Dinh:Thesis Overview: Difference between revisions
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=Thesis Project Overview= | |||
==Samples: Data analysis == | ==Samples: Data analysis == | ||
=== Salk's Human Tissues Whole Genome Bisulfite Sequencing === | * Sample set codes starting with A. | ||
=== A-Salk. Salk's Human Tissues Whole Genome Bisulfite Sequencing === | |||
* Paper: Not out yet | * Paper: Not out yet | ||
=== Human peripheral mononuclear cells trio - type 2 diabetes - father, mother, daughter=== | === A-BGI. Human peripheral mononuclear cells trio - type 2 diabetes - father, mother, daughter=== | ||
** Paper: http://genomebiology.com/2014/15/7/408 | ** Paper: http://genomebiology.com/2014/15/7/408 | ||
=== A-WB. Human whole blood DNA methylation study - newborn, middle-age, centarian=== | |||
** Paper: http://www.pnas.org/content/109/26/10522.full | ** Paper: http://www.pnas.org/content/109/26/10522.full | ||
==Samples: Data generation == | |||
* | * Sample set codes starting with G. | ||
=== G-SS. Early definitive endoderm differentiation (Song's 3-days protocol and Sergio's H1 samples)=== | |||
{| class="wikitable" | {| class="wikitable" | ||
| align="center" style="background:#f0f0f0;"|'''Tube ID''' | | align="center" style="background:#f0f0f0;"|'''Tube ID''' | ||
Line 38: | Line 41: | ||
| NaiveESC.2||naïve ESCs cells||30.0 | | NaiveESC.2||naïve ESCs cells||30.0 | ||
|} | |} | ||
=== G-MDS. 10 MDS patients, known genotypes, (w/ Tiffany from Dr. Bejar's Lab)=== | |||
=== G-K562. K562 cell lines: TET2 knockout (2), DNMT3a knockout (2), wildtype (2), (w/ Tiffany from Dr. Bejar's Lab)=== |
Revision as of 17:15, 13 March 2015
Thesis Project Overview
Samples: Data analysis
- Sample set codes starting with A.
A-Salk. Salk's Human Tissues Whole Genome Bisulfite Sequencing
- Paper: Not out yet
A-BGI. Human peripheral mononuclear cells trio - type 2 diabetes - father, mother, daughter
A-WB. Human whole blood DNA methylation study - newborn, middle-age, centarian
Samples: Data generation
- Sample set codes starting with G.
G-SS. Early definitive endoderm differentiation (Song's 3-days protocol and Sergio's H1 samples)
Tube ID | Sample | Concentration (QUBIT, ng/ul) |
MA-16 | H1 p54 Control TeSR | 57.0 |
MA-17 | H1 p54 Activin-A | 40.1 |
AP-13 | H1 p47 Control TeSR | 85.0 |
AP-14 | H1 p47 BMP-4 | 49.4 |
ESCd0.1 | Day 0 ESCs | 40.3 |
ESCd0.2 | Day 0 ESCs | 56.0 |
ESCd0.3 | Day 0 ESCs | 86.0 |
DE-d3.1 | Day 3 definitive endoderm | 34.0 |
DE-d3.2 | Day 3 definitive endoderm | 37.7 |
DE-d3.3 | Day 3 definitive endoderm | 25.7 |
NaiveESC.1 | naïve ESCs cells | 26.3 |
NaiveESC.2 | naïve ESCs cells | 30.0 |