Matthew Cai: Difference between revisions

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>Mzcai
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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/2014-5-14|Designing Hexamer RT Primer Enriched in Targeted mRNA]]
 
====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

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)