Noi:Sample tracking
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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
- Related lab note:
- Data analysis:
- [[4]]
- More sample info: Media:48SamplelistUPenn.xlsx
- [[4]]
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 |
December 16, 2010 (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 of Parkinson's patients from Burnham Institute, human frozen cerebral cortex)
- Received 18 human brain samples from Parkinson's patients. This includes control and Parkinson'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 |
March 10, 2011, Cell pellet samples from Belmonte's lab, Salk Institute
- Received 5 cell pellet samples from Belmonte's lab
- Extracted gDNA using DNeasy Blood and Tissue kit (Qiagen)
Samples | No. of cell | gDNA conc. (ng/ul) | Elution volume (ul) | Yields (ug) |
1. HGPS | 1.0E6 | 75.7 | 300 | 22.71 |
2. cHGPS1 | 1.0E6 | 57.1 | 300 | 17.13 |
3. cHGPS40 | 1.0E6 | 100.2 | 300 | 30.06 |
4. AWS | 1.0E6 | 42.2 | 300 | 12.66 |
5. cAWS1 | 1.0E6 | 130.1 | 300 | 39.03 |
April 21, 2011, PGP1 iPS gDNA from Harvard
- Received one sample of PGP1 CD1 iPS P16 from Harvard Medical School
Jihyuk Lee
Harvard Medical School
77 Avenue Louis Pasteur
Boston, MA 02115
Sample name | Sample ID | Conc. (ng/ul) | Total amount (ug) |
PGP1 CD1 iPS P16 | PGP1 iPS | 129 | 39 |
April 27, 2011, gDNA of TET study from Harvard Medical School
- Received 24 gDNA sample from Yeguang (from Yujiang Geno Shi's lab)
Tube Number | Sample description | concentration (ng/ul) | 9 sample choice | 12 sample choice |
#1 | Scr-1 | 117.1 | X | X |
#2 | Sh3513-1 | 116.5 | X | X |
#3 | Sh1-1 | 80.3 | X | |
#4 | Scr-2 | 235 | X | |
#5 | Sh3513-2 | 313 | X | |
#6 | Sh1-2 | 142 | X | |
#7 | Mock | 117 | X | X |
#8 | TET2-35# | 113 | X | X |
#9 | TET2-75# | 138 | X | X |
#10 | HMEC-Scr | 215 | X | X |
#11 | HMEC-Sh3513 | 246 | X | X |
#12 | HMEC-Sh1 | 51.3 | X | |
#13 | Scr-3 | 161 | X | |
#14 | Sh3513-3 | 159 | X | |
#15 | T2-SCr-1 | 186 | ||
#16 | T2m-Scr-1 | 187 | ||
#17 | T2-Scr-2 | 298 | ||
#18 | T2m-Scr-2 | 291 | ||
#19 | NB4-Scr | 93.9 | ||
#20 | NB4-Sh3513 | 53.8 | ||
#21 | NB4-Sh2513 | 74.6 | ||
#22 | NB4-Sh5372 | 77.8 | ||
#23 | NB4-T2 | 89.5 | ||
#24 | NB4-T2m | 138.4 |
- Related lab note: [[10]]
May 19, 2011, gDNA from UCSD Medical School
- Received 39 sample from sué Pérez-Santiago (from Christopher Woelk's lab, UCSD medical School)
- Each sample volume 21ul, conc. 100ng/ul