yang, Zhiwei Zhang, Ying Zhou, Su Zhang, Lian Zhou, Xiaowen Wan, Xiaojuan Yang, Zhu Zeng, Jinlu Liu, Ying Zheng, Junhong Han, Qing Zhu
Cumulative studies have established the significance of transfer RNA-derived small RNA (tsRNA) in tumorigenesis and progression. Nevertheless, its function and mechanism in pancreatic cancer metastasis remain largely unclear. Here, we screened and identified tiRNA-Val-CAC-2 as highly expressed in pancreatic cancer metastasis samples by tsRNA sequencing. We also observed elevated levels of tiRNA-Val-CAC-2 in the serum of pancreatic cancer patients who developed metastasis, and patients with high levels of tiRNA-Val-CAC-2 exhibited a worse prognosis...
March 5, 2024: Oncogene
https://read.qxmd.com/read/38233848/usp29-activation-mediated-by-fubp1-promotes-aurkb-stability-and-oncogenic-functions-in-gastric-cancer
#2
JOURNAL ARTICLE
Rongfu Tu, Ye Kang, Yiwen Pan, Yanyan Da, Doudou Ren, Ru Zhang, Zeqiong Cai, Yijia Liu, Jiao Xu, Junpeng Ma, Zhiyong Zhou, Shupeng Yin, Xiaozhuang Li, Peng Zhang, Qi Zhang, Jingchao Wang, Xinlan Lu, Chengsheng Zhang
BACKGROUND: Gastric cancer is a highly prevalent cancer type and the underlying molecular mechanisms are not fully understood. Ubiquitin-specific peptidase (USP) 29 has been suggested to regulate cell fate in several types of cancer, but its potential role in gastric carcinogenesis remains unclear. METHODS: The expression of USP29 in normal and gastric cancer tissues was analyzed by bioinformatics analysis, immunohistochemistry and immunoblot. Gene overexpression, CRISPR-Cas9 technology, RNAi, and Usp29 knockout mice were used to investigate the roles of USP29 in cell culture, xenograft, and benzo[a]pyrene (BaP)-induced gastric carcinogenesis models...
January 17, 2024: Cancer Cell International
https://read.qxmd.com/read/38215789/identifying-bmi-associated-genes-via-a-genome-wide-multi-omics-integrative-approach-using-summary-data
#3
JOURNAL ARTICLE
Jingxian Tang, Hanfei Xu, Zihao Xin, Quanshun Mei, Musong Gao, Tiantian Yang, Xiaoyu Zhang, Daniel Levy, Ching-Ti Liu
OBJECTIVE: This study aims to identify BMI-associated genes by integrating aggregated summary information from different omics data. METHODS: We conducted a meta-analysis to leverage information from a genome-wide association study (n = 339 224), a transcriptome-wide association study (n = 5619), and an epigenome-wide association study (n = 3743). We prioritized the significant genes with a machine learning-based method, netWAS, which borrows information from adipose tissue-specific interaction networks...
January 12, 2024: Human Molecular Genetics
https://read.qxmd.com/read/38139171/the-link-of-mrna-and-rrna-transcription-by-puf60-fir-through-tfiih-p62-as-a-novel-therapeutic-target-for-cancer
#4
JOURNAL ARTICLE
Kouichi Kitamura, Tyuji Hoshino, Atsushi Okabe, Masaki Fukuyo, Bahityar Rahmutulla, Nobuko Tanaka, Sohei Kobayashi, Tomoaki Tanaka, Takashi Shida, Mashiro Ueda, Toshinari Minamoto, Hisahiro Matsubara, Atsushi Kaneda, Hideshi Ishii, Kazuyuki Matsushita
The interaction between mRNA and ribosomal RNA (rRNA) transcription in cancer remains unclear. RNAP I and II possess a common N-terminal tail (NTT), RNA polymerase subunit RPB6, which interacts with P62 of transcription factor (TF) IIH, and is a common target for the link between mRNA and rRNA transcription. The mRNAs and rRNAs affected by FUBP1-interacting repressor (FIR) were assessed via RNA sequencing and qRT-PCR analysis. An FIR, a c-myc transcriptional repressor, and its splicing form FIRΔexon2 were examined to interact with P62...
December 11, 2023: International Journal of Molecular Sciences
https://read.qxmd.com/read/37978227/correction-mir-16-mediates-trastuzumab-and-lapatinib-response-in-erbb-2-positive-breast-and-gastric-cancer-via-its-novel-targets-ccnj-and-fubp1
#5
L Venturutti, R I Cordo Russo, M A Rivas, M F Mercogliano, F Izzo, R H Oakley, M G Pereyra, M De Martino, C J Proietti, P Yankilevich, J C Roa, P Guzmán, E Cortese, D H Allemand, T H Huang, E H Charreau, J A Cidlowski, R Schillaci, P V Elizalde
No abstract text is available yet for this article.
November 17, 2023: Oncogene
https://read.qxmd.com/read/37932299/integration-of-risk-variants-from-gwas-with-sars-cov-2-rna-interactome-prioritizes-fubp1-and-rab2a-as-risk-genes-for-covid-19
#6
JOURNAL ARTICLE
Weiwen Shi, Mengke Chen, Tingting Pan, Mengjie Chen, Yongjun Cheng, Yimei Hao, Sheng Chen, Yuanjia Tang
The role of host genetic factors in COVID-19 outcomes remains unclear despite various genome-wide association studies (GWAS). We annotate all significant variants and those variants in high LD (R2 > 0.8) from the COVID-19 host genetics initiative (HGI) and identify risk genes by recognizing genes intolerant nonsynonymous mutations in coding regions and genes associated with cis-expression quantitative trait loci (cis-eQTL) in non-coding regions. These genes are enriched in the immune response pathway and viral life cycle...
November 6, 2023: Scientific Reports
https://read.qxmd.com/read/37910256/circulating-autoantibodies-to-alpha-enolase-eno1-and-far-upstream-element-binding-protein-1-fubp1-are-negative-prognostic-factors-for-pancreatic-cancer-patient-survival
#7
JOURNAL ARTICLE
Claudia Curcio, Tiziana Rosso, Silvia Brugiapaglia, Giorgia Guadagnin, Daniele Giordano, Bruno Castellino, Maria Antonietta Satolli, Rosella Spadi, Donata Campra, Francesco Moro, Mauro Giulio Papotti, Luca Bertero, Paola Cassoni, Claudio De Angelis, Serena Langella, Alessandro Ferrero, Serena Armentano, Giovanna Bellotti, Elisabetta Fenocchio, Annamaria Nuzzo, Giovannino Ciccone, Francesco Novelli
Pancreatic ductal adenocarcinoma (PDA) has a dismal prognosis due to a lack of early diagnostic markers and effective therapy. In PDA patients, the glycolytic enzyme and plasminogen receptor alpha-enolase (ENO1) and the transcription factor far upstream element-binding protein 1 (FUBP1) are upregulated and elicit the production of autoantibodies (aAb) that discriminate healthy subjects from PDA patients, with the latter mostly directed to post-translational phosphorylated isoforms. Here, the correlation of prognosis with circulating ENO1 and FUBP1aAb, and their protein tissue expression was analyzed in PDA patients...
November 1, 2023: Clinical and Experimental Medicine
https://read.qxmd.com/read/37715422/the-expression-and-clinical-value-of-lrp11-fubp1-and-tet1-in-cervical-cancer
#8
JOURNAL ARTICLE
Xiaojie Zhao, Suhua Li, Jiexin Wen, Yawei Li
Cervical cancer is the second leading cause of cancer death among women worldwide. Identification of effective genes along with biological markers as targeting agents is very necessary for the diagnosis and treatment of this disease. Bioinformatics techniques along with genetic and molecular investigations have provided the possibility of studying different levels of information such as the genome, transcriptome, proteome, and metabolize with high depth and accuracy. The collection of these data provides comprehensive and valuable information about the investigated phenotypes, including complex diseases such as cancer...
July 31, 2023: Cellular and Molecular Biology
https://read.qxmd.com/read/37637163/icariin-activates-far-upstream-element-binding-protein-1-to-regulate-hypoxia-inducible-factor-1%C3%AE-and-hypoxia-inducible-factor-2%C3%AE-signaling-and-benefits-chondrocytes
#9
JOURNAL ARTICLE
Pengzhen Wang, Pingping Zhu, Shaoheng Zhang, Wei Yuan, Zhihe Liu
Icariin (ICA) is a typical flavonoid glycoside derived from epimedium plants. It has both anabolic and anti-catabolic effects to improve bone mineral density and reduce bone microstructural degradation. However, the effect and underlying mechanism of ICA on the proliferation and metabolism of chondrocyte and synthesis of extracellular matrix are still unclear. This study aimed to investigate the role and regulation of far upstream element binding protein 1 (FUBP1) in chondrocytes treated with ICA to maintain homeostasis and suppress inflammatory responses...
2023: PeerJ
https://read.qxmd.com/read/37533228/genomic-alterations-of-oligodendrogliomas-at-distant-recurrence
#10
JOURNAL ARTICLE
Guanzheng Liu, Chaojie Bu, Guangzhong Guo, Zhiyue Zhang, Zhiyuan Sheng, Kaiyuan Deng, Shuang Wu, Sensen Xu, Yage Bu, Yushuai Gao, Meiyun Wang, Gang Liu, Lingfei Kong, Tianxiao Li, Ming Li, Xingyao Bu
BACKGROUND: Oligodendroglioma is known for its relatively better prognosis and responsiveness to radiotherapy and chemotherapy. However, little is known about the evolution of genetic changes as oligodendroglioma progresses. METHODS: In this study, we evaluated gene evolution invivo during tumor progression based on deep whole-genome sequencing data (ctDNA). We analyzed longitudinal genomic data from six patients during tumor evolution, of which five patients developed distant recurrence...
August 2023: Cancer Medicine
https://read.qxmd.com/read/37506698/fubp1-is-a-general-splicing-factor-facilitating-3-splice-site-recognition-and-splicing-of-long-introns
#11
JOURNAL ARTICLE
Stefanie Ebersberger, Clara Hipp, Miriam M Mulorz, Andreas Buchbender, Dalmira Hubrich, Hyun-Seo Kang, Santiago Martínez-Lumbreras, Panajot Kristofori, F X Reymond Sutandy, Lidia Llacsahuanga Allcca, Jonas Schönfeld, Cem Bakisoglu, Anke Busch, Heike Hänel, Kerstin Tretow, Mareen Welzel, Antonella Di Liddo, Martin M Möckel, Kathi Zarnack, Ingo Ebersberger, Stefan Legewie, Katja Luck, Michael Sattler, Julian König
Splicing of pre-mRNAs critically contributes to gene regulation and proteome expansion in eukaryotes, but our understanding of the recognition and pairing of splice sites during spliceosome assembly lacks detail. Here, we identify the multidomain RNA-binding protein FUBP1 as a key splicing factor that binds to a hitherto unknown cis-regulatory motif. By collecting NMR, structural, and in vivo interaction data, we demonstrate that FUBP1 stabilizes U2AF2 and SF1, key components at the 3' splice site, through multivalent binding interfaces located within its disordered regions...
August 3, 2023: Molecular Cell
https://read.qxmd.com/read/37253421/structural-insights-into-a-regulatory-mechanism-of-fir-rrm1-fuse-interaction
#12
JOURNAL ARTICLE
Xiaomin Ni, Andreas C Joerger, Apirat Chaikuad, Stefan Knapp
FUBP-interacting repressor (FIR) is a suppressor of transcription of the proto-oncogene MYC. FIR binds to the far upstream element (FUSE) of the MYC promoter. Competition of FIR with FUSE-binding protein 1 (FUBP1) is a key mechanism of MYC transcriptional regulation. To gain insights into the structural mechanisms regulating FIR DNA interaction, we determined the crystal structure of two FIR RRM domains (RRM1-2) with single-stranded FUSE DNA sequences. These structures revealed an ability of the RRM domain to recognize diverse FUSE regions through distinct intermolecular interactions and binding modes...
May 2023: Open Biology
https://read.qxmd.com/read/37217247/the-nr_109-fubp1-c-myc-axis-regulates-tam-polarization-and-remodels-the-tumor-microenvironment-to-promote-cancer-development
#13
JOURNAL ARTICLE
Cong Zhang, Sisi Wei, Suli Dai, Xiaoya Li, Huixia Wang, Hongtao Zhang, Guogui Sun, Baoen Shan, Lianmei Zhao
BACKGROUND: Tumor-associated macrophages (TAMs) are a major component of the tumor microenvironment (TME) and exert an important role in tumor progression. Due to the heterogeneity and plasticity of TAMs, modulating the polarization states of TAMs is considered as a potential therapeutic strategy for tumors. Long noncoding RNAs (lncRNAs) have been implicated in various physiological and pathological processes, yet the underlying mechanism on how lncRNAs manipulate the polarization states of TAMs is still unclear and remains to be further investigated...
May 2023: Journal for Immunotherapy of Cancer
https://read.qxmd.com/read/37185778/genomic-profiles-of-idh-mutant-gliomas-mycn-amplified-idh-mutant-astrocytoma-had-the-worst-prognosis
#14
JOURNAL ARTICLE
Kwanghoon Lee, Seong-Ik Kim, Eric Eunshik Kim, Yu-Mi Shim, Jae-Kyung Won, Chul-Kee Park, Seung Hong Choi, Hongseok Yun, Hyunju Lee, Sung-Hye Park
This study aimed to find any ambiguous genetic outlier for "oligodendroglioma, IDH-mutant and 1p/19q-codeleted (O_IDH_mut)" and "astrocytoma, IDH-mutant (A_IDH_mut)" and to redefine the genetic landscape and prognostic factors of IDH-mutant gliomas. Next-generation sequencing (NGS) using a brain tumor-targeted gene panel, methylation profiles, and clinicopathological features were analyzed for O_IDH_mut (n = 74) in 70 patients and for A_IDH_mut (n = 95) in 90 patients. 97...
April 25, 2023: Scientific Reports
https://read.qxmd.com/read/37180822/far-upstream-element-binding-protein-1-confers-lobaplatin-resistance-by-transcriptionally-activating-ptges-and-facilitating-the-arachidonic-acid-metabolic-pathway-in-osteosarcoma
#15
JOURNAL ARTICLE
Qiong Ma, Jin Sun, Huan Wang, Chengpei Zhou, Chenyu Li, Yonghong Wu, Yanhua Wen, Xiaoyu Zhang, Xingguang Ren, Zheng Guo, Li Gong, Wei Zhang
Drug resistance is a major obstacle in cancer treatment and recurrence prevention and leads to poor outcomes in patients suffering from osteosarcoma. Clarification of the mechanism of drug resistance and exploration of effective strategies to overcome this obstacle could lead to clinical benefits for these patients. The expression of far upstream element-binding protein 1 (FUBP1) was found to be markedly elevated in osteosarcoma cell lines and clinical specimens compared with osteoblast cells and normal bone specimens...
June 2023: MedComm
https://read.qxmd.com/read/36998447/clinical-updates-on-gliomas-and-implications-of-the-5th-edition-of-the-who-classification-of-central-nervous-system-tumors
#16
JOURNAL ARTICLE
Xiaopeng Guo, Yixin Shi, Delin Liu, Yilin Li, Wenlin Chen, Yaning Wang, Yuekun Wang, Hao Xing, Yu Xia, Junlin Li, Jiaming Wu, Tingyu Liang, Hai Wang, Qianshu Liu, Shanmu Jin, Tian Qu, Siying Guo, Huanzhang Li, Tianrui Yang, Kun Zhang, Yu Wang, Wenbin Ma
BACKGROUND: The 5th edition of the World Health Organization (WHO) classification of central nervous system tumors incorporated specific molecular alterations into the categorization of gliomas. The major revision of the classification scheme effectuates significant changes in the diagnosis and management of glioma. This study aimed to depict the clinical, molecular, and prognostic characteristics of glioma and its subtypes according to the current WHO classification. METHODS: Patients who underwent surgery for glioma at Peking Union Medical College Hospital during 11 years were re-examined for tumor genetic alterations using next-generation sequencing, polymerase chain reaction-based assay, and fluorescence in situ hybridization methods and enrolled in the analysis...
2023: Frontiers in Oncology
https://read.qxmd.com/read/36932454/circmmd-reduction-following-tumor-treating-fields-inhibits-glioblastoma-progression-through-fubp1-fir-dvl1-and-mir-15b-5p-fzd6-signaling
#17
JOURNAL ARTICLE
Shengchao Xu, Chengke Luo, Dikang Chen, Lu Tang, Quan Cheng, Ling Chen, Zhixiong Liu
BACKGROUND: Tumor treating fields (TTF) is the latest treatment for GBM. Circular RNA (circRNA) has been demonstrated to play critical roles in tumorigenesis. However, the molecular mechanism of TTF remained largely unknown and the role of circRNA in TTF was not reported. The aim of this study was to elucidate the role and mechanism of circMMD in TTF treatment of GBM. METHODS: Divergent primer was designed to verify the existence of circMMD in GBM cells. The prognostic role of circMMD was explored in glioma specimens...
March 17, 2023: Journal of Experimental & Clinical Cancer Research: CR
https://read.qxmd.com/read/36736696/lncrna-nipa1-so-confers-atherosclerotic-protection-by-suppressing-the-transmembrane-protein-nipa1
#18
JOURNAL ARTICLE
Min Jiang, Yu Song, Mei-Xia Ren, Run-Chao He, Xian-Hui Dong, Xue-Heng Li, Zhi-Feng Lu, Shu Li, Jia Wu, Yan-Rou Bei, Fei Liu, Yan Long, Shao-Guo Wu, Xue-Hui Liu, Li-Mei Wu, Hong-Ling Yang, David G McVey, Xiaoyan Dai, Shu Ye, Yan-Wei Hu
Long non-coding RNAs (lncRNAs) are emerging as important players in gene regulation and cardiovascular diseases. However, the roles of lncRNAs in atherosclerosis are poorly understood. In the present study, we found that the levels of NIPA1-SO were decreased while those of NIPA1 were increased in human atherosclerotic plaques. Furthermore, NIPA1-SO negatively regulated NIPA1 expression in human umbilical vein endothelial cells (HUVECs). Mechanistically, NIPA1-SO interacted with the transcription factor FUBP1 and the NIPA1 gene...
January 31, 2023: Journal of Advanced Research
https://read.qxmd.com/read/36692218/psi-promotes-drosophila-wing-growth-via-direct-transcriptional-activation-of-cell-cycle-targets-and-repression-of-growth-inhibitors
#19
JOURNAL ARTICLE
Olga Zaytseva, Naomi C Mitchell, Damien Muckle, Caroline Delandre, Zuqin Nie, Janis K Werner, John T Lis, Eduardo Eyras, Ross D Hannan, David L Levens, Owen J Marshall, Leonie M Quinn
The first characterised FUSE Binding Protein family member, FUBP1, binds single-stranded DNA to activate MYC transcription. Psi, the sole FUBP protein in Drosophila, binds RNA to regulate P-element and mRNA splicing. Our previous work revealed pro-growth functions for Psi, which depend, in part, on transcriptional activation of Myc. Genome-wide functions for FUBP family proteins in transcriptional control remain obscure. Here, through the first genome-wide binding and expression profiles obtained for a FUBP family protein, we demonstrate that, in addition to being required to activate Myc to promote cell growth, Psi also directly binds and activates stg to couple growth and cell division...
January 15, 2023: Development
https://read.qxmd.com/read/36499566/locus-specific-isolation-of-the-nanog-chromatin-identifies-regulators-relevant-to-pluripotency-of-mouse-embryonic-stem-cells-and-reprogramming-of-somatic-cells
#20
JOURNAL ARTICLE
Arun Kumar Burramsetty, Ken Nishimura, Takumi Kishimoto, Muhammad Hamzah, Akihiro Kuno, Aya Fukuda, Koji Hisatake
Pluripotency is a crucial feature of pluripotent stem cells, which are regulated by the core pluripotency network consisting of key transcription factors and signaling molecules. However, relatively less is known about the molecular mechanisms that modify the core pluripotency network. Here we used the CAPTURE (CRISPR Affinity Purification in situ of Regulatory Elements) to unbiasedly isolate proteins assembled on the Nanog promoter in mouse embryonic stem cells (mESCs), and then tested their functional relevance to the maintenance of mESCs and reprogramming of somatic cells...
December 3, 2022: International Journal of Molecular Sciences
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