Noi/NOTES/2014-8-3: Difference between revisions
Jump to navigation
Jump to search
>Noi (Created page with " == Select plasma DNA samples for WGBS == ====<u> Pancreas (UCSD-004)</u>==== {| {{table}} border = 1 | align="center" style="background:#f0f0f0;"|'''Diagnosis''' | align="cen...") |
>Noi mNo edit summary |
||
Line 1: | Line 1: | ||
= Preparation of WGBS libraries of small fragment DNA in plasma samples (no DNA fragmentation step) = | |||
[[noi:DMR220k_LabNotes| '''Calendar''']] | |||
== Select plasma DNA samples for WGBS == | == Select plasma DNA samples for WGBS == | ||
====<u> Pancreas (UCSD-004)</u>==== | ====<u> Pancreas (UCSD-004)</u>==== | ||
{| {{table}} | {| {{table}} class=wikitable | ||
| align="center" style="background:#f0f0f0;"|'''Diagnosis''' | | align="center" style="background:#f0f0f0;"|'''Diagnosis''' | ||
| align="center" style="width:90px;background:#f0f0f0;"|'''Conc. (ng/uL)''' | | align="center" style="width:90px;background:#f0f0f0;"|'''Conc. (ng/uL)''' | ||
Line 31: | Line 32: | ||
|} | |} | ||
====<u>Colon (UCSD-006)</u>==== | ====<u>Colon (UCSD-006)</u>==== | ||
{| {{table}} | {| {{table}} class=wikitable | ||
| align="center" style="background:#f0f0f0;"|'''Diagnosis''' | | align="center" style="background:#f0f0f0;"|'''Diagnosis''' | ||
| align="center" style="width:90px;background:#f0f0f0;"|'''Conc. (ng/uL)''' | | align="center" style="width:90px;background:#f0f0f0;"|'''Conc. (ng/uL)''' | ||
Line 60: | Line 61: | ||
|} | |} | ||
====<u>Lung (UCSD-007)</u>==== | ====<u>Lung (UCSD-007)</u>==== | ||
{| {{table}} | {| {{table}} class=wikitable | ||
| align="center" style="background:#f0f0f0;"|'''Diagnosis''' | | align="center" style="background:#f0f0f0;"|'''Diagnosis''' | ||
| align="center" style="width:90px;background:#f0f0f0;"|'''Conc. (ng/uL)''' | | align="center" style="width:90px;background:#f0f0f0;"|'''Conc. (ng/uL)''' |
Revision as of 18:04, 3 August 2014
Preparation of WGBS libraries of small fragment DNA in plasma samples (no DNA fragmentation step)
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 |