Detail
Article
Online article
FT
Medvik - BMC
  • Something wrong with this record ?

Transfer-RNA-Derived Fragments Are Potential Prognostic Factors in Patients with Squamous Cell Carcinoma of the Head and Neck

X. Gu, L. Wang, PJ. Coates, L. Boldrup, R. Fåhraeus, T. Wilms, N. Sgaramella, K. Nylander

. 2020 ; 11 (11) : . [pub] 20201113

Language English Country Switzerland

Document type Journal Article, Research Support, Non-U.S. Gov't

Persistent link   https://www.medvik.cz/link/bmc21026418

Transfer-RNA-derived fragments (tRFs) are a class of small non-coding RNAs that are functionally different from their parental transfer RNAs (tRNAs). tRFs can regulate gene expression by several mechanisms, and are involved in a variety of pathological processes. Here, we aimed at understanding the composition and abundance of tRFs in squamous cell carcinoma of the head and neck (SCCHN), and evaluated the potential of tRFs as prognostic markers in this cancer type. We obtained tRF expression data from The Cancer Genome Atlas (TCGA) HNSC cohort (523 patients) using MINTbase v2.0, and correlated to available TCGA clinical data. RNA-binding proteins were predicted according to the calculated Position Weight Matrix (PWM) score from the RNA-Binding Protein DataBase (RBPDB). A total of 10,158 tRFs were retrieved and a high diversity in expression levels was seen. Fifteen tRFs were found to be significantly associated with overall survival (Kaplan-Meier survival analysis, log rank test p-value < 0.01). The top prognostic marker, tRF-20-S998LO9D (p < 0.001), was further measured in tumor and tumor-free samples from 16 patients with squamous cell carcinoma of the oral tongue and 12 healthy controls, and was significantly upregulated in tumor compared to matched tumor-free tongue (p < 0.001). Results suggest that tRFs are useful prognostic markers in SCCHN.

References provided by Crossref.org

000      
00000naa a2200000 a 4500
001      
bmc21026418
003      
CZ-PrNML
005      
20211026132921.0
007      
ta
008      
211013s2020 sz f 000 0|eng||
009      
AR
024    7_
$a 10.3390/genes11111344 $2 doi
035    __
$a (PubMed)33202812
040    __
$a ABA008 $b cze $d ABA008 $e AACR2
041    0_
$a eng
044    __
$a sz
100    1_
$a Gu, Xiaolian $u Department of Medical Biosciences/Pathology, Umeå University, 90185 Umeå, Sweden
245    10
$a Transfer-RNA-Derived Fragments Are Potential Prognostic Factors in Patients with Squamous Cell Carcinoma of the Head and Neck / $c X. Gu, L. Wang, PJ. Coates, L. Boldrup, R. Fåhraeus, T. Wilms, N. Sgaramella, K. Nylander
520    9_
$a Transfer-RNA-derived fragments (tRFs) are a class of small non-coding RNAs that are functionally different from their parental transfer RNAs (tRNAs). tRFs can regulate gene expression by several mechanisms, and are involved in a variety of pathological processes. Here, we aimed at understanding the composition and abundance of tRFs in squamous cell carcinoma of the head and neck (SCCHN), and evaluated the potential of tRFs as prognostic markers in this cancer type. We obtained tRF expression data from The Cancer Genome Atlas (TCGA) HNSC cohort (523 patients) using MINTbase v2.0, and correlated to available TCGA clinical data. RNA-binding proteins were predicted according to the calculated Position Weight Matrix (PWM) score from the RNA-Binding Protein DataBase (RBPDB). A total of 10,158 tRFs were retrieved and a high diversity in expression levels was seen. Fifteen tRFs were found to be significantly associated with overall survival (Kaplan-Meier survival analysis, log rank test p-value < 0.01). The top prognostic marker, tRF-20-S998LO9D (p < 0.001), was further measured in tumor and tumor-free samples from 16 patients with squamous cell carcinoma of the oral tongue and 12 healthy controls, and was significantly upregulated in tumor compared to matched tumor-free tongue (p < 0.001). Results suggest that tRFs are useful prognostic markers in SCCHN.
650    _2
$a nádorové biomarkery $x genetika $7 D014408
650    _2
$a studie případů a kontrol $7 D016022
650    _2
$a databáze faktografické $7 D016208
650    _2
$a nádory hlavy a krku $x genetika $x mortalita $7 D006258
650    _2
$a lidé $7 D006801
650    _2
$a Kaplanův-Meierův odhad $7 D053208
650    _2
$a prognóza $7 D011379
650    _2
$a RNA transferová $x genetika $7 D012343
650    _2
$a proteiny vázající RNA $x genetika $7 D016601
650    _2
$a dlaždicobuněčné karcinomy hlavy a krku $x genetika $x mortalita $7 D000077195
655    _2
$a časopisecké články $7 D016428
655    _2
$a práce podpořená grantem $7 D013485
700    1_
$a Wang, Lixiao $u Department of Medical Biosciences/Pathology, Umeå University, 90185 Umeå, Sweden
700    1_
$a Coates, Philip J $u Regional Centre for Applied Molecular Oncology (RECAMO), Masaryk Memorial Cancer Institute, 65653 Brno, Czech Republic
700    1_
$a Boldrup, Linda $u Department of Medical Biosciences/Pathology, Umeå University, 90185 Umeå, Sweden
700    1_
$a Fåhraeus, Robin $u Department of Medical Biosciences/Pathology, Umeå University, 90185 Umeå, Sweden $u Regional Centre for Applied Molecular Oncology (RECAMO), Masaryk Memorial Cancer Institute, 65653 Brno, Czech Republic $u Institute of Molecular Genetics, University Paris 7, St. Louis Hospital, 75010 Paris, France
700    1_
$a Wilms, Torben $u Department of Clinical Sciences/ENT, Umeå University, 90185 Umeå, Sweden
700    1_
$a Sgaramella, Nicola $u Department of Medical Biosciences/Pathology, Umeå University, 90185 Umeå, Sweden
700    1_
$a Nylander, Karin $u Department of Medical Biosciences/Pathology, Umeå University, 90185 Umeå, Sweden
773    0_
$w MED00174652 $t Genes $x 2073-4425 $g Roč. 11, č. 11 (2020)
856    41
$u https://pubmed.ncbi.nlm.nih.gov/33202812 $y Pubmed
910    __
$a ABA008 $b sig $c sign $y p $z 0
990    __
$a 20211013 $b ABA008
991    __
$a 20211026132928 $b ABA008
999    __
$a ok $b bmc $g 1715208 $s 1146925
BAS    __
$a 3
BAS    __
$a PreBMC
BMC    __
$a 2020 $b 11 $c 11 $e 20201113 $i 2073-4425 $m Genes $n Genes $x MED00174652
LZP    __
$a Pubmed-20211013

Find record

Citation metrics

Archiving options