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Identification of Combinatorial Genomic Abnormalities Associated with Prostate Cancer Early Recurrence

Xiaoyu Qu^1,2, Claudio Jeldres⁵, Lena Glaskova², Cynthia Friedman², Sarah Schroeder², Peter S Nelson^1,4,#, Christopher Porter^3,#, Min Fang^1,2,4,#

¹Fred Hutchinson Cancer Research Center, Seattle, WA
²Seattle Cancer Care Alliance, Seattle, WA
³Virginia Mason Medical Center, Seattle, WA
⁴University of Washington, Seattle, WA
⁵Department of Urology, University of Sherbrooke, Sherbrooke, Canada
^#Co-senior authors

Identification of Combinatorial Genomic Abnormalities Associated with Prostate Cancer Early Recurrence

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Scoring Sheets

Here you can download the scoring results and description data as CSV files suitable to read into Microsoft Excel or Apple Numbers spreadsheet programs.

FISH Results as downloadable CSV spreadsheet file

FISH Descriptions as downloadable CSV spreadsheet file

FISH Results

CaseNumber	TMPRSS2/ERG FISH	AR FISH	PTEN FISH	Panel
Case 1	na	Normal	Normal	na
Case 2	Normal	Normal	Normal	Category 1
Case 3	na	na	na	na
Case 4	Normal	Normal	Normal	Category 1
Case 5	Normal	Normal	Heterozygous deletion	Category 3
Case 6	Normal	Normal	Normal	Category 1
Case 7	CNI	Gain of AR and CEPX but no amplification	Trisomy 10	Category 4
Case 8	na	Normal	Normal	na
Case 9	Alternative rearrangement	Normal	Normal	Category 6
Case 10	Normal	Normal	Normal	Category 1
Case 11	Normal	Normal	Heterozygous deletion	Category 3
Case 12	na	na	na	na
Case 13	Normal	Normal	Normal	Category 1
Case 14	Rearranged 3'ERG	Normal	Heterozygous deletion	Category 5
Case 15	Normal	Normal	Normal	Category 1
Case 16	Normal	Normal	Normal	Category 1
Case 17	Normal	Normal	Normal	Category 1
Case 18	Typical fusion	Normal	Normal	Category 2
Case 19	Typical fusion	Normal	Normal	Category 2
Case 20	Normal	Normal	Normal	Category 1
Case 21	Normal	Normal	Heterozygous deletion	Category 3
Case 22	Normal	Normal	Normal	Category 1
Case 23	na	na	na	na
Case 24	Rearranged 3'ERG	Normal	Heterozygous deletion	Category 5
Case 25	na	na	na	na
Case 26	na	Normal	na	na
Case 27	Rearranged 3'ERG	Normal	Normal	Category 2
Case 28	Normal	Normal	Normal	Category 1
Case 29	Normal	Normal	Normal	Category 1
Case 30	Normal	Normal	Normal	Category 1
Case 31	Normal	Normal	Normal	Category 1
Case 33	Atypical or complex fusion	Normal	Homozygous deletion	Category 5
Case 34	Normal	Normal	Normal	Category 1
Case 35	Rearranged 3'ERG	Normal	Normal	Category 2
Case 36	Typical fusion	Normal	Normal	Category 2
Case 37	Normal	Normal	Normal	Category 1
Case 38	CNI	Normal	Trisomy 10	Category 6
Case 39	na	na	na	na
Case 40	Typical fusion	Normal	Normal	Category 2
Case 41	Typical fusion	Normal	Normal	Category 2
Case 42	na	Normal	na	na
Case 43	na	na	na	na
Case 44	Atypical or complex fusion	Normal	Heterozygous deletion	Category 5
Case 45	na	na	na	na
Case 46	Normal	Normal	Normal	Category 1
Case 47	na	Normal	Normal	na
Case 48	Typical fusion	Normal	Homozygous deletion	Category 5
Case 49	Typical fusion	Normal	Trisomy 10	Category 2
Case 50	na	na	na	na
Case 51	na	Normal	na	na
Case 52	Normal	Normal	Normal	Category 1
Case 53	Typical fusion	Gain of AR and CEPX but no amplification	Trisomy 10	Category 4
Case 54	Normal	Normal	Normal	Category 1
Case 55	Rearranged 3'ERG	Normal	Normal	Category 2
Case 56	Normal	Normal	Normal	Category 1
Case 57	Normal	Normal	Heterozygous deletion	Category 3
Case 58	Normal	Normal	Normal	Category 1
Case 59	Normal	Normal	Normal	Category 1
Case 60	Normal	Normal	Normal	Category 1
Case 61	Atypical or complex fusion	Normal	Homozygous deletion	Category 5
Case 62	Normal	Normal	Normal	Category 1
Case 63	Rearranged 3'ERG	Normal	na	na
Case 64	na	na	na	na
Case 65	Alternative rearrangement	Normal	Normal	Category 6
Case 66	Atypical or complex fusion	Normal	Normal	Category 2
Case 67	Normal	Normal	Normal	Category 1
Case 68	na	Normal	na	na
Case 69	na	Normal	Normal	na
Case 70	Alternative rearrangement	Normal	Normal	Category 6
Case 71	Normal	Normal	Normal	Category 1
Case 72	Typical fusion	Normal	Normal	Category 2
Case 74	Rearranged 3'ERG	Normal	Heterozygous deletion	Category 5
Case 75	Typical fusion	Normal	Monosomy 10	Category 5
Case 76	Atypical or complex fusion	Normal	Normal	Category 2
Case 77	Typical fusion	Normal	Normal	Category 2
Case 78	Normal	Normal	Normal	Category 1
Case 79	Typical fusion	Normal	Normal	Category 2
Case 80	Normal	Normal	Heterozygous deletion	Category 3
Case 81	Normal	Normal	Normal	Category 1
Case 82	na	na	na	na
Case 83	Normal	Normal	Monosomy 10	Category 3
Case 84	Typical fusion	Normal	Normal	Category 2
Case 85	Typical fusion	Normal	Normal	Category 2
Case 86	na	na	na	na
Case 87	Normal	Normal	Heterozygous deletion	Category 3
Case 88	Normal	Normal	Normal	Category 1
Case 89	na	na	na	na
Case 90	na	Normal	na	na
Case 91	na	na	na	na
Case 92	Typical fusion	Normal	Homozygous deletion	Category 5
Case 93	Typical fusion	Normal	Homozygous deletion	Category 5
Case 94	Normal	Normal	Normal	Category 1
Case 95	CNI	Normal	Heterozygous deletion	Category 3
Case 96	Normal	Normal	Normal	Category 1
Case 97	Alternative rearrangement	Normal	Normal	Category 6
Case 98	Normal	Normal	na	na
Case 99	na	na	na	na
Case 100	na	na	na	na
Case 101	Typical fusion	Normal	Heterozygous deletion	Category 5
Case 102	Atypical or complex fusion	Normal	Normal	Category 2
Case 103	Typical fusion	Normal	Normal	Category 2
Case 104	Normal	Normal	Normal	Category 1
Case 105	na	na	na	na
Case 106	na	na	na	na
Case 108	Alternative rearrangement	Normal	Trisomy 10	Category 6
Case 109	Typical fusion	Gain of AR and CEPX but no amplification	Trisomy 10	Category 4
Case 110	na	na	na	na
Case 111	na	na	na	na
Case 112	Normal	Normal	Normal	Category 1
Case 113	Typical fusion	Normal	Normal	Category 2
Case 114	Normal	Normal	Normal	Category 1
Case 115	Atypical or complex fusion	na	Heterozygous deletion	na
Case 116	Normal	Normal	Normal	Category 1
Case 117	Normal	Normal	Normal	Category 1
Case 118	Typical fusion	Normal	Normal	Category 2
Case 119	Normal	Normal	Normal	Category 1
Case 120	Atypical or complex fusion	na	na	na
Case 121	na	Normal	Normal	na
Case 122	Normal	Normal	Normal	Category 1
Case 123	Normal	Normal	Normal	Category 1
Case 124	Typical fusion	Normal	Normal	Category 2
Case 125	CNI	Normal	Trisomy 10	Category 6
Case 126	Normal	Normal	Normal	Category 1
Case 127	na	na	na	na
Case 128	Typical fusion	Normal	Normal	Category 2
Case 129	na	Normal	Normal	na
Case 130	na	Normal	Trisomy 10	na
Case 131	na	na	na	na
Case 132	na	Normal	Heterozygous deletion	na
Case 133	na	na	na	na
Case 134	Typical fusion	Normal	Normal	Category 2
Case 135	Atypical or complex fusion	Normal	Normal	Category 2
Case 136	Normal	Normal	Normal	Category 1
Case 137	Normal	Normal	Normal	Category 1
Case 138	na	Normal	Normal	na
Case 139	Typical fusion	Normal	Heterozygous deletion	Category 5
Case 140	CNI	Normal	Normal	Category 6
Case 141	Typical fusion	Normal	Normal	Category 2
Case 142	CNI	Normal	Normal	Category 6
Case 143	Normal	Normal	Normal	Category 1
Case 144	na	Normal	Normal	na
Case 145	Normal	Normal	Normal	Category 1
Case 146	Normal	Normal	Normal	Category 1
Case 147	Atypical or complex fusion	Normal	Heterozygous deletion	Category 5
Case 148	Normal	na	na	na
Case 149	na	Normal	Normal	na
Case 150	CNI	Normal	Normal	Category 6
Case 151	Normal	Normal	Normal	Category 1
Case 152	na	na	na	na
Case 153	Typical fusion	Normal	Normal	Category 2
Case 154	Normal	Gain of AR and CEPX but no amplification	Trisomy 10	Category 4
Case 155	Typical fusion	Normal	Normal	Category 2
Case 156	Typical fusion	Normal	Normal	Category 2
Case 158	Normal	Normal	Normal	Category 1
Case 159	na	na	na	na
Case 160	Typical fusion	Normal	Heterozygous deletion	Category 5
Case 161	na	na	na	na
Case 162	Atypical or complex fusion	Normal	Normal	Category 2
Case 163	Typical fusion	Normal	Normal	Category 2
Case 164	Normal	Gain of AR and CEPX but no amplification	Trisomy 10	Category 4
Case 165	Normal	Normal	Normal	Category 1
Case 166	na	na	na	na
Case 167	na	na	na	na
Case 168	na	Normal	Normal	na
Case 169	Normal	Normal	Heterozygous deletion	Category 3
Case 170	Typical fusion	Normal	Normal	Category 2
Case 171	Atypical or complex fusion	Normal	Normal	Category 2
Case 172	Typical fusion	Normal	Normal	Category 2
Case 173	Normal	Normal	Normal	Category 1
Case 174	CNI	Normal	Trisomy 10	Category 6
Case 175	CNI	Gain of AR and CEPX but no amplification	Homozygous deletion	Category 3
Case 176	na	na	na	na
Case 177	Atypical or complex fusion	Normal	Normal	Category 2
Case 178	Atypical or complex fusion	Normal	Trisomy 10	Category 2
Case 179	Normal	Normal	Normal	Category 1
Case 180	na	na	na	na
Case 181	Rearranged 3'ERG	Normal	Normal	Category 2
Case 182	Normal	Normal	Normal	Category 1
Case 183	Normal	Normal	Normal	Category 1
Case 184	Normal	Normal	Normal	Category 1
Case 185	Atypical or complex fusion	Normal	Normal	Category 2
Case 186	Normal	Normal	Normal	Category 1
Case 187	Atypical or complex fusion	Normal	Normal	Category 2
Case 188	Typical fusion	Normal	Normal	Category 2
Case 189	Atypical or complex fusion	Normal	Normal	Category 2
Case 190	Normal	Normal	Normal	Category 1
Case 191	na	na	na	na
Case 192	Normal	Normal	Normal	Category 1
Case 193	na	na	na	na
Case 194	na	na	na	na
Case 195	Normal	na	na	na
Case 196	Alternative rearrangement	Normal	Normal	Category 6
Case 197	na	na	na	na
Case 198	Atypical or complex fusion	Normal	Normal	Category 2
Case 199	na	na	na	na
Case 200	Typical fusion	Normal	na	na
Case 201	Alternative rearrangement	Normal	Normal	Category 6
Case 202	Normal	Normal	Normal	Category 1
Case 203	CNI	Normal	Normal	Category 6
Case 204	na	na	na	na
Case 205	CNI	Gain of AR and CEPX but no amplification	Trisomy 10	Category 4
Case 206	Atypical or complex fusion	Normal	Normal	Category 2
Case 207	Atypical or complex fusion	Normal	Trisomy 10	Category 2
Case 208	Typical fusion	Normal	Homozygous deletion	Category 5
Case 209	CNI	Gain of AR and CEPX but no amplification	Trisomy 10	Category 4
Case 210	Atypical or complex fusion	Normal	Normal	Category 2

FISH Descriptions

FISH marker	Result	Description
All	na	Data not available
TMPRSS2/ERG	Typical fusion	The fusion between 5?TMPRSS2 and 3?ERG with the interstitial region on chromosome 21 deleted
TMPRSS2/ERG	Atypical fusion	The fusion between 5?TMPRSS2 and 3?ERG with the interstitial region on chromosome 21 translocated elsewhere
TMPRSS2/ERG	Complex fusion	The coexistence of fusion with another rearrangement of either TMPRSS2 or ERG, or both, on the other allele
TMPRSS2/ERG	Rearranged 3'ERG	Separation of the 5?- and the 3?- boundaries of the ERG locus without changes in the TMPRSS2 locus
TMPRSS2/ERG	Alternative rearrangement	All other rearrangements of the TMPRSS2 and/or ERG that do not fall within the above categories
TMPRSS2/ERG	CNI	The presence of three or more copies of TMPRSS2 and ERG per nucleus without rearrangement
AR/CEPX	Gain of AR and CEPX, but no amplification	The presence of two or more AR and CEPX per nucleus
PTEN/CEP10	Heterozygous deletion	A ratio of the total number of PTEN divided by the total number of CEP10 signals equal or below 0.75
PTEN/CEP10	Homozygous deletion	A ratio of the total number of PTEN divided by the total number of CEP10 signals equal or below 0.2
PTEN/CEP10	Monosomy 10	The presence of one each of PTEN and CEP10 per nucleus
PTEN/CEP10	Trisomy 10	The presence of three or more PTEN and CEP10 per nucleus
Panel	Category 1	Normal by all FISH tests
Panel	Category 2	TMPRSS2:ERG fusion without PTEN deletion
Panel	Category 3	PTEN deletion without rearrangement of TMPRSS2 or ERG
Panel	Category 4	AR gain plus trisomy 10
Panel	Category 5	PTEN deletion plus ERG rearrangements, which include TMPRSS2:ERG fusion and rearrangement of 3'ERG alone
Panel	Category 6	All remaining combinations of abnormal results