An autophagy-related long non-coding RNA signature for glioma.

Abstract:

:Glioma is one of the most common types of malignant primary central nervous system tumor, and prognosis for this disease is poor. As autophagic drugs have been reported to induce glioma cell death, we investigated the potential prognostic role of autophagy-associated long non-coding RNA (lncRNA) in glioma patients. In this study, we obtained 879 lncRNAs and 216 autophagy genes from the Chinese Glioma Genome Atlas microarray, and found that 402 lncRNAs are correlated with the autophagy genes. Subsequently, 10 autophagy-associated lncRNAs with prognostic value (PCBP1-AS1, TP53TG1, DHRS4-AS1, ZNF674-AS1, GABPB1-AS1, DDX11-AS1, SBF2-AS1, MIR4453HG, MAPKAPK5-AS1 and COX10-AS1) were identified in glioma patients using multivariate Cox regression analyses. A prognostic signature was then established based on these prognostic lncRNAs, dividing patients into low-risk and high-risk groups. The overall survival time was shorter in the high-risk group than that in the low-risk group [hazard ratio (HR) = 5.307, 95% CI: 4.195-8.305; P < 0.0001]. Gene set enrichment analysis revealed that the gene sets were significantly enriched in cancer-related pathways, including interleukin (IL) 6/Janus kinase/signal transducer and activator of transcription (STAT) 3 signaling, tumor necrosis factor α signaling via nuclear factor κB, IL2/STAT5 signaling, the p53 pathway and the KRAS signaling pathway. The Cancer Genome Atlas dataset was used to validate that high-risk patients have worse survival outcomes than low-risk patients (HR = 1.544, 95% CI: 1.110-2.231; P = 0.031). In summary, our signature of 10 autophagy-related lncRNAs has prognostic potential for glioma, and these autophagy-related lncRNAs may play a key role in glioma biology.

journal_name

FEBS Open Bio

journal_title

FEBS open bio

authors

Luan F,Chen W,Chen M,Yan J,Chen H,Yu H,Liu T,Mo L

doi

10.1002/2211-5463.12601

subject

Has Abstract

pub_date

2019-03-05 00:00:00

pages

653-667

issue

4

issn

2211-5463

pii

FEB412601

journal_volume

9

pub_type

杂志文章
  • A new high-resolution crystal structure of the Drosophila melanogaster angiotensin converting enzyme homologue, AnCE.

    abstract::Angiotensin converting enzyme (ACE) is a zinc-dependent dipeptidyl carboxypeptidase with an essential role in blood pressure homeostasis in mammals. ACE has long been targeted in the treatment of hypertension through ACE inhibitors, however current inhibitors are known to cause severe side effects. Therefore, there is...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2015.08.004

    authors: Harrison C,Acharya KR

    更新日期:2015-08-11 00:00:00

  • PCBP2 post-transcriptionally regulates sortilin expression by binding to a C-rich element in its 3' UTR.

    abstract::Post-transcriptional regulation of cytokine production is crucial to ensure appropriate immune responses. We previously demonstrated that poly-rC-binding protein-1 (PCBP1) can act as a trans-acting factor to stabilize transcripts encoding sortilin, which mediates cytokine trafficking. Here, we report that PCBP2, which...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12794

    authors: Yabe-Wada T,Philpott CC,Onai N

    更新日期:2020-03-01 00:00:00

  • Cellular calcification induced by inorganic polyphosphate involves ATP depletion and opening of the mitochondrial permeability transition pore (mPTP).

    abstract::Inorganic polyphosphate (polyP) is a linear polymer containing tens to hundreds of orthophosphate residues linked by high-energy phosphoanhydride bonds. PolyP promotes osteocalcification and bone mineralization in both mouse and human osteoblastic cells. In the present study, we examined the molecular mechanism by whi...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12703

    authors: Tsutsumi K,Sasase T

    更新日期:2019-09-01 00:00:00

  • Transcriptome analysis of roots from resistant and susceptible rice varieties infected with Hirschmanniella mucronata.

    abstract::Hirschmanniella mucronata is a plant-parasitic nematode that is widespread in rice production areas and causes 10-25% yield losses a year on average. Here, we investigated the mechanism of resistance to this nematode by comparing the transcriptomes of roots from resistant (Jiabali) and susceptible (Bawangbian) varieti...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12737

    authors: Sun X,Zhang L,Tang Z,Shi X,Ma J,Cui R

    更新日期:2019-11-01 00:00:00

  • Cyclophilin D-dependent mitochondrial permeability transition amplifies inflammatory reprogramming in endotoxemia.

    abstract::Microorganisms or LPS (lipopolysaccharide), an outer membrane component of Gram-negative bacteria, can induce a systemic inflammatory response that leads to sepsis, multiple organ dysfunction, and mortality. Here, we investigated the role of cyclophilin D (CypD)-dependent mitochondrial permeability transition (mPT) in...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.13091

    authors: Veres B,Eros K,Antus C,Kalman N,Fonai F,Jakus PB,Boros E,Hegedus Z,Nagy I,Tretter L,Gallyas F Jr,Sumegi B

    更新日期:2021-01-20 00:00:00

  • The gene expression of numerous SLC transporters is altered in the immortalized hypothalamic cell line N25/2 following amino acid starvation.

    abstract::Amino acids are known to play a key role in gene expression regulation, and in mammalian cells, amino acid signaling is mainly mediated via two pathways, the mammalian target of rapamycin complex 1 (mTORC1) pathway and the amino acid responsive (AAR) pathway. It is vital for cells to have a system to sense amino acid ...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12181

    authors: Hellsten SV,Lekholm E,Ahmad T,Fredriksson R

    更新日期:2017-01-11 00:00:00

  • Identification of potential diagnostic biomarkers for Parkinson's disease.

    abstract::The identification of biomarkers for early diagnosis of Parkinson's disease (PD) prior to the onset of symptoms may improve the effectiveness of therapy. To identify potential biomarkers, we downloaded microarray datasets of PD from the Gene Expression Omnibus database. Differentially expressed genes (DEGs) between PD...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12687

    authors: Jiang F,Wu Q,Sun S,Bi G,Guo L

    更新日期:2019-08-01 00:00:00

  • FOXO1 suppresses PGC-1β gene expression in skeletal muscles.

    abstract::Peroxisome proliferator-activated receptor-gamma coactivator-1β (PGC-1β) is a transcriptional regulator whose increased expression activates energy expenditure-related genes in skeletal muscles. However, how PGC-1β is regulated remains largely unclear. Here, we show that PGC-1β gene expression is negatively correlated...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12898

    authors: Nakai S,Oyabu M,Hatazawa Y,Akashi S,Kitamura T,Miura S,Kamei Y

    更新日期:2020-07-01 00:00:00

  • Hypoxia affects Slc7a5 expression through HIF-2α in differentiated neuronal cells.

    abstract::An imbalance of branched-chain amino acids (BCAAs) in the brain may result in neuropathological conditions, such as autism spectrum disorders. The L-type amino acid transporter 1 (LAT1), encoded by the solute carrier transporter 7a5 (Slc7a5) gene, is critical for maintaining normal levels of BCAAs in the brain. Howeve...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12559

    authors: Onishi Y,Hiraiwa M,Kamada H,Iezaki T,Yamada T,Kaneda K,Hinoi E

    更新日期:2019-01-07 00:00:00

  • Identification and analysis of micro-exons in AP2/ERF and MADS gene families.

    abstract::Micro-exons are a set of ultrashort exons with lengths ≤ 51 nucleotides. Our previous study revealed that micro-exons were enriched in AP2 domains and K-box domains, which are crucial components of AP2/ERF (APETALA2/ethylene-responsive element-binding protein) and MADS-box (an acronym of MCM1, AGAMOUS, DEFICIENS and S...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12990

    authors: Song Q,Bari A,Li H,Chen LL

    更新日期:2020-12-01 00:00:00

  • Transformation of the fungus Absidia glauca by complementation of a methionine-auxotrophic strain affected in the homoserine-acetyltransferase gene.

    abstract::Transformation of fungi by complementation of auxotrophs is generally much more reliable than usage of antibiotic resistance markers. In order to establish such a system for the model zygomycete Absidia glauca, a stable methionine auxotrophic mutant was isolated after X-ray mutagenesis of the minus mating type and cha...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2012.07.002

    authors: Karimi S,Wetzel J,Wöstemeyer J,Burmester A

    更新日期:2012-07-20 00:00:00

  • Identification of distinctive interdomain interactions among ZP-N, ZP-C and other domains of zona pellucida glycoproteins underlying association of chicken egg-coat matrix.

    abstract::The vertebrate egg coat, including mammalian zona pellucida, is an oocyte-specific extracellular matrix comprising two to six zona pellucida (ZP) glycoproteins. The egg coat plays important roles in fertilization, especially in species-specific interactions with sperm to induce the sperm acrosome reaction and to form ...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2015.05.005

    authors: Okumura H,Sato T,Sakuma R,Fukushima H,Matsuda T,Ujita M

    更新日期:2015-05-27 00:00:00

  • Dysregulation of the Sirt5/IDH2 axis contributes to sunitinib resistance in human renal cancer cells.

    abstract::Sunitinib (Sun), a tyrosine kinase inhibitor of vascular endothelial growth factor receptor, is the standard first-line treatment against advanced clear cell renal cell carcinoma (RCC), but resistance to therapy is inevitable. Reactive oxygen species production is associated with sensitivity to chemotherapy, but the u...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.13090

    authors: Meng L,Chen D,Meng G,Lu L,Han C

    更新日期:2021-01-16 00:00:00

  • High-intensity focused ultrasound inhibits invasion and metastasis of colon cancer cells by enhancing microRNA-124-mediated suppression of STAT3.

    abstract::Metastasis is the primary contributor to colorectal cancer mortality. High-intensity focused ultrasound (HIFU) is an emerging technology for tumor therapy that exerts its effects through tumor ablation, mechanical disruption, and enhancement of immune responses. However, it remains unclear whether HIFU can influence t...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12642

    authors: Li M,Wan G,Yu H,Xiong W

    更新日期:2019-06-01 00:00:00

  • The G2 checkpoint-a node-based molecular switch.

    abstract::Tight regulation of the eukaryotic cell cycle is paramount to ensure genomic integrity throughout life. Cell cycle checkpoints are present in each phase of the cell cycle and prevent cell cycle progression when genomic integrity is compromised. The G2 checkpoint is an intricate signaling network that regulates the pro...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12206

    authors: de Gooijer MC,van den Top A,Bockaj I,Beijnen JH,Würdinger T,van Tellingen O

    更新日期:2017-03-04 00:00:00

  • Fruit ripening in Lycium barbarum and Lycium ruthenicum is associated with distinct gene expression patterns.

    abstract::Goji berries have been used as food and medicine for millennia. Due to their high morphological similarity, fruits of two distinct species belonging to the family Solanaceae, Lycium barbarum (LB) and Lycium chinense (Chinese boxthorn), are usually marketed together as goji berries, but nearly 90% of all commercially a...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12910

    authors: Zhao J,Li H,Yin Y,An W,Qin X,Wang Y,Fan Y,Li Y,Cao Y

    更新日期:2020-08-01 00:00:00

  • Dynamics of protein secretion during adipocyte differentiation.

    abstract::The major functions of adipocytes include both lipid storage and the production of secretory factors. However, the type of proteins released from mouse 3T3-L1 cells during adipocyte differentiation remains poorly understood. We examined the dynamics of secreted proteins during adipocyte differentiation using mass spec...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12091

    authors: Ojima K,Oe M,Nakajima I,Muroya S,Nishimura T

    更新日期:2016-06-15 00:00:00

  • The neuronal and astrocytic protein SLC38A10 transports glutamine, glutamate, and aspartate, suggesting a role in neurotransmission.

    abstract::In brain cells, glutamine transporters are vital to monitor and control the levels of glutamate and GABA. There are 11 members of the SLC38 family of amino acid transporters of which eight have been functionally characterized. Here, we report the first histological and functional characterization of the previously orp...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12219

    authors: Hellsten SV,Hägglund MG,Eriksson MM,Fredriksson R

    更新日期:2017-04-26 00:00:00

  • Interaction of Carthamus tinctorius lignan arctigenin with the binding site of tryptophan-degrading enzyme indoleamine 2,3-dioxygenase.

    abstract::Mediterranean Carthamus tinctorius (Safflower) is used for treatment of inflammatory conditions and neuropsychiatric disorders. Recently C. tinctorius lignans arctigenin and trachelogenin but not matairesinol were described to interfere with the activity of tryptophan-degrading enzyme indoleamine 2,3-dioxygenase (IDO)...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2013.08.008

    authors: Temml V,Kuehnl S,Schuster D,Schwaiger S,Stuppner H,Fuchs D

    更新日期:2013-09-07 00:00:00

  • Bioinformatic screening for key miRNAs and genes associated with myocardial infarction.

    abstract::Despite significant advances in understanding of the causes of and treatment of myocardial infarction (MI) in recent years, morbidity and mortality is still high. The aim of this study was to identify miRNA and genes potentially associated with MI. mRNA and miRNA expression datasets were downloaded from the Gene Expre...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12423

    authors: Wu K,Zhao Q,Li Z,Li N,Xiao Q,Li X,Zhao Q

    更新日期:2018-04-19 00:00:00

  • Oxidative stress adaptation in aggressive prostate cancer may be counteracted by the reduction of glutathione reductase.

    abstract::Oxidative stress has been associated with prostate cancer development and progression due to an increase of reactive oxygen species (ROS). However, the mechanisms whereby ROS and the antioxidant system participate in cancer progression remain unclear. In order to clarify the influence of oxidative stress in prostate c...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2012.05.001

    authors: Freitas M,Baldeiras I,Proença T,Alves V,Mota-Pinto A,Sarmento-Ribeiro A

    更新日期:2012-05-30 00:00:00

  • Wor1-regulated ferroxidases contribute to pigment formation in opaque cells of Candida albicans.

    abstract::Candida albicans is a harmless commensal resident in the human gut, and a prevalent opportunistic pathogen. A key part of its commensalism and pathogenesis is its ability to switch between different morphological forms, including white-to-opaque switching. The Wor1 protein was previously identified as a master regulat...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.13070

    authors: Dai B,Xu Y,Gao N,Chen J

    更新日期:2020-12-22 00:00:00

  • The high-risk HPV E6 proteins modify the activity of the eIF4E protein via the MEK/ERK and AKT/PKB pathways.

    abstract::Previous studies have proposed that the human papillomavirus (HPV) E6 oncoproteins modify the transcriptional activity of eIF4E through mechanisms dependent on p53 degradation. However, the effect of these oncoproteins on pathways regulating the activity of the eIF4E protein remains poorly understood. Hence, we invest...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12987

    authors: Morales-Garcia V,Contreras-Paredes A,Martinez-Abundis E,Gomez-Crisostomo NP,Lizano M,Hernandez-Landero F,de la Cruz-Hernandez E

    更新日期:2020-12-01 00:00:00

  • Identification of a novel lactose oxidase in Myrmecridium flexuosum NUK-21.

    abstract::Lactobionic acid (O-β-galactosyl-(1-4)-gluconic acid) (LBA) is a high-value lactose derivative, produced via oxidation of the reducing terminal of lactose. LBA can be produced by fermentation using certain microorganisms, although subsequent purification is challenging. Therefore, we have attempted to identify an enzy...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12582

    authors: Lin SF,Li CK,Chung YP

    更新日期:2019-01-16 00:00:00

  • The Hsp90 inhibitor 17-AAG represses calcium-induced cytokeratin 1 and 10 expression in HaCaT keratinocytes.

    abstract::Hsp90 is essential for maintaining the activity of numerous signaling factors, and plays a key role in cellular signal transduction networks. 17-Allylamino-17-demethoxygeldanamycin (17-AAG) is an ansamycin antibiotic that binds to Hsp90 and inhibits its function. HaCaT human keratinocytes were used to investigate the ...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2012.03.002

    authors: Miyoshi S,Yamazaki S,Uchiumi A,Katagata Y

    更新日期:2012-03-25 00:00:00

  • Glucocorticoids induce femoral head necrosis in rats through the ROS/JNK/c-Jun pathway.

    abstract::Osteonecrosis of the femoral head (ONFH) is a common clinical disease with a high disability rate. Apoptosis of osteoblasts caused by high-dose short-term or low-dose long-term glucocorticoid (GC) administration is the biological basis of steroid-induced avascular necrosis of the femoral head (SANFH). The pathogenesis...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.13037

    authors: Peng P,Nie Z,Sun F,Peng H

    更新日期:2020-11-15 00:00:00

  • A new protocol for long-term culture of a specific subpopulation of liver cancer stem cells enriched by cell surface markers.

    abstract::Liver cancer stem cells (L-CSCs) are considered to be an important therapeutic target for hepatocellular carcinoma (HCC). This study provides a new in vitro long-term culture model for a specific subpopulation of L-CSCs enriched by cell surface markers. We combined CD13, CD133 and EpCAM to selectively enrich L-CSCs, w...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12932

    authors: Zhang B,Wang HY,Wang DX,Zeng Q,Fan Z,Xi JF,Nan X,He LJ,Zhou JN,Pei XT,Yue W

    更新日期:2020-09-01 00:00:00

  • Both Ser361 phosphorylation and the C-arrestin domain of thioredoxin interacting protein are important for cell cycle blockade at the G1/S checkpoint.

    abstract::Thioredoxin interacting protein (TXNIP) is a novel tumor suppressor that is down-regulated in several cancer tissues and tumor cell lines. Overexpression of TXNIP causes cell cycle arrest at the G1/S checkpoint in the hepatocellular carcinoma cell line HuH-7. TXNIP contains putative phosphorylation sites, but the effe...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12518

    authors: Kamitori K,Yamaguchi F,Dong Y,Hossain A,Katagi A,Noguchi C,Hirata Y,Tsukamoto I,Hatano N,Tokuda M

    更新日期:2018-10-01 00:00:00

  • Arachidonic acid suppresses hepatic cell growth through ROS-mediated activation of transglutaminase.

    abstract::We previously reported a profound augmentation in the hepatic levels of a pro-inflammatory precursor, arachidonic acid (AA), during liver tumorigenesis. Here, we report a critical role of the induced reactive oxygen species (ROS)-mediated cellular activation of a protein cross-linking enzyme, transglutaminase 2 (TG2),...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12511

    authors: Qin XY,Lu J,Cai M,Kojima S

    更新日期:2018-09-11 00:00:00

  • Crystal structure of the retroviral protease-like domain of a protozoal DNA damage-inducible 1 protein.

    abstract::DNA damage-inducible 1 (Ddi1) is a multidomain protein with one of the domains being retropepsin-like. HIV-1 protease inhibitors were found to reduce opportunistic infections caused by pathogens like Leishmania and Plasmodium, and some of them were shown to inhibit the growth of these parasites. In Leishmania, Ddi1 wa...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12491

    authors: Kumar S,Suguna K

    更新日期:2018-08-03 00:00:00