Noi:Sample tracking: Difference between revisions
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=November5, 2010 (Mouse gDNA from La Spada's lab, UCSD)= | =November5, 2010 (Mouse gDNA from La Spada's lab, UCSD)= | ||
* received 8 gDNA samples from Paula Ladd<br> | |||
{| {{table}} border = 1 | {| {{table}} border = 1 | ||
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=December 7, 2010 (Sarah's African gDNA, UPenn )= | =December 7, 2010 (Sarah's African gDNA, UPenn )= | ||
* received 48 methylome samples from Tishkoff's lab delivered by UPS<br> | |||
William R Beggs, Jr.<br>Tishkoff Lab - Dept of Genetics, University of Pennsylvania<br>430 Clinical Research Building<br>415 Curie Blvd<br>Philadelphia, PA 19104-6145 | William R Beggs, Jr.<br>Tishkoff Lab - Dept of Genetics, University of Pennsylvania<br>430 Clinical Research Building<br>415 Curie Blvd<br>Philadelphia, PA 19104-6145 | ||
Line 158: | Line 158: | ||
|} | |} | ||
* aliquot 21ul out of 50ul samples into another 96-well plate | |||
=December 10, 2010 (normal/tumor gDNA from JHU)= | =December 10, 2010 (normal/tumor gDNA from JHU)= | ||
* received 48 normal/tumor gDNA samples from JHU delivered by FedEx<br> | |||
Eirikur Briem<br> John Hopkins University<br> 855N. Wolfe Street<br> Rangos 580.14<br> Baltimore, MD 21205 | Eirikur Briem<br> John Hopkins University<br> 855N. Wolfe Street<br> Rangos 580.14<br> Baltimore, MD 21205 | ||
Line 267: | Line 267: | ||
|} | |} | ||
* sort out sample ID into plate layout | |||
{| {{table}} border = 1 | {| {{table}} border = 1 | ||
| align="center" style="background:#f0f0f0;"|'''Plate layout''' | | align="center" style="background:#f0f0f0;"|'''Plate layout''' | ||
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= 2010_12_16 (Bisulfite converted mouse gDNA from JHU) = | = 2010_12_16 (Bisulfite converted mouse gDNA from JHU) = | ||
* received 4 bisulfite converted mouse gDNA from Yuan Gao<br> | |||
Yuan Gao<br>Forrest City Baltimore<br> | Yuan Gao<br>Forrest City Baltimore<br> | ||
855 N. Wolfe St. STE 102<br> | 855 N. Wolfe St. STE 102<br> | ||
Line 313: | Line 313: | ||
|- | |- | ||
| G45B ECT KO||4.14||6.00||24.84 | | G45B ECT KO||4.14||6.00||24.84 | ||
|}<br> | |||
=February 2, 2011 (Brain gDNA from Pakinson's patients, human frozen cerebral cortex) | |||
* Received 18 human brain samples from Pakinson's patients. This includes control and Pakinson's patient samples. | |||
{| {{table}} border = 1 | |||
| align="center" style="background:#f0f0f0;"|'''Pair''' | |||
| align="center" style="background:#f0f0f0;"|'''Control Sample ID''' | |||
| align="center" style="background:#f0f0f0;"|'''Sample code''' | |||
| align="center" style="background:#f0f0f0;"|'''Sex''' | |||
| align="center" style="background:#f0f0f0;"|'''age (year.day)''' | |||
| align="center" style="background:#f0f0f0;"|'''Postmortem time''' | |||
| align="center" style="background:#f0f0f0;"|'''Conc. (ug/ul)/ volume (ul)''' | |||
| align="center" style="background:#f0f0f0;"|'''PD Sample ID''' | |||
| align="center" style="background:#f0f0f0;"|'''Sample code''' | |||
| align="center" style="background:#f0f0f0;"|'''Sex''' | |||
| align="center" style="background:#f0f0f0;"|'''age (year.day)''' | |||
| align="center" style="background:#f0f0f0;"|'''Postmortem time''' | |||
| align="center" style="background:#f0f0f0;"|'''Conc. (ug/ul)/ volume (ul)''' | |||
|- | |||
| 1||5028||P1C||M||67.293||P18||0.5ug/ul/ 4ul||1947||P1P||M||70.251||P17||0.5ug/ul/ 4ul | |||
|- | |||
| 2||4789||P2C||F||72.053||P19||0.5ug/ul/ 4ul||4977||P2P||F||76.081||P14||0.5ug/ul/ 4ul | |||
|- | |||
| 3||5171||P3C||M||79.088||P05||0.5ug/ul/ 4ul||4879||P3P||M||75.351||P15||0.5ug/ul/ 4ul | |||
|- | |||
| 4||1818||P4C||M||76.294||P03||0.5ug/ul/ 4ul||4526||P4P||M||78.182||P01||0.5ug/ul/ 4ul | |||
|- | |||
| 5||5089||P5C||M||89.018||P14||0.5ug/ul/ 4ul||5203||P5P||M||89.06||P10||0.5ug/ul/ 4ul | |||
|- | |||
| 6||5237||P6C||M||52.291||P13||0.5ug/ul/ 4ul||1910||P6P||M||51.243||P10||0.5ug/ul/ 4ul | |||
|- | |||
| 7||1569||P7C1||F||77.089||P08||0.5ug/ul/ 4ul||1401||P7P||F||80.215||P04||0.5ug/ul/ 4ul | |||
|- | |||
| 7||5219||P7C2||F||76.348||P03||0.5ug/ul/ 4ul|||||||||||| | |||
|- | |||
| 8||4735||P8C||M||73.184||P21||0.5ug/ul/ 4ul||1741||P8P1||M||71.348||P20||0.5ug/ul/ 4ul | |||
|- | |||
| 8||||||||||||||5306||P8P2||M||76.311||P21||0.5ug/ul/ 4ul | |||
|} | |} |
Revision as of 00:35, 4 February 2011
November5, 2010 (Mouse gDNA from La Spada's lab, UCSD)
- received 8 gDNA samples from Paula Ladd
Samples | Sample ID | concentration (ng/ul) | volume (ul) |
1. wild-type cortex | WT-CTX | 2000.0 | 3.8 |
2. wild-type cerebellum | WT-CBL | 100.0 | 8.2 |
3. wild-type brain stem | WT-BS | 600.0 | 8.5 |
4. wild-type retina | WT-RET | 1800.0 | 4.0 |
5. transgenic cortex | TG-CTX | 250.0 | 17.0 |
6. transgenic cerebellum | TG-CBL | 400.0 | 14.0 |
7. transgenic brain stem | TG-BS | 1000.0 | 6.5 |
8. transgenic retina | TG-RET | 2000.0 | 8.0 |
Note: WT: wild-type, TG: transgenic Samples were diluted to 200ng/ul based on original concentration from Paula and confirmed by Nanodrop
Samples | Sample ID | total volume (ul) after diluted | concentration(ng/ul) |
1. wild-type cortex | WT-CTX | 25.0 | 223.2 |
2. wild-type cerebellum | WT-CBL | 25.0 | 663.5 |
3. wild-type brain stem | WT-BS | 25.0 | 86.0 |
4. wild-type retina | WT-RET | 25.0 | 163.7 |
5. transgenic cortex | TG-CTX | 20.0 | 219.2 |
6. transgenic cerebellum | TG-CBL | 25.0 | 109.4 |
7. transgenic brain stem | TG-BS | 25.0 | 103.0 |
8. transgenic retina | TG-RET | 25.0 | 126.6 |
labnote: 2010_11_08
December 7, 2010 (Sarah's African gDNA, UPenn )
- received 48 methylome samples from Tishkoff's lab delivered by UPS
William R Beggs, Jr.
Tishkoff Lab - Dept of Genetics, University of Pennsylvania
430 Clinical Research Building
415 Curie Blvd
Philadelphia, PA 19104-6145
LabID | 1M sample # | Well | Volume ul | Conc ng/ul approx |
CAPB016 | A01 | 50 | 100 | |
CAPB046 | B01 | 50 | 100 | |
CAPB056a | C01 | 50 | 100 | |
CAPL056 | D01 | 50 | 100 | |
CAPM007 | E01 | 50 | 100 | |
TZHZ018A | F01 | 50 | 100 | |
TZHZ033B | G01 | 50 | 100 | |
TZHZ075A | H01 | 50 | 100 | |
TZHZ214 | A02 | 50 | 100 | |
TZHZ221B | B02 | 50 | 100 | |
TZSW067 | C02 | 50 | 100 | |
TZSW128B | D02 | 50 | 100 | |
TZSW131A | E02 | 50 | 100 | |
TZSW132B | F02 | 50 | 100 | |
TZSW135B | G02 | 50 | 100 | |
CAMF013A | H02 | 50 | 100 | |
CAFU043 | A03 | 50 | 100 | |
CAFU042 | B03 | 50 | 100 | |
CAFU028 | C03 | 50 | 100 | |
CAMF022A | D03 | 50 | 100 | |
CAPB043 | E03 | 50 | 100 | |
CAPL049 | F03 | 50 | 100 | |
CAPM001A | G03 | 50 | 100 | |
CAPL036 | H03 | 50 | 100 | |
KEBR007A | A04 | 50 | 100 | |
KEBR028A | B04 | 50 | 100 | |
KEBR042B | C04 | 50 | 100 | |
KEBR040A | D04 | 50 | 100 | |
KEBR061A | E04 | 50 | 100 | |
KEPK003A | F04 | 50 | 100 | |
KEPK006A | G04 | 50 | 100 | |
KEPK007A | H04 | 50 | 100 | |
KEPK010A | A05 | 50 | 100 | |
KEPK016A | B05 | 50 | 100 | |
CAPM047 | son | C05 | 50 | 100 |
CAPM003A | parent | D05 | 50 | 100 |
CAPM004A | parent | E05 | 50 | 100 |
CAPM056A | daughter | F05 | 50 | 100 |
ETAM042 | G05 | 50 | 100 | |
ETAM071 | H05 | 50 | 100 | |
ETAM077 | A06 | 50 | 100 | |
ETAM058 | B06 | 50 | 100 | |
ETAM065 | C06 | 50 | 100 | |
ETSB008 | D06 | 50 | 100 | |
ETSB027 | E06 | 50 | 100 | |
ETSB031 | F06 | 50 | 100 | |
ETSB035 | G06 | 50 | 100 | |
ETSB036 | H06 | 50 | 100 |
- aliquot 21ul out of 50ul samples into another 96-well plate
December 10, 2010 (normal/tumor gDNA from JHU)
- received 48 normal/tumor gDNA samples from JHU delivered by FedEx
Eirikur Briem
John Hopkins University
855N. Wolfe Street
Rangos 580.14
Baltimore, MD 21205
Sample_ID | Kun_Well | Final Volume (uL) | Final_Conc (ng/uL) |
395 | G3 | 50 | 30 |
970 | H4 | 50 | 30 |
12 | A1 | 50 | 30 |
258 | F2 | 50 | 30 |
299 | A3 | 50 | 30 |
335 | C3 | 50 | 30 |
440 | A5 | 50 | 30 |
503 | E5 | 50 | 30 |
736 | G6 | 50 | 30 |
895 | F4 | 50 | 30 |
84 | E1 | 50 | 30 |
198 | H1 | 50 | 30 |
203 | B2 | 50 | 30 |
368 | E3 | 50 | 30 |
388 | F3 | 50 | 30 |
436 | H3 | 50 | 30 |
524 | F5 | 50 | 30 |
686 | F6 | 50 | 30 |
48 | C1 | 50 | 30 |
85 | F1 | 50 | 30 |
107 | G1 | 50 | 30 |
253 | D2 | 50 | 30 |
467 | D5 | 50 | 30 |
569 | H5 | 50 | 30 |
850 | B4 | 50 | 30 |
894 | E4 | 50 | 30 |
893 | D4 | 30 | 50 |
659 | E6 | 30 | 50 |
538 | G5 | 30 | 50 |
967 | G4 | 30 | 50 |
304 | B3 | 30 | 50 |
256 | E2 | 30 | 50 |
42 | B1 | 30 | 50 |
77 | D1 | 30 | 50 |
201 | A2 | 30 | 50 |
222 | C2 | 30 | 50 |
280 | G2 | 30 | 50 |
282 | H2 | 30 | 50 |
362 | D3 | 30 | 50 |
445 | B5 | 30 | 50 |
455 | C5 | 30 | 50 |
572 | A6 | 30 | 50 |
607 | B6 | 30 | 50 |
619 | C6 | 30 | 50 |
621 | D6 | 30 | 50 |
743 | H6 | 30 | 50 |
791 | A4 | 30 | 50 |
881 | C4 | 30 | 50 |
- sort out sample ID into plate layout
Plate layout | 1 | 2 | 3 | 4 | 5 | 6 |
A | 12 | 201 | 299 | 791 | 440 | 572 |
B | 42 | 203 | 304 | 850 | 445 | 607 |
C | 48 | 222 | 335 | 881 | 455 | 619 |
D | 77 | 253 | 362 | 893 | 467 | 621 |
E | 84 | 256 | 368 | 894 | 503 | 659 |
F | 85 | 258 | 388 | 895 | 524 | 686 |
G | 107 | 280 | 395 | 967 | 538 | 736 |
H | 198 | 282 | 436 | 970 | 569 | 743 |
2010_12_16 (Bisulfite converted mouse gDNA from JHU)
- received 4 bisulfite converted mouse gDNA from Yuan Gao
Yuan Gao
Forrest City Baltimore
855 N. Wolfe St. STE 102
Baltimore, MD 21205
Sample ID | Conc. (ng/ul) confirmed by Qubit | Volume (ul) | Total amount (ng) |
WT | 2.40 | 7.00 | 16.80 |
WT ECT | 5.54 | 6.00 | 33.24 |
G45B KO | 3.04 | 7.00 | 21.28 |
G45B ECT KO | 4.14 | 6.00 | 24.84 |
=February 2, 2011 (Brain gDNA from Pakinson's patients, human frozen cerebral cortex)
- Received 18 human brain samples from Pakinson's patients. This includes control and Pakinson's patient samples.
Pair | Control Sample ID | Sample code | Sex | age (year.day) | Postmortem time | Conc. (ug/ul)/ volume (ul) | PD Sample ID | Sample code | Sex | age (year.day) | Postmortem time | Conc. (ug/ul)/ volume (ul) |
1 | 5028 | P1C | M | 67.293 | P18 | 0.5ug/ul/ 4ul | 1947 | P1P | M | 70.251 | P17 | 0.5ug/ul/ 4ul |
2 | 4789 | P2C | F | 72.053 | P19 | 0.5ug/ul/ 4ul | 4977 | P2P | F | 76.081 | P14 | 0.5ug/ul/ 4ul |
3 | 5171 | P3C | M | 79.088 | P05 | 0.5ug/ul/ 4ul | 4879 | P3P | M | 75.351 | P15 | 0.5ug/ul/ 4ul |
4 | 1818 | P4C | M | 76.294 | P03 | 0.5ug/ul/ 4ul | 4526 | P4P | M | 78.182 | P01 | 0.5ug/ul/ 4ul |
5 | 5089 | P5C | M | 89.018 | P14 | 0.5ug/ul/ 4ul | 5203 | P5P | M | 89.06 | P10 | 0.5ug/ul/ 4ul |
6 | 5237 | P6C | M | 52.291 | P13 | 0.5ug/ul/ 4ul | 1910 | P6P | M | 51.243 | P10 | 0.5ug/ul/ 4ul |
7 | 1569 | P7C1 | F | 77.089 | P08 | 0.5ug/ul/ 4ul | 1401 | P7P | F | 80.215 | P04 | 0.5ug/ul/ 4ul |
7 | 5219 | P7C2 | F | 76.348 | P03 | 0.5ug/ul/ 4ul | ||||||
8 | 4735 | P8C | M | 73.184 | P21 | 0.5ug/ul/ 4ul | 1741 | P8P1 | M | 71.348 | P20 | 0.5ug/ul/ 4ul |
8 | 5306 | P8P2 | M | 76.311 | P21 | 0.5ug/ul/ 4ul |