Matthew Cai: Difference between revisions
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==Projects== | ==Projects== | ||
===in Situ Sequencing=== | ===in Situ Sequencing=== | ||
====Probe/Primer Design==== | |||
*[[Matt:LabNotes/exonProbeDesign|Padlock Probe Design]] | *[[Matt:LabNotes/exonProbeDesign|Padlock Probe Design]] | ||
*[[Matt:LabNotes/2014-5-14|Designing Hexamer RT Primer Enriched in Targeted mRNA]] | |||
====Probe Production and Testing==== | |||
*[[Matt:LabNotes/Probe Production and Capture|Probe Production and Capture]] | *[[Matt:LabNotes/Probe Production and Capture|Probe Production and Capture]] | ||
*[[Matt:LabNotes/2013-5-10|Agilent Probe Prep]] | |||
*[[Matt:LabNotes/2013-8-20|CA12k Capture (MiSeq_130325) Analysis]] | *[[Matt:LabNotes/2013-8-20|CA12k Capture (MiSeq_130325) Analysis]] | ||
*[[Matt:LabNotes/2013-7-26#Analysis_of_HL152:_Representation_Bias_of_CA12k_Oligos_(Corrected)|CA12k End Sequencing (HL152_130524) Analysis]] | *[[Matt:LabNotes/2013-7-26#Analysis_of_HL152:_Representation_Bias_of_CA12k_Oligos_(Corrected)|CA12k End Sequencing (HL152_130524) Analysis]] | ||
*[[Matt:LabNotes/2013-7-26#Analysis_of_HL155:_Representation_Bias_of_Agi26k_Oligos_(Corrected)|Agi26k End Sequencing (HL155_130628) Analysis]] | *[[Matt:LabNotes/2013-7-26#Analysis_of_HL155:_Representation_Bias_of_Agi26k_Oligos_(Corrected)|Agi26k End Sequencing (HL155_130628) Analysis]] | ||
*[[Matt:LabNotes/2013-8-9#Quantifying_Errors_in_CA12k_and_Agi26k_Oligo_Pools_.28Ignoring_low_base_quality_substitution_errors.29|Quantifying Errors in CA12k and Agi26k Oligo Pools]] | *[[Matt:LabNotes/2013-8-9#Quantifying_Errors_in_CA12k_and_Agi26k_Oligo_Pools_.28Ignoring_low_base_quality_substitution_errors.29|Quantifying Errors in CA12k and Agi26k Oligo Pools]] | ||
*[[Matt:LabNotes/2014-5- | |||
====Rolony Experiments==== | |||
*[[Matt:LabNotes/2014-5-7|ppMALAT1_dcProbe1 Capture of MALAT1 Rolonies +/- EDTA]] | |||
=====Ampligase Efficiency Test===== | |||
*[[Matt:LabNotes/2014-5-16|Detecting ppMALAT1 Hybridization]] | |||
==Notebook== | ==Notebook== |
Revision as of 19:39, 22 May 2014
Projects
in Situ Sequencing
Probe/Primer Design
Probe Production and Testing
- Probe Production and Capture
- Agilent Probe Prep
- CA12k Capture (MiSeq_130325) Analysis
- CA12k End Sequencing (HL152_130524) Analysis
- Agi26k End Sequencing (HL155_130628) Analysis
- Quantifying Errors in CA12k and Agi26k Oligo Pools
Rolony Experiments
Ampligase Efficiency Test
Notebook
2014
<calendar> name=Matt format=%name:LabNotes/%year-%month-%day date=2014/01/01 view=oneyear </calendar>
2013
<calendar> name=Matt format=%name:LabNotes/%year-%month-%day date=2013/01/01 view=oneyear </calendar>
Protocols
Sequencing Runs
130325_MiSeq: CA12k capture of gDNA, cDNAwRNase, and cDNA-RNase
130524_HL152 (Lane 2, unassigned): CA12k oligos
130628_HL155 (Lane 3, Indx 10 & 12): Agi26k_0gap and Agi26k_20gap oligos
130729_MiSeq: Agi26k_0gap and Agi26k_20gap capture of gDNA and cDNA
Probe Sets
CA12k: 12,355 probes (170nt)
Agi26k_0gap: 12,964 probes (193nt)
Agi26k_20gap: 13,179 probes (193nt)