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
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
NOTE:
HUVEC samples had very low concentration after shearing and end-repair reactions. Thus we suspect the DNA concentration that Sergio has given might not be accurate, and we measured the concentration again with Nanodrop and Qubit.
Sample ID
Nanodrop result (ng/ul)
Qubit result (ng/ul)
Average (ng/ul)
HUVEC
46.4
27.7
37.05
HUV ips4F1
79.5
54
66.75
HUV ips4F3
34.4
25.9
30.15
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 #)
June 15, 2010 (cell pelletes from Wisconsin)
received two cell pelletes that was prepared by Jessica E. Antosiewicz-Bourget
FedEx copy:
Mitch Probasco
Biotech Center
425 Henry Mall
Madison, WI 53706
phone: 6088900175
DF19.11b p34 ~10^7 cells (06-07-10)
ips4.7 p36 ~10^7 cells (06-11-10)
June 16, 2010 (sheared gDNA from Daley lab)
input DNA amount was 3ug
dHiF, ips dHif#8, ips dHif#9
H9 ES, BG01 ES
June 23, 2010 (cell pellete from Daley lab)
Philip Manos
Children's Hospital / Stem Cell Program
1 Blackfan Cir
Boston; MA 02115-5713
CF Fib
CF Rips 1.4
CF Rips 1.9
BJ1 1.1
BJ1-Rips 1.2; p5 3/30
BJ1 Fibro
BJ Fibro
June 25, 2010 (more cell pellete from Daley lab)
two more tubes of CF Fib cell pelletes since the DNA extraction yield was very low last time
The yield for one of the tube for this batch is still very low (smiliar to the results from last time, for detailed information, please check out [labnote]
June 29, 2010 (gDNA from Sergio, samples were shipped from Barcelona)
sample ID
Passage #
amount of DNA total
concentration
Note
HNSC
13.4ug
66.99ng/ul
Human Neural Stem cells
hNips2F
23
53.6ug
26875ng/ul
grown on matrigel; Couple Neural stem cells/hNiPS
hFips 4F-7
9
31.2ug
156.37ng/ul
grown on matrigel; another line made from the HFF xF fibroblast
hKips 3F-7
24
10ug
32.84ng/ul
grown on matrigel; another line made from the human foreskin keratinocytes MMTA
July 1, 2010 (gDNA from Daley and Jay Lee)
H1 p39 (500ng of gDNA and 3ug of sheared gDNA for library construction)