PubMed:
20465837
PubMedCentral:
PMC2875220
Expression analysis of genes associated with human osteosarcoma tumors shows correlation of RUNX2 overexpression with poor response to chemotherapy.
Sadikovic B, Thorner P, Chilton-Macneill S, Martin JW, Cervigne NK, Squire J, Zielenska M
BMC cancer, 202
, 2010
Abstract:
BACKGROUND: Human osteosarcoma is the most common pediatric bone tumor. There is limited understanding of the molecular mechanisms underlying osteosarcoma oncogenesis, and a lack of good diagnostic as well as prognostic clinical markers for this disease. Recent discoveries have highlighted a potential role of a number of genes including: RECQL4, DOCK5, SPP1, RUNX2, RB1, CDKN1A, P53, IBSP, LSAMP, MYC, TNFRSF1B, BMP2, HISTH2BE, FOS, CCNB1, and CDC5L. METHODS: Our objective was to assess relative expression levels of these 16 genes as potential biomarkers of osteosarcoma oncogenesis and chemotherapy response in human tumors. We performed quantitative expression analysis in a panel of 22 human osteosarcoma tumors with differential response to chemotherapy, and 5 normal human osteoblasts. RESULTS: RECQL4, SPP1, RUNX2, and IBSP were significantly overexpressed, and DOCK5, CDKN1A, RB1, P53, and LSAMP showed significant loss of expression relative to normal osteoblasts. In addition to being overexpressed in osteosarcoma tumor samples relative to normal osteoblasts, RUNX2 was the only gene of the 16 to show significant overexpression in tumors that had a poor response to chemotherapy relative to good responders. CONCLUSION: These data underscore the loss of tumor suppressive pathways and activation of specific oncogenic mechanisms associated with osteosarcoma oncogenesis, while drawing attention to the role of RUNX2 expression as a potential biomarker of chemotherapy failure in osteosarcoma.
Organism/Genes in external databases
Best predicted genome from sequences:
Homo sapiens
Best predicted genes based on DNA sequences found in paper:
| Symbol |
Ensembl |
Sequences |
| RUNX2 |
ENSG00000124813 |
0,1 |
| DOCK5 |
ENSG00000147459 |
2,3 |
| TNFRSF10A |
ENSG00000104689 |
4,5 |
| HIST2H2BE |
ENSG00000184678 |
6,7 |
| TP53 |
ENSG00000141510 |
8,9 |
| CDKN1A |
ENSG00000124762 |
10,11 |
| CCNB1 |
ENSG00000134057 |
12,13 |
| BMP2 |
ENSG00000125845 |
14,15 |
| IBSP |
ENSG00000029559 |
16,17 |
| SPP1 |
ENSG00000118785 |
18,19 |
| LSAMP |
ENSG00000185565 |
20,21 |
| MYC |
ENSG00000136997 |
22,23 |
| RECQL4 |
ENSG00000160957 |
24,25 |
| CDC5L |
ENSG00000096401 |
26,27 |
| RB1 |
ENSG00000139687 |
28,29 |
| FOS |
ENSG00000170345 |
31,30 |
| PGK1 |
ENSG00000102144 |
32,33 |
Genome Annotation: Links to best and chained genome matches
| SeqNo |
Coordinate Range |
| 20, 21 |
chr3:115529213-115560781 |
| 16, 17 |
chr4:88727272-88731822 |
| 14, 15 |
chr20:6751009-6758928 |
| 22, 23 |
chr8:128751219-128752718 |
| 10, 11 |
chr6:36652283-36653580 |
| 6, 7 |
chr1:149814664-149858217 |
| 12, 13 |
chr5:68473118-68473384 |
| 18, 19 |
chr4:88902882-88903676 |
| 2 |
chr8:25042378-25042398 |
| 4, 5 |
chr8:23049477-23054703 |
| 0, 1 |
chr6:45512965-45514617 |
| 32, 33 |
chrX:77380861-77381355 |
| 26, 27 |
chr6:44413513-44414377 |
| 8, 9 |
chr17:7572966-7574007 |
| 3 |
chr8:25101214-25101234 |
| 30, 31 |
chr14:75745752-75746626 |
| 28, 29 |
chr13:49051517-49054231 |
| 24, 25 |
chr8:145739720-145740338 |
Recognized sequences in fulltext
| SeqNo |
file name |
Recognized DNA |
| 0 |
PMC2875220.S2.xls |
CCACCTCTGACTTCTGCCTC |
| 1 |
PMC2875220.S2.xls |
ATGAAATGCTTGGGAACTGC |
| 2 |
PMC2875220.S2.xls |
CTGTAGCAGCCTTAGTCGCC |
| 3 |
PMC2875220.S2.xls |
GCAAGGAGAGCTCCACATCT |
| 4 |
PMC2875220.S2.xls |
TGAAGGGTCTCAGAGGAGGA |
| 5 |
PMC2875220.S2.xls |
GAGTCAAAGGGCACGATGTT |
| 6 |
PMC2875220.S2.xls |
TAAGCCGCGTTTGTACTGTG |
| 7 |
PMC2875220.S2.xls |
CGTCTTTCTTCTGGGCTTTG |
| 8 |
PMC2875220.S2.xls |
GTTCCGAGAGCTGAATGAGG |
| 9 |
PMC2875220.S2.xls |
TTATGGCGGGAGGTAGACTG |
| 10 |
PMC2875220.S2.xls |
GACTCTCAGGGTCGAAAACG |
| 11 |
PMC2875220.S2.xls |
GGATTAGGGCTTCCTCTTGG |
| 12 |
PMC2875220.S2.xls |
TATGCAGCACCTGGCTAAGA |
| 13 |
PMC2875220.S2.xls |
CATGCTTCGATGTGGCATAC |
| 14 |
PMC2875220.S2.xls |
GCTAGACCTGTATCGCAGGC |
| 15 |
PMC2875220.S2.xls |
GTTTTCCCACTCGTTTCTGG |
| 16 |
PMC2875220.S2.xls |
GGGCAGTAGTGACTCATCCG |
| 17 |
PMC2875220.S2.xls |
TTCTCAGCCTCAGAGTCTTCA |
| 18 |
PMC2875220.S2.xls |
GCCGAGGTGATAGTGTGGTT |
| 19 |
PMC2875220.S2.xls |
TGAGGTGATGTCCTCGTCTG |
| 20 |
PMC2875220.S2.xls |
TGACCAACGTCACTGAGGAG |
| 21 |
PMC2875220.S2.xls |
GTACGGCCAGACTGATGGAT |
| 22 |
PMC2875220.S2.xls |
CTGGTGCTCCATGAGGAGA |
| 23 |
PMC2875220.S2.xls |
CTCTGACCTTTTGCCAGGAG |
| 24 |
PMC2875220.S2.xls |
GTCACTCATGGATGACCAGG |
| 25 |
PMC2875220.S2.xls |
AGCACGTGTACCTGGGCTG |
| 26 |
PMC2875220.S2.xls |
ATGGGACCAAATTGAACAGG |
| 27 |
PMC2875220.S2.xls |
TTTCTTGTTGTCGCTGAACG |
| 28 |
PMC2875220.S2.xls |
TCAGCAGAAACTGGCAGAAA |
| 29 |
PMC2875220.S2.xls |
GTGTCCACCAAGGTCCTGAG |
| 30 |
PMC2875220.S2.xls |
CCGGGGATAGCCTCTCTTAC |
| 31 |
PMC2875220.S2.xls |
GTGGGAATGAAGTTGGCACT |
| 32 |
PMC2875220.S2.xls |
ACGGAGGATAAAGTCAGCCA |
| 33 |
PMC2875220.S2.xls |
TGCACAGGAACTAAAAGGCA |
Display recognized sequences in FASTA format