A risk score model for the prediction of osteosarcoma metastasis.

Abstract:

:Osteosarcoma is the most common primary solid malignancy of the bone, and its high mortality usually correlates with early metastasis. In this study, we developed a risk score model to help predict metastasis at the time of diagnosis. We downloaded and mined four expression profile datasets associated with osteosarcoma metastasis from the Gene Expression Omnibus. After data normalization, we performed LASSO logistic regression analysis together with 10-fold cross validation using the GSE21257 dataset. A combination of eight genes (RAB1,CLEC3B,FCGBP,RNASE3,MDL1,ALOX5AP,VMO1 and ALPK3) were identified as being associated with osteosarcoma metastasis. These genes were put into a gene risk score model, and the prediction efficiency of the model was then validated using three independent datasets (GSE33383, GSE66673, and GSE49003) by plotting receiver operating characteristic curves. The expression levels of the eight genes in all datasets were shown as heatmaps, and gene ontology gene annotation and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis were performed. These eight genes play a role in cancer-related biological processes, such as apoptosis and biosynthetic processes. Our results may aid in elucidating the possible mechanisms of osteosarcoma metastasis, and may help to facilitate the individual management of patients with osteosarcoma after treatment.

journal_name

FEBS Open Bio

journal_title

FEBS open bio

authors

Dong S,Huo H,Mao Y,Li X,Dong L

doi

10.1002/2211-5463.12592

subject

Has Abstract

pub_date

2019-02-02 00:00:00

pages

519-526

issue

3

issn

2211-5463

pii

FEB412592

journal_volume

9

pub_type

杂志文章
  • 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

  • BBOX1-AS1 contributes to colorectal cancer progression by sponging hsa-miR-361-3p and targeting SH2B1.

    abstract::Colorectal cancer (CRC) is the third main cause of cancer-relevant deaths worldwide, and its incidence has increased in recent decades. Previous studies have indicated that certain long non-coding RNAs (lncRNAs) have regulatory roles in tumor occurrence and progression. Often, lncRNAs are competitive endogenous RNAs (...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12802

    authors: Liu J,Zhu J,Xiao Z,Wang X,Luo J

    更新日期:2020-01-27 00:00:00

  • Effect of curcumin on amyloid-like aggregates generated from methionine-oxidized apolipoprotein A-I.

    abstract::Curcumin is a polyphenolic phytonutrient that has antineurodegenerative properties. In this study, we investigated the anti-amyloidogenic properties of curcumin. Following incubation with curcumin, intrinsic tryptophan fluorescence emission of apolipoprotein (apo) A-I was strongly quenched. At the same time, curcumin ...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12372

    authors: Krishnamoorthy A,Tavoosi N,Chan GKL,Liu J,Ren G,Cavigiolio G,Ryan RO

    更新日期:2018-01-10 00:00:00

  • Chemokine-like factor 1 (CKLF1) aggravates neointimal hyperplasia through activating the NF-κB /VCAM-1 pathway.

    abstract::Neointimal hyperplasia (NIH) is a complicated inflammatory process contributing to vascular restenosis. The present study aimed to explore whether chemokine-like factor 1 (CKLF1) aggravates NIH via the nuclear factor-kappa B (NF-κB)/vascular cell adhesion molecule-1 (VCAM-1) pathway. We found the expression of CKLF1 a...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12942

    authors: Liu X,Qu C,Zhang Y,Fang J,Teng L,Zhang R,Zhang X,Shen C

    更新日期:2020-09-01 00:00:00

  • Septal protein SepJ from the heterocyst-forming cyanobacterium Anabaena forms multimers and interacts with peptidoglycan.

    abstract::Heterocyst-forming cyanobacteria grow as filaments that can be hundreds of cells long. Proteinaceous septal junctions provide cell-cell binding and communication functions in the filament. In Anabaena sp. strain PCC 7120, the SepJ protein is important for the formation of septal junctions. SepJ consists of integral me...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12280

    authors: Ramos-León F,Mariscal V,Battchikova N,Aro EM,Flores E

    更新日期:2017-08-30 00:00:00

  • Death receptor 6 promotes ovarian cancer cell migration through KIF11.

    abstract::The expression of death receptor 6 (DR6) is abnormal in some cancer types, but the function and underlying molecular mechanisms of DR6 in tumor progression are not yet clear. In the present study, our analysis of ovarian cancer RNA sequencing data from The Cancer Genome Atlas revealed that DR6 is upregulated in human ...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12492

    authors: Shi B,Bao J,Liu Y,Shi J

    更新日期:2018-08-07 00:00:00

  • Knockout of cytochrome P450 1A1 enhances lipopolysaccharide-induced acute lung injury in mice by targeting NF-κB activation.

    abstract::Acute lung injury (ALI) is accompanied by overactivation of multiple pro-inflammatory factors. Cytochrome P450 1A1 (CYP1A1) has been shown to aggravate lung injury in response to hyperoxia. However, the relationship between CYP1A1 and lipopolysaccharide (LPS)-induced ALI is unknown. In this study, CYP1A1 was shown to ...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12977

    authors: Tian LX,Tang X,Ma W,Wang J,Zhang W,Liu K,Chen T,Zhu JY,Liang HP

    更新日期:2020-09-15 00:00:00

  • Structure of the C-terminal domain of AspA (antigen I/II-family) protein from Streptococcus pyogenes.

    abstract::The pathogenic bacteria Streptococcus pyogenes can cause an array of diseases in humans, including moderate infections such as pharyngitis (strep throat) as well as life threatening conditions such as necrotizing fasciitis and puerperal fever. The antigen I/II family proteins are cell wall anchored adhesin proteins fo...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2014.02.012

    authors: Hall M,Nylander S,Jenkinson HF,Persson K

    更新日期:2014-03-12 00:00:00

  • In silico prediction of a disease-associated STIL mutant and its affect on the recruitment of centromere protein J (CENPJ).

    abstract::Human STIL (SCL/TAL1 interrupting locus) protein maintains centriole stability and spindle pole localisation. It helps in recruitment of CENPJ (Centromere protein J)/CPAP (centrosomal P4.1-associated protein) and other centrosomal proteins. Mutations in STIL protein are reported in several disorders, especially in der...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2012.09.003

    authors: Kumar A,Rajendran V,Sethumadhavan R,Purohit R

    更新日期:2012-09-25 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

  • Selection of reference genes for RT-qPCR normalization in blueberry (Vaccinium corymbosum × angustifolium) under various abiotic stresses.

    abstract::As a small fruit rich in anthocyanins, blueberry (Vaccinium corymbosum × angustifolium) has become a focus of research in recent years for identifying genes related to anthocyanin transport and stress resistance mechanisms based on transcriptome sequencing. However, the lack of validated, stably expressed reference ge...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12903

    authors: Deng Y,Li Y,Sun H

    更新日期:2020-08-01 00:00:00

  • Ezetimibe reduced hepatic steatosis induced by dietary oxysterols in nonhuman primates.

    abstract::Oxidized cholesterol (oxysterols) plays an important and multifaceted role in lipid metabolism. Here we examined whether dietary oxysterols accelerate hepatic lipid accumulation and inflammation in nonhuman primates. We also examined the effect of the Niemann-Pick C1-like1 inhibitor, ezetimibe (Ez). Macaca fasciculari...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12107

    authors: Deushi M,Osaka M,Nakano K,Osada K,Egashira K,Yoshida M

    更新日期:2016-09-20 00:00:00

  • A comparative study of the degradation of yeast cyclins Cln1 and Cln2.

    abstract::The yeast cyclins Cln1 and Cln2 are very similar in both sequence and function, but some differences in their functionality and localization have been recently described. The control of Cln1 and Cln2 cellular levels is crucial for proper cell cycle initiation. In this work, we analyzed the degradation patterns of Cln1...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12157

    authors: Quilis I,Igual JC

    更新日期:2016-12-14 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

  • NFκB mediates cisplatin resistance through histone modifications in head and neck squamous cell carcinoma (HNSCC).

    abstract::Cisplatin-based chemotherapy is the standard treatment of choice for head and neck squamous cell carcinoma (HNSCC). The efficiency of platinum-based therapies is directly influenced by the development of tumor resistance. Multiple signaling pathways have been linked to tumor resistance, including activation of nuclear...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2013.12.003

    authors: Almeida LO,Abrahao AC,Rosselli-Murai LK,Giudice FS,Zagni C,Leopoldino AM,Squarize CH,Castilho RM

    更新日期:2013-12-30 00:00:00

  • miR-21-5p promotes cell proliferation and G1/S transition in melanoma by targeting CDKN2C.

    abstract::Human melanoma is a highly malignant tumor originating from cutaneous melanocytes. The noncoding RNA microRNA (miR)-21-5p has been reported to be expressed at high levels in malignant melanocytic skin tissues, but its potential functional role in melanoma remains poorly understood. Here, we explored the cellular effec...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12819

    authors: Yang Z,Liao B,Xiang X,Ke S

    更新日期:2020-05-01 00:00:00

  • Expression patterns of kiss2 and gpr54-2 in Monopterus albus suggest these genes may play a role in sex reversal in fish.

    abstract::Due to its exceptionally small genome size and protogynous hermaphroditism, Monopterus albus has been proposed as a model for vertebrate sexual development. The Kiss/GPR54 system is a central regulator of sexual development in most vertebrates, but its role in sex reversal remains hypothetical. In contrast to mammals,...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12727

    authors: Yi TL,Pei MT,Yang DQ

    更新日期:2019-10-01 00:00:00

  • The E144 residue of Scherffelia dubia centrin discriminates between the DNA repair protein XPC and the centrosomal protein Sfi1.

    abstract::Centrins are members of the EF-hand family of calcium-binding proteins, which are highly conserved among eukaryotes. Centrins bind to several cellular targets, through a hydrophobic triad. However, the W(1)xxL(4)xxxL(8) triad in XPC (Xeroderma Pigmentosum Group C protein) is found in the reverse orientation, as in the...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2013.11.005

    authors: Grecu D,Blouquit Y,Assairi L

    更新日期:2013-12-05 00:00:00

  • PAK1 limits the expression of the pro-apoptotic protein Bad in pancreatic islet β-cells.

    abstract::Human type 2 diabetes is associated with β-cell apoptosis, and human islets from diabetic donors are ∼80% deficient in PAK1 protein. Toward addressing linkage of PAK1 to β-cell survival, PAK1-siRNA targeted MIN6 pancreatic β-cells were found to exhibit increased caspase-3 cleavage, cytosolic cytochrome-C and the pro-a...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2012.09.001

    authors: Wang Z,Thurmond DC

    更新日期:2012-09-08 00:00:00

  • NCOR1 may be a potential biomarker of a novel molecular subtype of prostate cancer.

    abstract::Prostate cancer (PCa) is the most frequently diagnosed male cancer. An earlier study of a cohort of 333 primary prostate carcinomas showed that 74% of these tumors fell into one of seven subtypes of a molecular taxonomy defined by specific gene fusions (ERG, ETV1/4 and FLI1) or mutations (SPOP, FOXA1 and IDH1). Molecu...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.13004

    authors: Tang L,Zhang L,Liu L,Dong L,Dong Y,Zhu W,Wang H

    更新日期:2020-12-01 00:00:00

  • Gene expression profiles and pathway enrichment analysis of human osteosarcoma cells exposed to sorafenib.

    abstract::Sorafenib is an inhibitor of a variety of tyrosine kinase receptors used to treat various cancers including hepatocellular, renal cell and thyroid carcinoma. It has been shown to change various targets associated with osteosarcoma, but the detailed mechanism remains unclear. In order to identify key genes, enriched pa...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12428

    authors: Dai Z,Tang H,Pan Y,Chen J,Li Y,Zhu J

    更新日期:2018-04-24 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

  • A novel cell-penetrating peptide derived from WT1 enhances p53 activity, induces cell senescence and displays antimelanoma activity in xeno- and syngeneic systems.

    abstract::The Wilms tumor protein 1 (WT1) transcription factor has been associated in malignant melanoma with cell survival and metastasis, thus emerging as a candidate for targeted therapy. A lysine-arginine rich peptide, WT1-pTj, derived from the ZF domain of WT1 was evaluated as an antitumor agent against A2058 human melanom...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2014.01.007

    authors: Massaoka MH,Matsuo AL,Figueiredo CR,Girola N,Faria CF,Azevedo RA,Travassos LR

    更新日期:2014-01-21 00:00:00

  • An alternative allosteric regulation mechanism of an acidophilic l-lactate dehydrogenase from Enterococcus mundtii 15-1A.

    abstract::A plant-derived Enterococcus mundtii 15-1A, that has been previously isolated from Brassica rapa L. subsp. nipposinica (L.H. Bailey) Hanelt var. linearifolia by our group, possesses two kinds of l-lactate dehydrogenase (l-LDH): LDH-1 and LDH-2. LDH-1 was activated under low concentration of fluctose-1,6-bisphosphate (...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2014.08.006

    authors: Matoba Y,Miyasako M,Matsuo K,Oda K,Noda M,Higashikawa F,Kumagai T,Sugiyama M

    更新日期:2014-09-06 00:00:00

  • An in vivo system involving co-expression of cyanobacterial flavodoxin and ferredoxin-NADP(+) reductase confers increased tolerance to oxidative stress in plants.

    abstract::Oxidative stress in plants causes ferredoxin down-regulation and NADP(+) shortage, over-reduction of the photosynthetic electron transport chain, electron leakage to oxygen and generation of reactive oxygen species (ROS). Expression of cyanobacterial flavodoxin in tobacco chloroplasts compensates for ferredoxin declin...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2011.10.004

    authors: Giró M,Ceccoli RD,Poli HO,Carrillo N,Lodeyro AF

    更新日期:2011-11-11 00:00:00

  • Fluoride resistance capacity in mammalian cells involves complex global gene expression changes.

    abstract::Fluorine is a bone-seeking element ubiquitously present in the environment and widely used in many oral hygiene products. In humans, excessive intake of fluoride may cause dental and skeletal fluorosis. However, endemic fluorosis does not appear to develop in a proportion of individuals exposed to the same levels of f...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12236

    authors: Ran S,Sun N,Liu Y,Zhang W,Li Y,Wei L,Wang J,Liu B

    更新日期:2017-06-05 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

  • Aspergillus nidulans Pmts form heterodimers in all pairwise combinations.

    abstract::Eukaryotic protein O-mannosyltransferases (Pmts) are divided into three subfamilies (Pmt1, Pmt2, and Pmt4) and activity of Pmts in yeasts and animals requires assembly into complexes. In Saccharomyces cerevisiae, Pmt1 and Pmt2 form a heteromeric complex and Pmt 4 forms a homomeric complex. The filamentous fungus Asper...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1016/j.fob.2014.03.006

    authors: Kriangkripipat T,Momany M

    更新日期:2014-03-19 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

  • Decorin-mediated inhibition of the migration of U87MG glioma cells involves activation of autophagy and suppression of TGF-β signaling.

    abstract::Decorin (DCN) is a major member of the small leucine-rich proteoglycan (SLRP) family that is critically involved in tumorigenesis and the development of metastasis of cancers, including glioma. Overexpression of DCN was indicated to suppress glioma cell growth. However, the role of DCN in the migration of glioma cells...

    journal_title:FEBS open bio

    pub_type: 杂志文章

    doi:10.1002/2211-5463.12076

    authors: Yao T,Zhang CG,Gong MT,Zhang M,Wang L,Ding W

    更新日期:2016-05-31 00:00:00