Jie:LabNotes/sample record/sample received: Difference between revisions

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(New page: 2008-07-24: From James Thomson, Biotechnology Center, Madison, WI. Two tubes tube1:IMR90 tube2:IMR90-04 2008-08-01: From James Thomson,Biotechnology Center, Madison, WI. Two tubes. T...)
 
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2008-07-24: From James Thomson, Biotechnology Center, Madison, WI. Two tubes
  2008-07-24: From James Thomson, Biotechnology Center, Madison, WI. Two tubes
   tube1:IMR90
   tube1:IMR90
   tube2:IMR90-04
   tube2:IMR90-04
2008-08-01: From James Thomson,Biotechnology Center, Madison, WI. Two tubes.
 
  2008-08-01: From James Thomson,Biotechnology Center, Madison, WI. Two tubes.
   Tube 1: IMR90P24, 7/29/08
   Tube 1: IMR90P24, 7/29/08
   tube 2: Qwell of le well plate, ipsIMR90CH, P28,18,4, 7/22/08
   tube 2: Qwell of le well plate, ipsIMR90CH, P28,18,4, 7/22/08
  20080826: From Paul Ventura, Covaris, Inc. refer to LabNotes on [http://genome-tech.ucsd.edu/LabNotes/index.php/Jie:LabNotes/CpgSeq/2008-8-12]
  IMB90_iPS_sheared sequencing DNA. Nanodrop:dsDNA 19.8ng/ul; 260/280 1.07; 260/230 0.51
  Hybrid_1_sheared sequencing DNA. Nanodrop:dsDNA 21.6ng/ul; 260/280 1.13; 260/230 0.56
  20090515:From Yuan Gao
  E0H 45ng/ul 50ul;
  E4H 45ng/ul 50ul;
  E24H 50ng/ul 42ul;
  20090518 from Kun
  DF iPS from Thomson lab refer to LabNotes on [http://genome-tech.ucsd.edu/LabNotes/index.php/Jie:LabNotes/CpgSeq/2009-5-29]
  foreskin 1.0 583ng/ul 1.93 1.16
  DF6-9-9 P16(4) 0.3 504.8ng/ul 1.88 2.04
  DF4-5-7 P16(4) 0.4 541ng/ul 1.86 1.99
  DF6-9-12 p16(4) 0.4 425.3ng/ul 1.88 2.09
  DF19-9-11 p17(4) 0.4 484.7ng/ul 1.89 2.04
  DF19-9-7 p17(4) 0.3 460.3ng/ul 1.89 2.04
  BJ 60ng/ul x 200ul
  BJ-iPS11 140ng/ul x 30ul
  BJ-iPS12 40ng/ul x 80ul
  HUES6 250ng/ul x 200ul
  NA21687*1 062507 241.1ng/ul 1.89 1.51 refer to LabNotes on [http://genome-tech.ucsd.edu/LabNotes/index.php/Jie:LabNotes/CpgSeq/2009-6-19]
  NA21781*1 102307 240ng/ul 1.89 1.26
  NA21833*1 101807 253.9ng/ul 1.9 1.49
  NA21660*1 053007 243.2ng/ul 1.92 1.66
  NA21731*1 101807 217.4ng/ul 1.88 1.49
  NA21846*1 100407 186.5ng/ul 1.89 1.47
  NA21070*1 100406 329.7ng/ul 1.99 1.77
  cell:
  hiPS 11 P17
  hiPs 12 P20
  2009-06-17: From Zhuohua Zhang. refer to LabNotes on [http://genome-tech.ucsd.edu/LabNotes/index.php/Jie:LabNotes/CpgSeq/2009-7-1]
  No 5028-1818 are unaffacted control tissues;
  No 1947-4526 are Parkinson's disease and Parkinson's disease/Lewy body disease.
  5028: 320ng/ul; 
  4735: 260ng/ul;
  4789: 280ng/ul;
  5171: 420ng/ul;
  1818: 480ng/ul;
  1947: 360ng/ul;
  1741: 560ng/ul;
  4977: 260ng/ul;
  4879: 340ng/ul;
  4526: 380ng/ul.
  [[Image:20090617_gDNA from Zhuohua Zhang.jpg|200px]]20090617_gDNA from Zhuohua Zhang
  2009-07-28: From kim Smoga-Otto of Thomson lab.refer to LabNotes on [http://genome-tech.ucsd.edu/LabNotes/index.php/Jie:LabNotes/CpgSeq/2009-8-10]
  two tubes of iPS-DF6.9h, passage 28. (17 Jul 09). 5 million cell/tube.
  2009-07-28: From Jehyuk Lee from Harvard Medical school.
  PGP1_iPS1 gDNA: 47ng/ul x 50ul;
  PGP1_iPS1 mRNA: 476ng/ul x 20ul;
  PGP1_iPS1 ssDNA from mRNA: 146ng/ul x 10ul.
2009-08-04: From Kun (breast cancer cells from patient) refer to LabNotes on [http://genome-tech.ucsd.edu/LabNotes/index.php/Jie:LabNotes/CpgSeq/2009-8-7]
05192A18
05192B09
2009-09-04: From
LD 353-03 53.7ng/ul
LD351-01 73.6ng/ul
MEC001 47.8ng/ul
KaG001 31.9ng/ul
2009-10: from Harvard
{| border="1" cellpadding="5" cellspacing="0" align="center"
|-
| align="center" style="background:#f0f0f0;"|''' '''
| align="center" style="background:#f0f0f0;"|'''sample '''
|align="center" style="background:#f0f0f0;"|'''sample concentration'''
| align="center" style="background:#f0f0f0;"|'''260/280, 260/230'''
| align="center" style="background:#f0f0f0;"|'''volume '''
|-
|Harvard_1||B0047.1 ||927.1ng/ul||1.8/2.25||20ul
|-
|Harvard_2||B0060.1||206ng/ul ||1.92/1.56||20ul
|-
|Harvard_3||B0070.1||760ng/ul||1.9/2.1||20ul
|-
|Harvard_4||B0107.1||360ng/ul ||1.9/1.9||5ul
|-
|Harvard_5||B0108.1 ||266ng/ul ||1.9/1.5||15ul
|-
|Harvard_6||B0134.1||54.2ng/ul||1.9/1.2||40ul
|-
|Harvard_7||M0013.1 ||380ng/ul ||1.9/2.0||20ul
|-
|Harvard_8||M0077.3||47ng/ul ||1.9/1.2||40ul
|-
|Harvard_9||M0124.3 ||46ng/ul||1.9/1.1||40ul
|-
|Harvard_10||M0188.3||82ng/ul||1.9/1.6||30ul
|-
|}
seq lib construction refer to LabNotes on [http://genome-tech.ucsd.edu/LabNotes/index.php/Jie:LabNotes/CpgSeq/2010-1-21] and [http://genome-tech.ucsd.edu/LabNotes/index.php/Jie:LabNotes/CpgSeq/2010-1-28]
the sample sequencing tracking can be seen [[Media:20100210_harvard_sample_sequencing_tracking.xls]]
20090918 from cancer center
The sample tracking can be seen [[Media:20090918_breast_cancer_samples.xls]]
20100121 from Y. Geno Shi in Harvard. refer to LabNotes on [http://genome-tech.ucsd.edu/LabNotes/index.php/Jie:LabNotes/CpgSeq/2010-1-22]
ct1 mES gDNA 11.20.09: 120ng/ul
Tet1-KD mES gDNA 11.20.09: 120ng/ul

Latest revision as of 00:17, 19 February 2010

 2008-07-24: From James Thomson, Biotechnology Center, Madison, WI. Two tubes
 tube1:IMR90
 tube2:IMR90-04
 2008-08-01: From James Thomson,Biotechnology Center, Madison, WI. Two tubes.
 Tube 1: IMR90P24, 7/29/08
 tube 2: Qwell of le well plate, ipsIMR90CH, P28,18,4, 7/22/08
 20080826: From Paul Ventura, Covaris, Inc. refer to LabNotes on [1]
  IMB90_iPS_sheared sequencing DNA. Nanodrop:dsDNA 19.8ng/ul; 260/280 1.07; 260/230 0.51
  Hybrid_1_sheared sequencing DNA. Nanodrop:dsDNA 21.6ng/ul; 260/280 1.13; 260/230 0.56
 20090515:From Yuan Gao
 E0H 45ng/ul 50ul;
 E4H 45ng/ul 50ul;
 E24H 50ng/ul 42ul;
 20090518 from Kun
 DF iPS from Thomson lab refer to LabNotes on [2]
 foreskin 1.0 583ng/ul 1.93 1.16
 DF6-9-9 P16(4) 0.3 504.8ng/ul 1.88 2.04
 DF4-5-7 P16(4) 0.4 541ng/ul 1.86 1.99
 DF6-9-12 p16(4) 0.4 425.3ng/ul 1.88 2.09
 DF19-9-11 p17(4) 0.4 484.7ng/ul 1.89 2.04
 DF19-9-7 p17(4) 0.3 460.3ng/ul 1.89 2.04 
 BJ 60ng/ul x 200ul
 BJ-iPS11 140ng/ul x 30ul
 BJ-iPS12 40ng/ul x 80ul
 HUES6 250ng/ul x 200ul
 NA21687*1 062507 241.1ng/ul 1.89 1.51 refer to LabNotes on [3]
 NA21781*1 102307 240ng/ul 1.89 1.26
 NA21833*1 101807 253.9ng/ul 1.9 1.49
 NA21660*1 053007 243.2ng/ul 1.92 1.66
 NA21731*1 101807 217.4ng/ul 1.88 1.49
 NA21846*1 100407 186.5ng/ul 1.89 1.47
 NA21070*1 100406 329.7ng/ul 1.99 1.77
 cell:
 hiPS 11 P17
 hiPs 12 P20
 2009-06-17: From Zhuohua Zhang. refer to LabNotes on [4]
 No 5028-1818 are unaffacted control tissues;
 No 1947-4526 are Parkinson's disease and Parkinson's disease/Lewy body disease.
 5028: 320ng/ul;  
 4735: 260ng/ul;
 4789: 280ng/ul;
 5171: 420ng/ul;
 1818: 480ng/ul;
 1947: 360ng/ul;
 1741: 560ng/ul;
 4977: 260ng/ul;
 4879: 340ng/ul;
 4526: 380ng/ul.
 File:20090617 gDNA from Zhuohua Zhang.jpg20090617_gDNA from Zhuohua Zhang
 2009-07-28: From kim Smoga-Otto of Thomson lab.refer to LabNotes on [5]
 two tubes of iPS-DF6.9h, passage 28. (17 Jul 09). 5 million cell/tube.
 2009-07-28: From Jehyuk Lee from Harvard Medical school.
 PGP1_iPS1 gDNA: 47ng/ul x 50ul;
 PGP1_iPS1 mRNA: 476ng/ul x 20ul;
 PGP1_iPS1 ssDNA from mRNA: 146ng/ul x 10ul.
2009-08-04: From Kun (breast cancer cells from patient) refer to LabNotes on [6]
05192A18
05192B09
2009-09-04: From 
LD 353-03 53.7ng/ul 
LD351-01 73.6ng/ul
MEC001 47.8ng/ul
KaG001 31.9ng/ul
2009-10: from Harvard
sample sample concentration 260/280, 260/230 volume
Harvard_1 B0047.1 927.1ng/ul 1.8/2.25 20ul
Harvard_2 B0060.1 206ng/ul 1.92/1.56 20ul
Harvard_3 B0070.1 760ng/ul 1.9/2.1 20ul
Harvard_4 B0107.1 360ng/ul 1.9/1.9 5ul
Harvard_5 B0108.1 266ng/ul 1.9/1.5 15ul
Harvard_6 B0134.1 54.2ng/ul 1.9/1.2 40ul
Harvard_7 M0013.1 380ng/ul 1.9/2.0 20ul
Harvard_8 M0077.3 47ng/ul 1.9/1.2 40ul
Harvard_9 M0124.3 46ng/ul 1.9/1.1 40ul
Harvard_10 M0188.3 82ng/ul 1.9/1.6 30ul
seq lib construction refer to LabNotes on [7] and [8]
the sample sequencing tracking can be seen Media:20100210_harvard_sample_sequencing_tracking.xls


20090918 from cancer center
The sample tracking can be seen Media:20090918_breast_cancer_samples.xls
20100121 from Y. Geno Shi in Harvard. refer to LabNotes on [9]
ct1 mES gDNA 11.20.09: 120ng/ul
Tet1-KD mES gDNA 11.20.09: 120ng/ul