1
|
Richters A, Aben KKH and Kiemeney L: The
global burden of urinary bladder cancer: An update. World J Urol.
38:1895–1904. 2020. View Article : Google Scholar : PubMed/NCBI
|
2
|
Zhu CZ, Ting HN, Ng KH and Ong TA: A
review on the accuracy of bladder cancer detection methods. J
Cancer. 10:4038–4044. 2019. View Article : Google Scholar : PubMed/NCBI
|
3
|
Cathomas R, Lorch A, Bruins HM, Compérat
EM, Cowan NC, Efstathiou JA, Fietkau R, Gakis G, Hernández V,
Espinós EL, et al: The 2021 updated European association of urology
guidelines on metastatic urothelial carcinoma. Eur Urol. 81:95–103.
2022. View Article : Google Scholar : PubMed/NCBI
|
4
|
Kanehisa M and Bork P: Bioinformatics in
the post-sequence era. Nat Genet. 33 (Suppl):S305–S310. 2003.
View Article : Google Scholar : PubMed/NCBI
|
5
|
Foulkes AC, Watson DS, Griffiths CEM,
Warren RB, Huber W and Barnes MR: Research techniques made simple:
Bioinformatics for genome-scale biology. J Invest Dermatol.
137:e163–e168. 2017. View Article : Google Scholar : PubMed/NCBI
|
6
|
Zafeiris D, Rutella S and Ball GR: An
artificial neural network integrated pipeline for biomarker
discovery using Alzheimer's disease as a case study. Comput Struct
Biotechnol J. 16:77–87. 2018. View Article : Google Scholar : PubMed/NCBI
|
7
|
Xie R, Xie M, Zhu L, Chiu JWY, Lam W and
Yap DYH: The relationship of pyroptosis-related genes, patient
outcomes, and tumor-infiltrating cells in bladder urothelial
carcinoma (BLCA). Front Pharmacol. 13:9309512022. View Article : Google Scholar : PubMed/NCBI
|
8
|
Xu C, Song L, Peng H, Yang Y, Liu Y, Pei
D, Guo J, Liu N, Liu J, Li X, et al: Clinical eosinophil-associated
genes can serve as a reliable predictor of bladder urothelial
cancer. Front Mol Biosci. 9:9634552022. View Article : Google Scholar : PubMed/NCBI
|
9
|
Jin K, Qiu S, Jin D, Zhou X, Zheng X, Li
J, Liao X, Yang L and Wei Q: Development of prognostic signature
based on immune-related genes in muscle-invasive bladder cancer:
Bioinformatics analysis of TCGA database. Aging (Albany NY).
13:1859–1871. 2021. View Article : Google Scholar : PubMed/NCBI
|
10
|
Chen X, Xu R, He D, Zhang Y, Chen H, Zhu
Y, Cheng Y, Liu R, Zhu R, Gong L, et al: CD8(+) T effector and
immune checkpoint signatures predict prognosis and responsiveness
to immunotherapy in bladder cancer. Oncogene. 40:6223–6234. 2021.
View Article : Google Scholar : PubMed/NCBI
|
11
|
Liu Z, Tang Q, Qi T, Othmane B, Yang Z,
Chen J, Hu J and Zu X: A robust hypoxia risk score predicts the
clinical outcomes and tumor microenvironment immune characters in
bladder cancer. Front Immunol. 12:7252232021. View Article : Google Scholar : PubMed/NCBI
|
12
|
Olkhov-Mitsel E, Hodgson A, Liu SK,
Vesprini D, Bayani J, Bartlett JMS, Xu B and Downes MR:
Upregulation of IFNγ-mediated chemokines dominate the immune
transcriptome of muscle-invasive urothelial carcinoma. Sci Rep.
12:7162022. View Article : Google Scholar : PubMed/NCBI
|
13
|
Boccaletto P, Magnus M, Almeida C, Zyla A,
Astha A, Pluta R, Baginski B, Jankowska E, Dunin-Horkawicz S,
Wirecki TK, et al: RNArchitecture: A database and a classification
system of RNA families, with a focus on structural information.
Nucleic Acids Res. 46:D202–D205. 2018.PubMed/NCBI
|
14
|
Jühling F, Mörl M, Hartmann RK, Sprinzl M,
Stadler PF and Pütz J: tRNAdb 2009: Compilation of tRNA sequences
and tRNA genes. Nucleic Acids Res. 37:D159–D162. 2009. View Article : Google Scholar : PubMed/NCBI
|
15
|
Edmonds CG, Crain PF, Gupta R, Hashizume
T, Hocart CH, Kowalak JA, Pomerantz SC, Stetter KO and McCloskey
JA: Posttranscriptional modification of tRNA in thermophilic
archaea (Archaebacteria). J Bacteriol. 173:3138–3148. 1991.
View Article : Google Scholar : PubMed/NCBI
|
16
|
Luo Y, Yao Y, Wu P, Zi X, Sun N and He J:
The potential role of N(7)-methylguanosine (m7G) in cancer. J
Hematol Oncol. 15:632022. View Article : Google Scholar : PubMed/NCBI
|
17
|
Li XY, Wang SL, Chen DH, Liu H, You JX, Su
LX and Yang XT: Construction and validation of a m7G-related
gene-based prognostic model for gastric cancer. Front Oncol.
12:8614122022. View Article : Google Scholar : PubMed/NCBI
|
18
|
Tomikawa C: 7-methylguanosine
modifications in transfer RNA (tRNA). Int J Mol Sci. 19:40802018.
View Article : Google Scholar : PubMed/NCBI
|
19
|
Yang Z, Zhang S, Xia T, Fan Y, Shan Y,
Zhang K, Xiong J, Gu M and You B: RNA modifications meet tumors.
Cancer Manag Res. 14:3223–3243. 2022. View Article : Google Scholar : PubMed/NCBI
|
20
|
Rong D, Sun G, Wu F, Cheng Y, Sun G, Jiang
W, Li X, Zhong Y, Wu L, Zhang C, et al: Epigenetics: Roles and
therapeutic implications of non-coding RNA modifications in human
cancers. Mol Ther Nucleic Acids. 25:67–82. 2021. View Article : Google Scholar : PubMed/NCBI
|
21
|
Zhang M, Song J, Yuan W, Zhang W and Sun
Z: Roles of RNA methylation on tumor immunity and clinical
implications. Front Immunol. 12:6415072021. View Article : Google Scholar : PubMed/NCBI
|
22
|
Furuichi Y: Discovery of m(7)G-cap in
eukaryotic mRNAs. Proc Jpn Acad Ser B Phys Biol Sci. 91:394–409.
2015. View Article : Google Scholar : PubMed/NCBI
|
23
|
Reddy R, Singh R and Shimba S: Methylated
cap structures in eukaryotic RNAs: Structure, synthesis and
functions. Pharmacol Ther. 54:249–267. 1992. View Article : Google Scholar : PubMed/NCBI
|
24
|
R Core Team R, . A language and
environment for statistical computing. R Foundation for Statistical
Computing; Vienna: 2012, http://www.R-project.org/
|
25
|
Szklarczyk D, Gable AL, Lyon D, Junge A,
Wyder S, Huerta-Cepas J, Simonovic M, Doncheva NT, Morris JH, Bork
P, et al: STRING v11: Protein-protein association networks with
increased coverage, supporting functional discovery in genome-wide
experimental datasets. Nucleic Acids Res. 47:D607–D613. 2019.
View Article : Google Scholar : PubMed/NCBI
|
26
|
Tang Z, Li C, Kang B, Gao G, Li C and
Zhang Z: GEPIA: A web server for cancer and normal gene expression
profiling and interactive analyses. Nucleic Acids Res. 45:W98–W102.
2017. View Article : Google Scholar : PubMed/NCBI
|
27
|
Li T, Fan J, Wang B, Traugh N, Chen Q, Liu
JS, Li B and Liu XS: TIMER: A web server for comprehensive analysis
of tumor-infiltrating immune cells. Cancer Res. 77:e108–e110. 2017.
View Article : Google Scholar : PubMed/NCBI
|
28
|
Geeleher P, Cox N and Huang RS:
pRRophetic: An R package for prediction of clinical
chemotherapeutic response from tumor gene expression levels. PLoS
One. 9:e1074682014. View Article : Google Scholar : PubMed/NCBI
|
29
|
Livak KJ and Schmittgen TD: Analysis of
relative gene expression data using real-time quantitative PCR and
the 2(−Delta Delta C(T)) method. Methods. 25:402–408. 2001.
View Article : Google Scholar : PubMed/NCBI
|
30
|
Lai H, Cheng X, Liu Q, Luo W, Liu M, Zhang
M, Miao J, Ji Z, Lin GN, Song W, et al: Single-cell RNA sequencing
reveals the epithelial cell heterogeneity and invasive
subpopulation in human bladder cancer. Int J Cancer. 149:2099–2115.
2021. View Article : Google Scholar : PubMed/NCBI
|
31
|
Huang Z, Yan Y, Wang T, Wang Z, Cai J, Cao
X, Yang C, Zhang F, Wu G and Shen B: Identification of ENO1 as a
prognostic biomarker and molecular target among ENOs in bladder
cancer. J Transl Med. 20:3152022. View Article : Google Scholar : PubMed/NCBI
|
32
|
Liu J, Zhou Z, Jiang Y, Lin Y, Yang Y,
Tian C, Liu J, Lin H and Huang B: EPHA3 could be a novel prognosis
biomarker and correlates with immune infiltrates in bladder cancer.
Cancers (Basel). 15:6212023. View Article : Google Scholar : PubMed/NCBI
|
33
|
Yu X, Luo B, Lin J and Zhu Y: Alternative
splicing event associated with immunological features in bladder
cancer. Front Oncol. 12:9660882023. View Article : Google Scholar : PubMed/NCBI
|
34
|
Chen Z, Zhu W, Zhu S, Sun K, Liao J, Liu
H, Dai Z, Han H, Ren X, Yang Q, et al: METTL1 promotes
hepatocarcinogenesis via m(7) G tRNA modification-dependent
translation control. Clin Transl Med. 11:e6612021. View Article : Google Scholar : PubMed/NCBI
|
35
|
Zhu J, Liu X, Chen W, Liao Y, Liu J, Yuan
L, Ruan J and He J: Association of RNA m7G modification gene
polymorphisms with pediatric glioma risk. Biomed Res Int.
2023:36783272023. View Article : Google Scholar : PubMed/NCBI
|
36
|
Han H, Yang C, Ma J, Zhang S, Zheng S,
Ling R, Sun K, Guo S, Huang B and Liang Y: N(7)-methylguanosine
tRNA modification promotes esophageal squamous cell carcinoma
tumorigenesis via the RPTOR/ULK1/autophagy axis. Nat Commun.
13:14782022. View Article : Google Scholar : PubMed/NCBI
|
37
|
Xia P, Zhang H, Xu K, Jiang X, Gao M, Wang
G, Liu Y, Yao Y, Chen X, Ma W, et al: MYC-targeted WDR4 promotes
proliferation, metastasis, and sorafenib resistance by inducing
CCNB1 translation in hepatocellular carcinoma. Cell Death Dis.
12:6912021. View Article : Google Scholar : PubMed/NCBI
|
38
|
Xu C, Ishikawa H, Izumikawa K, Li L, He H,
Nobe Y, Yamauchi Y, Shahjee HM, Wu XH, Yu YT, et al: Structural
insights into Gemin5-guided selection of pre-snRNAs for snRNP
assembly. Genes Dev. 30:2376–2390. 2016. View Article : Google Scholar : PubMed/NCBI
|
39
|
Li XY, Zhao ZJ, Wang JB, Shao YH, Hui-Liu,
You JX and Yang XT: m7G methylation-related genes as biomarkers for
predicting overall survival outcomes for hepatocellular carcinoma.
Front Bioeng Biotechnol. 10:8497562022. View Article : Google Scholar : PubMed/NCBI
|
40
|
Shao J, Wang S, West-Szymanski D, Karpus
J, Shah S, Ganguly S, Smith J, Zu Y, He C, Li Z, et al: Cell-free
DNA 5-hydroxymethylcytosine is an emerging marker of acute myeloid
leukemia. Sci Rep. 12:124102022. View Article : Google Scholar : PubMed/NCBI
|
41
|
Lee JH, Horak CE, Khanna C, Meng Z, Yu LR,
Veenstra TD and Steeg PS: Alterations in Gemin5 expression
contribute to alternative mRNA splicing patterns and tumor cell
motility. Cancer Res. 68:639–644. 2008. View Article : Google Scholar : PubMed/NCBI
|
42
|
Wollen KL, Hagen L, Vågbø CB, Rabe R,
Iveland TS, Aas PA, Sharma A, Sporsheim B, Erlandsen HO, Palibrk V,
et al: ALKBH3 partner ASCC3 mediates P-body formation and selective
clearance of MMS-induced 1-methyladenosine and 3-methylcytosine
from mRNA. J Transl Med. 19:2872021. View Article : Google Scholar : PubMed/NCBI
|
43
|
Limaye AJ, Whittaker MK, Bendzunas GN,
Cowell JK and Kennedy EJ: Targeting the WASF3 complex to suppress
metastasis. Pharmacol Res. 182:1063022022. View Article : Google Scholar : PubMed/NCBI
|
44
|
Chang JW, Kuo WH, Lin CM, Chen WL, Chan
SH, Chiu MF, Chang IS, Jiang SS, Tsai FY, Chen CH, et al: Wild-type
p53 upregulates an early onset breast cancer-associated gene GAS7
to suppress metastasis via GAS7-CYFIP1-mediated signaling pathway.
Oncogene. 37:4137–4150. 2018. View Article : Google Scholar : PubMed/NCBI
|
45
|
Teng Y, Qin H, Bahassan A, Bendzunas NG,
Kennedy EJ and Cowell JK: The WASF3-NCKAP1-CYFIP1 complex is
essential for breast cancer metastasis. Cancer Res. 76:5133–5142.
2016. View Article : Google Scholar : PubMed/NCBI
|
46
|
Morrison BH, Bauer JA, Kalvakolanu DV and
Lindner DJ: Inositol hexakisphosphate kinase 2 mediates growth
suppressive and apoptotic effects of interferon-beta in ovarian
carcinoma cells. J Biol Chem. 276:24965–24970. 2001. View Article : Google Scholar : PubMed/NCBI
|
47
|
Grisanzio C, Werner L, Takeda D, Awoyemi
BC, Pomerantz MM, Yamada H, Sooriakumaran P, Robinson BD, Leung R,
Schinzel AC, et al: Genetic and functional analyses implicate the
NUDT11, HNF1B, and SLC22A3 genes in prostate cancer pathogenesis.
Proc Natl Acad Sci U S A. 109:11252–11257. 2012. View Article : Google Scholar : PubMed/NCBI
|
48
|
Bandyopadhyay A, Lakshmanan V, Matsumoto
T, Chang EC and Maitra U: Moe1 and spInt6, the fission yeast
homologues of mammalian translation initiation factor 3 subunits
p66 (eIF3d) and p48 (eIF3e), respectively, are required for stable
association of eIF3 subunits. J Biol Chem. 277:2360–2367. 2002.
View Article : Google Scholar : PubMed/NCBI
|
49
|
Yu X, Zheng B and Chai R:
Lentivirus-mediated knockdown of eukaryotic translation initiation
factor 3 subunit D inhibits proliferation of HCT116 colon cancer
cells. Biosci Rep. 34:e001612014. View Article : Google Scholar : PubMed/NCBI
|
50
|
Sudo H, Tsuji AB, Sugyo A, Kohda M, Sogawa
C, Yoshida C, Harada YN, Hino O and Saga T: Knockdown of COPA,
identified by loss-of-function screen, induces apoptosis and
suppresses tumor growth in mesothelioma mouse model. Genomics.
95:210–216. 2010. View Article : Google Scholar : PubMed/NCBI
|
51
|
Fan Y and Guo Y: Knockdown of eIF3D
inhibits breast cancer cell proliferation and invasion through
suppressing the Wnt/β-catenin signaling pathway. Int J Clin Exp
Pathol. 8:10420–10427. 2015.PubMed/NCBI
|
52
|
Golob-Schwarzl N, Krassnig S, Toeglhofer
AM, Park YN, Gogg-Kamerer M, Vierlinger K, Schröder F, Rhee H,
Schicho R, Fickert P and Haybaeck J: New liver cancer biomarkers:
PI3K/AKT/mTOR pathway members and eukaryotic translation initiation
factors. Eur J Cancer. 83:56–70. 2017. View Article : Google Scholar : PubMed/NCBI
|
53
|
Hershey JW: The role of eIF3 and its
individual subunits in cancer. Biochim Biophys Acta. 1849:792–800.
2015. View Article : Google Scholar : PubMed/NCBI
|
54
|
Sesen J, Cammas A, Scotland SJ, Elefterion
B, Lemarié A, Millevoi S, Mathew LK, Seva C, Toulas C, Moyal ECJ
and Skuli N: Int6/eIF3e is essential for proliferation and survival
of human glioblastoma cells. Int J Mol Sci. 15:2172–2190. 2014.
View Article : Google Scholar : PubMed/NCBI
|
55
|
Feng X, Li J and Liu P: The biological
roles of translation initiation factor 3b. Int J Biol Sci.
14:1630–1635. 2018. View Article : Google Scholar : PubMed/NCBI
|
56
|
Wolf DA, Lin Y, Duan H and Cheng Y:
eIF-Three to Tango: Emerging functions of translation initiation
factor eIF3 in protein synthesis and disease. J Mol Cell Biol.
12:403–409. 2020. View Article : Google Scholar : PubMed/NCBI
|
57
|
Yin Y, Long J, Sun Y, Li H, Jiang E, Zeng
C and Zhu W: The function and clinical significance of eIF3 in
cancer. Gene. 673:130–133. 2018. View Article : Google Scholar : PubMed/NCBI
|
58
|
Luo Y, Chen L, Zhou Q, Xiong Y, Wang G,
Liu X, Xiao Y, Ju L and Wang X: Identification of a prognostic gene
signature based on an immunogenomic landscape analysis of bladder
cancer. J Cell Mol Med. 24:13370–13382. 2020. View Article : Google Scholar : PubMed/NCBI
|
59
|
Undi RB, Filiberti A, Ali N and Huycke MM:
Cellular carcinogenesis: Role of polarized macrophages in cancer
initiation. Cancers (Basel). 14:28112022. View Article : Google Scholar : PubMed/NCBI
|
60
|
Scheper W, Kelderman S, Fanchi LF,
Linnemann C, Bendle G, de Rooij MAJ, Hirt C, Mezzadra R, Slagter M,
Dijkstra K, et al: Low and variable tumor reactivity of the
intratumoral TCR repertoire in human cancers. Nat Med. 25:89–94.
2019. View Article : Google Scholar : PubMed/NCBI
|
61
|
Elia I, Rowe JH, Johnson S, Joshi S,
Notarangelo G, Kurmi K, Weiss S, Freeman GJ, Sharpe AH and Haigi
MC: Tumor cells dictate anti-tumor immune responses by altering
pyruvate utilization and succinate signaling in CD8(+) T cells.
Cell Metab. 34:1137–1150.e1136. 2022. View Article : Google Scholar : PubMed/NCBI
|