Noi/NOTES/2014-8-3

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Preparation of WGBS libraries of small fragment DNA in plasma samples (no DNA fragmentation step)

Calendar

Select plasma DNA samples for WGBS

Pancreas (UCSD-004)

Diagnosis Conc. (ng/uL) Volume (ul) Yields (ng) Selected for WGBS Zhang lab ID
Adenocarcinoma, moderately to poorly differentiated, c/w pT3N0MX 0.473 30.00 14.19 PC-P-1
Adenocarcinoma, ductal type, moderately to poorly differentiated, pT3N1MX 0.852 30.00 25.56 YES PC-P-2
Poorly differentiated adenocarcinoma, ductal type, pT3N1MX 1.360 30.00 40.80 YES PC-P-3
Adenocarcinoma, ductal type, moderately to poorly differentiated, involving head and body of pancreas and invading into duodenal submucosa and peripancreatic soft tissue, c/w pT3N1MX 0.340 30.00 10.20 YES PC-P-4
Poorly differentiated pancreatic ductal adenocarcinoma, invading into duodenum, consistent with pT3N0MX 0.813 30.00 24.39 YES PC-P-5
Invasive pancreatic duct adenocarcinoma, moderately to poorly differentiated, Stage: ypT3N1MX, Stage IIB 0.767 30.00 23.01 YES PC-P-6
Invasice ductal adenocarcinoma of the pancreas, moderately to poorly differentiated, T3N1MX, stage IIB 0.644 30.00 19.32 YES PC-P-7
Metastatic pancreatic adenocarcinoma 0.524 30.00 15.72 YES PC-P-8
Metastatic adenocarcinoma 0.238 30.00 7.14 YES PC-P-9
Adenocarcinoma, moderately to poorly differentiated, c/w pT3N0MX 0.370 30.00 11.10 PC-P-10

Colon (UCSD-006)

Diagnosis Conc. (ng/uL) Volume (ul) Yields (ng) Selected for WGBS Zhang lab ID
Poorly differentiated adenocarcinoma, consistent with recurrent colonic adenocarcinoma 0.200 30.00 6.00 YES 6-P-1
Metastatic malignant hemangiopericytoma/ malignant solitary fibrous tumor 1.100 30.00 33.00 YES 6-P-2
Sigmoid colon, rectum, and anus, resection. Recurrent invasive moderately- to poorly- differentiated 1.570 30.00 47.10 YES 6-P-3
Metastatic adenocarcinoma. 0.889 30.00 26.67 YES 6-P-4
Metastatic mucinous adenocarcinoma. 0.487 30.00 14.61 YES 6-P-5
Metastatic moderately-differentiated adenocarcinoma with mucinous features. 0.249 30.00 7.47 YES 6-P-6
Adenocarcinoma 0.247 30.00 7.41 6-P-7
Metastatic moderately-differentiated adenocarcinoma with municous features 0.226 30.00 6.78 YES 6-P-8
Adenocarcinoma with municous features, moderately differentiated, pT4aN2b 0.408 30.00 12.24 YES 6-P-9
Mucinous adenocarcinoma, moderately differentiated 0.333 30.00 9.99 6-P-10

Lung (UCSD-007)

Diagnosis Conc. (ng/uL) Volume (ul) Yields (ng) Selected for WGBS Zhang lab ID
Invasive moderately differentiated adenocarcinoma, pT26N0 0.692 30.00 20.76 YES 7-P-1
Poorly differentiated squamous cell carcinoma. Consistent with pT2N0MX, stage IB 1.140 30.00 34.20 YES 7-P-2
Metastatic melanoma 0.208 30.00 6.24 YES 7-P-3
Squamous cell carcinoma, clear cell variant, moderately differentiated 0.202 30.00 6.06 7-P-4
Squamous cell carcinoma, pT1bN0 1.110 30.00 33.30 YES 7-P-5
Adenocarcinoma, mix subtype, including 60% bronchioalveolar carcinoma, mucinous subtype with 40% invasive carcinoma, acinar and papillary subtypes 0.233 30.00 6.99 YES 7-P-6
Invasive squamous carcinoma, moderately differentiated, consistent with pT1N0MX 0.229 30.00 6.87 YES 7-P-7
Invasive adenocarcinoma, poorly differentiated 0.167 30.00 5.01 YES 7-P-8
Non-small-cell carcinoma 0.231 30.00 6.93 7-P-9
Poorly differentiated carcinoma, possibly adenoSCC 0.203 30.00 6.09 YES 7-P-10