Matt:LabNotes/2013-6-28: Difference between revisions

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>Mzcai
(Created page with "====gDNA concentration==== Followed [http://genome-tech.ucsd.edu/LabNotes/index.php/Matt:LabNotes/Qubit_Protocol Qubit Protocol] to measure DNA concentration of cells (12878) ...")
 
>Mzcai
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====gDNA concentration====
===Probe Capture===
Followed [http://genome-tech.ucsd.edu/LabNotes/index.php/Matt:LabNotes/Qubit_Protocol Qubit Protocol] to measure DNA concentration of cells (12878)
{| {{table}}
| align="center" style="background:#f0f0f0;"|''''''
| align="center" style="background:#f0f0f0;"|'''20 gap'''
| align="center" style="background:#f0f0f0;"|'''0 gap'''
| align="center" style="background:#f0f0f0;"|''''''
|-
| Probe Size||12964||13179||
|-
| gDNA HAPMAP C1 (87ng/ul)||300 ng||300 ng||
|-
| gDNA MW||1.95x10^12 g/mol||1.95x10^12 g/mol||
|-
| gDNA||1.5385x10^-19 mol||1.5385x10^-19 mol||
|-
| Probe Required (1000:1)||1.5385x10^-16 mol||1.5385x10^-16 mol||
|-
| Probe MW||8.1419x10^8 g/mol||8.2769x10^8 g/mol||(Probe size x (193nt x 325 Da/nt + 79Da)
|-
| Amount Probe Required||125 ng (7.44ul)||127 ng (4.47 ul)||
|-
|
|}


===Probe Capture===
0 gap probes from [http://genome-tech.ucsd.edu/LabNotes/index.php/Matt:LabNotes/2013-6-27 2013-6-27] <br>
20 gap probes from [http://genome-tech.ucsd.edu/LabNotes/index.php/Matt:LabNotes/2013-6-4 2013-6-6] <br>
cDNA from [http://genome-tech.ucsd.edu/LabNotes/index.php/Matt:LabNotes/2013-6-26 2013-6-26] <br>
 
{| {{table}}
| align="center" style="background:#f0f0f0;"|'''Tube #'''
| align="center" style="background:#f0f0f0;"|'''Probe type'''
| align="center" style="background:#f0f0f0;"|'''Samples'''
| align="center" style="background:#f0f0f0;"|'''Probes (ul)'''
| align="center" style="background:#f0f0f0;"|'''10X AmpLigase Buffer (ul)'''
| align="center" style="background:#f0f0f0;"|'''Target (ul)'''
| align="center" style="background:#f0f0f0;"|'''H2O (ul)'''
| align="center" style="background:#f0f0f0;"|'''Total'''
|-
| 1||0 gap (28.4ng/ul)||NTC||4.47||3||0||22.53||30
|-
| 2||0 gap (28.4ng/ul)||gDNA HAPMAP C1 (87ng/ul)||4.47||3||3.45||19.08||30
|-
| 3||0 gap (28.4ng/ul)||cDNA||4.47||3||20||2.53||30
|-
| 4||20 gap (16.79ng/ul)||NTC||7.44||3||0||19.56||30
|-
| 5||20 gap (16.79ng/ul)||gDNA HAPMAP C1 (87ng/ul)||7.44||3||3.45||16.11||30
|-
| 6||20 gap (16.79ng/ul)||cDNA||7.44||3||20||0||30.44
|-
|
|}

Revision as of 21:28, 28 June 2013

Probe Capture

' 20 gap 0 gap '
Probe Size 12964 13179
gDNA HAPMAP C1 (87ng/ul) 300 ng 300 ng
gDNA MW 1.95x10^12 g/mol 1.95x10^12 g/mol
gDNA 1.5385x10^-19 mol 1.5385x10^-19 mol
Probe Required (1000:1) 1.5385x10^-16 mol 1.5385x10^-16 mol
Probe MW 8.1419x10^8 g/mol 8.2769x10^8 g/mol (Probe size x (193nt x 325 Da/nt + 79Da)
Amount Probe Required 125 ng (7.44ul) 127 ng (4.47 ul)

0 gap probes from 2013-6-27
20 gap probes from 2013-6-6
cDNA from 2013-6-26

Tube # Probe type Samples Probes (ul) 10X AmpLigase Buffer (ul) Target (ul) H2O (ul) Total
1 0 gap (28.4ng/ul) NTC 4.47 3 0 22.53 30
2 0 gap (28.4ng/ul) gDNA HAPMAP C1 (87ng/ul) 4.47 3 3.45 19.08 30
3 0 gap (28.4ng/ul) cDNA 4.47 3 20 2.53 30
4 20 gap (16.79ng/ul) NTC 7.44 3 0 19.56 30
5 20 gap (16.79ng/ul) gDNA HAPMAP C1 (87ng/ul) 7.44 3 3.45 16.11 30
6 20 gap (16.79ng/ul) cDNA 7.44 3 20 0 30.44