Alice:Sample Record: Difference between revisions

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****HFF XF, FiPS 3F #1
****HFF XF, FiPS 3F #1
***** human astrocytes, ASTiPS4F-4, ASTiPS4F-5
***** human astrocytes, ASTiPS4F-4, ASTiPS4F-5
=June 14, 2010 (more gDNA from SALK)=
cells were reprogrammed and collected by Sergio Ruiz Macías, PhD
*more HUVEC samples:
**green = remaining gDNA from the last batch (same passage #, etc.)
**blue = newly cultured cells from HUVEC lines (more passage #)

Revision as of 22:21, 14 June 2010

August 14, 2009 (CV gDNA)

  • We have received Craig Venter's ips and fibroblast:
    • ips line 1st elution: 314ng/ul
    • ips line 2nd elution: 127ng/ul (took out 30ul + 30ul ddH2O: 68ng/ul)
    • fibroblast 1st elution: 578ng/ul
    • fibroblast 2nd elution: 476.8ng/ul (took out 30ul + 30ul ddH2O: 272.9ng/ul)

January 27, 2010 (PGP1F cultured cell)

  • received 9 tubes of PGP1F cell pellet (100,000 cells each) from:
Jay Lee
WYSS Institute for Bio INS ENG
4 Blackfan Cir HIM 1040
Boston, MA 02115-5713
  • preformed DNA extraction on 1 tube [2-15-2010]

February 11 , 2010 (CVF gDNA from Goldstein lab)

  • picked up one tube of CVF (labeled as CVB, passage 13 fibroblast, 0.19ug/ul, ~100ul) from Jessica Young (Goldstein lab) in Leitchtag building

February 11, 2010 (gDNA from Eggan lab)

  • received 8 gDNA samples and 1 cell pellet from:
Evangelos Kiskinis
Harvard University
7 Divinity Avenue
Fairchild Biochemistry, Eggan Lab
Cambridge, MA 02138
cell type Patient # Line Age/sex genotype Reprograming factor Passage # DNA (ng/ul)
hFib 17 17 71/F WT - 7 2000
ips 17 17a 71/F WT OCt4/Sox2/Klf4 20 447
ips 17 17b 71/F WT OCt4/Sox2/Klf4 23 2600
hFib 11 11 36/M WT - 7 2000
ips 11 11a 36/M WT OCt4/Sox2/Klf4 24 1037
ips 11 11b 36/M WT OCt4/Sox2/Klf4 20 1612
hFib 29 29 29/F SOD1L144F - 8 400
ips 29 29e 29/F SOD1L144F OCt4/Sox2/Klf4 21 cell pellet
ips 29 29A 29/F SOD1L144F Oct4/Sox2/Klf4/cMYC 36 1200
  • preformed DNA extraction on ips 29e p21 [2-15-2010]

February 26, 2010 (sequencing libraries from Georgia)

  • The samples were sent on 2/25/2010 through Fedex from:
Lynda Abernathy-Shi Lab
Medical College of Georgia
1120 15th Street
Augusta, GA 30912
Sample ID Size concentration (ng/ul) Total Volume (ul)
EJ644 250-350bp 10 18
EJ645 250-350bp 10 15
EJ656 250-350bp 3.6 17
EJ657 250-350bp 3.2 20

March 2, 2010 (gDNA from Harvrd)

  • received two tubes of sample from Jay Lee (harvard):
    • CD1 PGP1 ips P16: 399ng/ul x 200ul
    • PGP1F 80 gDNA: 299ng/ul x 200ul

March 4, 2010 (gDNA from Vanderbilt)

  • received 10 samples from Vanderbilt Med Center:
Joy Cogan, 615-322-7601
Vanderbilt Med Center
Div Medical Genetics DD2205 MCN
Nashville, TN 37232
  • 3/3/2010 Vanderbilt IPF familial DNA samples
ID # ng/ul 260/280 260/230 volume per tube
IPF 56JW525 65 1.86 1.38 80
IPF 56WW608 60 1.9 1.66 100
IPF 121BP1349 105 1.93 1.13 55
IPF 121DB1353 148 1.89 1.47 40
IPF 125DC1384 67 1.91 1.18 75
IPF 125GA1382 107 1.91 1.49 47
IPF 134GH1580 73 2.03 0.83 75
IPF 134LM1450 68 1.93 1.2 80
IPF 139JS1477 92 1.3 1.04 55
IPF 139TD1515 51 2.01 0.73 120

March 30, 2010 (more CV gDNA)

  • received 4 tubes of CV samples from Jessica Young(Goldstein lab): CV1, CV2, CV3, CV4

May 4, 2010 (gDNA from Salk)

Sergio Ruiz Macías, PhD
Gene Expression Lab (GEL-B)
Stem Cell Facility
The Salk Institute For Biological Studies
10010 North Torrey Pines Road
92037 La Jolla, CA, USA
sruiz@salk.edu
Tel. 858-453-4100, ext 1324
Fibroblast couple concentration (ug/ul) volume (ul) passage number
HFF XF (Human Foreskin fibroblast Xeno free) 0.2 50 9
FiPS 3F #1 0.178 56 24
keratinocyte couple
Keratinocyte MMTA (human foreskin keratinocytes MMTA) 0.5 20 5
KiPS 4F #8 0.42 23.8 28
Astrocytes
human astrocytes 0.36 90 12
ASTiPS4F-4 0.51 90 10
ASTiPS4F-5 0.71 90 10
HUVEC
Human HUVEC 1.12 90 2
HUViPS4F-1 1.03 90 10
HUViPS4F-3 0.47 90 15
  • genomic DNA was extracted using the QIAmp DNA Mini and Blood Extraction Kit from Qiagen. DNA is resuspended in AE buffer (10mM Tris Cl; 0.5mM EDTA)
  • priority:
    • Keratinocyte MMTA and KiPS 4F #8
      • Human HUVEC, HUViPS4F-1, HUViPS4F-3
        • HFF XF, FiPS 3F #1
          • human astrocytes, ASTiPS4F-4, ASTiPS4F-5

June 14, 2010 (more gDNA from SALK)

cells were reprogrammed and collected by Sergio Ruiz Macías, PhD
  • more HUVEC samples:
    • green = remaining gDNA from the last batch (same passage #, etc.)
    • blue = newly cultured cells from HUVEC lines (more passage #)