PMID: 23583981

Whole-genome sequencing identifies genetic alterations in pediatric low-grade gliomas.

Nature genetics
Zhang, Jinghui J, Wu, Gang G, Miller, Claudia P CP, Tatevossian, Ruth G RG, Dalton, James D JD, Tang, Bo B, Orisme, Wilda W, Punchihewa, Chandanamali C, Parker, Matthew M, Qaddoumi, Ibrahim I, Boop, Fredrick A FA, Lu, Charles C, Kandoth, Cyriac C, Ding, Li L, Lee, Ryan R, Huether, Robert R, Chen, Xiang X, Hedlund, Erin E, Nagahawatte, Panduka P, Rusch, Michael M, Boggs, Kristy K, Cheng, Jinjun J, Becksfort, Jared J, Ma, Jing J, Song, Guangchun G, Li, Yongjin Y, Wei, Lei L, Wang, Jianmin J, Shurtleff, Sheila S, Easton, John J, Zhao, David D, Fulton, Robert S RS, Fulton, Lucinda L LL, Dooling, David J DJ, Vadodaria, Bhavin B, Mulder, Heather L HL, Tang, Chunlao C, Ochoa, Kerri K, Mullighan, Charles G CG, Gajjar, Amar A, Kriwacki, Richard R, Sheer, Denise D, Gilbertson, Richard J RJ, Mardis, Elaine R ER, Wilson, Richard K RK, Downing, James R JR, Baker, Suzanne J SJ, Ellison, David W DW, ,
2013-06

59 variants were identified in this publication


Variant ID Gene cDNA Protein Consequence Exon Intron
2-74600063-G-A DCTN1 c.445C>T p.R149* Nonsense 7/32 -
8-67514698-TT-CA MYBL1 c.80_81delAAinsTG p.K27M Missense 2/16 -
4-72629190-G-T GC c.636C>A p.L212= Synonymous 6/13 -
7-40118378-G-A CDK13 c.2957G>A p.R986H Missense 11/14 -
4-72629190-G-A GC c.636C>T p.L212= Synonymous 6/13 -
7-140402789-G-A NDUFB2 c.222G>A p.W74* Nonsense 2/4 -
22-41564765-C-T EP300 c.4066C>T p.R1356* Nonsense 25/31 -
8-38273565-GAC-CAT FGFR1 c.1675_1677delGTCinsATG p.V559M Missense 13/18 -
8-38272406-T-G FGFR1 c.1868A>C p.D623A Missense 14/18 -
6-135539010-C-G MYB c.2178C>G p.S726R Missense 16/16 -
6-135539010-C-A MYB c.2178C>A p.S726R Missense 16/16 -
6-135539008-A-C MYB c.2176A>C p.S726R Missense 16/16 -
4-1821068-G-C LETM1 c.1740C>G p.S580R Missense 11/14 -
4-1821068-G-T LETM1 c.1740C>A p.S580R Missense 11/14 -
4-1821070-T-G LETM1 c.1738A>C p.S580R Missense 11/14 -
15-93567613-A-T CHD2 c.5165A>T p.D1722V Missense 39/39 -
5-140710553-C-T PCDHGA1 c.302C>T p.P101L Missense 1/4 -
4-72629190-G-C GC c.636C>G p.L212= Synonymous 6/13 -
4-72622446-G-A GC c.1017C>T p.N339= Synonymous 8/13 -
20-62197125-G-A HELZ2 c.3050C>T p.A1017V Missense 9/20 -
8-59498262-C-T NSMAF c.2608G>A p.V870I Missense 30/31 -
17-42855228-C-T ADAM11 c.2067C>T p.H689= Synonymous 23/27 -
X-76937777-C-T ATRX c.2971G>A p.E991K Missense 9/35 -
4-37447119-A-C NWD2 c.3509A>C p.N1170T Missense 7/7 -
7-105189134-C-T RINT1 c.973C>T p.R325W Missense 7/15 -
10-129904112-G-A MKI67 c.5992C>T p.R1998* Nonsense 13/15 -
3-64633620-C-G ADAMTS9 c.1706G>C p.G569A Missense 11/40 -
19-15132166-G-A CCDC105 c.876G>A p.A292= Synonymous 4/7 -
19-2213961-G-A DOT1L c.1773G>A p.A591= Synonymous 18/28 -
19-2213961-G-C DOT1L c.1773G>C p.A591= Synonymous 18/28 -
19-2213961-G-T DOT1L c.1773G>T p.A591= Synonymous 18/28 -
X-53590777-C-T HUWE1 c.7035G>A p.E2345= Synonymous 52/84 -
19-15132166-G-C CCDC105 c.876G>C p.A292= Synonymous 4/7 -
19-15132166-G-T CCDC105 c.876G>T p.A292= Synonymous 4/7 -
12-10783793-G-A STYK1 c.302C>T p.P101L Missense 5/11 -
3-195485996-A-G MUC4 c.14985T>C p.F4995= Synonymous 17/25 -
X-132161649-A-C USP26 c.600T>G p.S200= Synonymous 1/1 -
X-132161649-A-G USP26 c.600T>C p.S200= Synonymous 1/1 -
X-132161649-A-T USP26 c.600T>A p.S200= Synonymous 1/1 -
15-45559715-G-A SLC28A2 c.1005G>A p.A335= Synonymous 11/18 -
15-45559715-G-C SLC28A2 c.1005G>C p.A335= Synonymous 11/18 -
15-45559715-G-T SLC28A2 c.1005G>T p.A335= Synonymous 11/18 -
1-156509309-G-T IQGAP3 c.2913C>A p.A971= Synonymous 25/38 -
1-156509309-G-C IQGAP3 c.2913C>G p.A971= Synonymous 25/38 -
1-156509309-G-A IQGAP3 c.2913C>T p.A971= Synonymous 25/38 -
13-29041734-A-T FLT1 c.85T>A p.L29I Missense 2/30 -
10-97396951-T-C ALDH18A1 c.457A>G p.I153V Missense 5/18 -
7-140454009-G-T BRAF c.1719C>A p.I573= Synonymous 14/18 -
7-140454009-G-A BRAF c.1719C>T p.I573= Synonymous 14/18 -
8-121322292-G-T COL14A1 c.4446G>T p.P1482= Synonymous 37/48 -
8-121322292-G-A COL14A1 c.4446G>A p.P1482= Synonymous 37/48 -
8-121322292-G-C COL14A1 c.4446G>C p.P1482= Synonymous 37/48 -
17-7221962-G-A NEURL4 c.3716C>T p.T1239M Missense 23/29 -
7-140402788-G-A NDUFB2 c.221G>A p.W74* Nonsense 2/4 -
13-29041677-T-C FLT1 c.142A>G p.T48A Missense 2/30 -
18-28914016-A-T DSG1 c.856A>T p.N286Y Missense 8/15 -
13-114287557-C-T TFDP1 c.431C>T p.A144V Missense 6/12 -
12-32260373-G-A BICD1 c.108G>A p.E36= Synonymous 1/10 -
9-6012858-G-A RANBP6 c.2750C>T p.P917L Missense 1/1 -