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Virus Dataset Sample Info

> Dataset: 30531861 Search Result


Summary
Item Summary
Project 30531861
Virus Name AAV2
Sample Number 160
Disease Hepatocellular carcinoma (HCC)
Country French
Data Link https://www.ebi.ac.uk/ega/studies/EGAS00001002879
https://www.ebi.ac.uk/ega/studies/EGAS00001000217
https://www.ebi.ac.uk/ega/studies/EGAS00001001002
https://www.ebi.ac.uk/ega/studies/EGAS00001003063
https://www.ebi.ac.uk/ega/studies/EGAS00001002408
https://www.ebi.ac.uk/ega/studies/EGAS00001000706
https://www.ebi.ac.uk/ega/studies/EGAS00001002888
https://dcc.icgc.org/releases/release_27

Sample
ID Sample ID Age Gender Origin Detail
1 BCB307T 59 M French View
2 BCM257T 53 M French View
3 BCM269T 67 M French View
4 CHC018T 35 F French View
5 CHC051T 69 F French View
6 CHC1010T 53 F French View
7 CHC1040T 73 M French View
8 CHC1041T 69 M French View
9 CHC1052T 75 M French View
10 CHC1053T 74 M French View
11 CHC1055T 68 M French View
12 CHC1061T 79 F French View
13 CHC1137T 57 M French View
14 CHC1148T 69 M French View
15 CHC1180T 65 M French View
16 CHC1183T 60 M French View
17 CHC1185T 53 M French View
18 CHC1207T 60 M French View
19 CHC1208T 47 M French View
20 CHC1210T 44 F French View
21 CHC1211T 32 F French View
22 CHC121T 67 M French View
23 CHC129T 62 F French View
24 CHC1530T 64 M French View
25 CHC1534T 67 M French View
26 CHC1539T 45 M French View
27 CHC1545T 77 M French View
28 CHC1548T 55 M French View
29 CHC1568T 71 M French View
30 CHC1594T 76 F French View
31 CHC1598T 76 F French View
32 CHC1602T 71 M French View
33 CHC1600T 69 M French View
34 CHC1704T 43 M French View
35 CHC1603T 78 M French View
36 CHC1604T 57 M French View
37 CHC1616T 77 F French View
38 CHC1626T 75 M French View
39 CHC1629T 64 M French View
40 CHC1715T 72 M French View
41 CHC1717T 50 M French View
42 CHC1731T 55 F French View
43 CHC1725T 83 F French View
44 CHC1754T 34 M French View
45 CHC1732T 49 M French View
46 CHC1736T 58 M French View
47 CHC1737T 73 M French View
48 CHC1739T 55 M French View
49 CHC1741T 57 M French View
50 CHC1742T 67 M French View
51 CHC1744T 50 M French View
52 CHC1745T 69 F French View
53 CHC1746T 75 M French View
54 CHC1747T 54 M French View
55 CHC1749T 66 M French View
56 CHC1753T 65 M French View
57 CHC197T 73 M French View
58 CHC1756T 73 M French View
59 CHC1757T 41 M French View
60 CHC1763T 75 M French View
61 CHC1994T 57 M French View
62 CHC2048T 65 M French View
63 CHC2043T 21 F French View
64 CHC2103T 57 M French View
65 CHC2111T 56 F French View
66 CHC2112T 48 F French View
67 CHC2128T 53 F French View
68 CHC2113T 61 M French View
69 CHC2115T 75 M French View
70 CHC2206T 90 M French View
71 CHC2132T 57 M French View
72 CHC2135T 57 F French View
73 CHC2141T 74 M French View
74 CHC218T 69 M French View
75 CHC2200T 69 M French View
76 CHC1591T 60 M French View
77 CHC2207T 49 M French View
78 CHC2208T 53 M French View
79 CHC2210T 66 M French View
80 CHC2415T 68 M French View
81 CHC2443T 74 M French View
82 CHC2448T 82 M French View
83 CHC2449T 81 M French View
84 CHC2491T 66 M French View
85 CHC2538T 76 F French View
86 CHC2539T 41 F French View
87 CHC253T 67 M French View
88 CHC2558T 70 M French View
89 CHC2560T 74 M French View
90 CHC2686T 52 F French View
91 CHC2687T 76 M French View
92 CHC2691T 68 M French View
93 CHC2695T 94 M French View
94 CHC2696T 66 M French View
95 CHC2697T 64 M French View
96 CHC2706T 70 M French View
97 CHC2707T 79 M French View
98 CHC2844T 55 M French View
99 CHC2899T 52 M French View
100 CHC3029T 54 F French View
101 CHC302T 72 M French View
102 CHC304T 77 M French View
103 CHC306T 68 M French View
104 CHC309T 69 F French View
105 CHC313T 43 F French View
106 CHC314T 71 M French View
107 CHC320T 65 M French View
108 CHC322T 74 M French View
109 CHC3238T 58 F French View
110 CHC327T 63 M French View
111 CHC3618T 53 M French View
112 CHC3619T 66 M French View
113 CHC3620T 35 M French View
114 CHC3621T 55 M French View
115 CHC3624T 64 M French View
116 CHC3626T 82 M French View
117 CHC3627T 55 M French View
118 CHC3628T 86 M French View
119 CHC3631T 85 M French View
120 CHC3633T 70 M French View
121 CHC3638T 84 M French View
122 CHC3641T 47 M French View
123 CHC3643T 53 M French View
124 CHC3644T 50 M French View
125 CHC3647T 56 M French View
126 CHC3650T 67 F French View
127 CHC3716T 53 F French View
128 CHC3788T 58 M French View
129 CHC3798T 51 F French View
130 CHC3825T 74 M French View
131 CHC3864T 69 M French View
132 CHC3880T 32 F French View
133 CHC3894T 56 M French View
134 CHC3914T 68 M French View
135 CHC4041T 64 F French View
136 CHC4042T 58 F French View
137 CHC4043T 72 M French View
138 CHC4046T 58 M French View
139 CHC4049T 42 M French View
140 CHC4051T 72 M French View
141 CHC4055T 62 M French View
142 CHC429T 64 F French View
143 CHC432T 70 M French View
144 CHC433T 70 M French View
145 CHC609T 60 M French View
146 CHC614T 61 M French View
147 CHC736T 77 M French View
148 CHC793T 61 M French View
149 CHC794T 73 M French View
150 CHC796T 76 M French View
151 CHC884T 75 M French View
152 CHC889T 71 M French View
153 CHC891T 73 F French View
154 CHC892T 72 F French View
155 CHC898T 71 M French View
156 CHC900T 41 M French View
157 CHC909T 70 M French View
158 CHC912T 78 M French View
159 CHC961T 57 M French View
160 CHC985T 55 M French View

Seq Data
GeneBank/SRA/GEO/ENA/EGA ID URL
EGAS00001002879 https://www.ebi.ac.uk/ega/studies/EGAS00001002879
EGAS00001000217 https://www.ebi.ac.uk/ega/studies/EGAS00001000217
EGAS00001001002 https://www.ebi.ac.uk/ega/studies/EGAS00001001002
EGAS00001003063 https://www.ebi.ac.uk/ega/studies/EGAS00001003063
EGAS00001002408 https://www.ebi.ac.uk/ega/studies/EGAS00001002408
EGAS00001000706 https://www.ebi.ac.uk/ega/studies/EGAS00001000706
EGAS00001002888 https://www.ebi.ac.uk/ega/studies/EGAS00001002888
https://dcc.icgc.org/releases/release_27

Literature
Item Summary
PMID 30531861
Title Cyclin A2/E1 Activation Defines a Hepatocellular Carcinoma Subclass With a Rearrangement Signature of Replication Stress
Abstract Cyclins A2 and E1 regulate the cell cycle by promoting S phase entry and progression. Here, we identify a hepatocellular carcinoma (HCC) subgroup exhibiting cyclin activation through various mechanisms including hepatitis B virus (HBV) and adeno-associated virus type 2 (AAV2) insertions, enhancer hijacking and recurrent CCNA2 fusions. Cyclin A2 or E1 alterations define a homogenous entity of aggressive HCC, mostly developed in non-cirrhotic patients, characterized by a transcriptional activation of E2F and ATR pathways and a high frequency of RB1 and PTEN inactivation. Cyclin-driven HCC display a unique signature of structural rearrangements with hundreds of tandem duplications and templated insertions frequently activating TERT promoter. These rearrangements, strongly enriched in early-replicated active chromatin regions, are consistent with a break-induced replication mechanism. Pan-cancer analysis reveals a similar signature in BRCA1-mutated breast and ovarian cancers. Together, this analysis reveals a new poor prognosis HCC entity and a rearrangement signature related to replication stress.