Brandon Sos: Difference between revisions

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[http://genome-tech.ucsd.edu/LabNotes/index.php/Brandon:LabNotes/Project1/2013-7-10 THS-seq_RNA_processing_with_double_stranded_cDNA_and_tn5_fragmentation_adaptor_addition]
[http://genome-tech.ucsd.edu/LabNotes/index.php/Brandon:LabNotes/Project1/2013-7-10 THS-seq_RNA_processing_with_double_stranded_cDNA_and_tn5_fragmentation_adaptor_addition]
[http://genome-tech.ucsd.edu/LabNotes/index.php/Brandon:LabNotes/Project1/2015-8-3 THS-seq protocol updated to using Nextera XT V2 sequences]


[[Brandon:Protocols/transposon_annealing | transposon_annealing]]
[[Brandon:Protocols/transposon_annealing | transposon_annealing]]

Revision as of 01:31, 11 August 2015

Current Projects

Protocols

polyacrylamide DNA gel

TBU gel

Count cells

Primers prep

Lysis buffers

gel size selection

AMPure XP beads purification only (for >= 5 ng)

AMPure XP beads purification 2-step PCR (for <=5 ng)

Cloning and Transformation.

Invitrogen MAXIscript T7 In vitro transcription kit

SMART MMLV RT protocol (for first strand synthesis)

standard PCR cycling for for different enzymes etc

enzyme reaction buffer compositions

e gel protocol

qubit protocol

agarose gel protocol

tn5 production protocol

tn5 production protocol updated R3 (7/30/2014)

tn5 production protocol updated R4 (9/3/2014)

Nextera_XT_V2_sequences_and_outline

THS-seq_RNA_processing_with_double_stranded_cDNA_and_tn5_fragmentation_adaptor_addition

THS-seq protocol updated to using Nextera XT V2 sequences

transposon_annealing

  • notes
    • minielute colums for <10 ul samples, otherwise use qiaquick columns
    • N2 adaptor is illuminia adaptor. Nextera adaptor is nextera adaptor


Scratch for notes etc

Main Calendar

<calendar> name=Brandon:LabNotes/Project1 format=%name/%year-%month-%day date=2015/02/01 view=twoyear </calendar>

<calendar> name=Brandon:LabNotes/Project1 format=%name/%year-%month-%day date=2014/02/01 view=twoyear </calendar>

<calendar> name=Brandon:LabNotes/Project1 format=%name/%year-%month-%day date=2013/02/01 view=twoyear </calendar>

<calendar> name=Brandon:LabNotes/Project1 format=%name/%year-%month-%day date=2012/02/01 view=twoyear </calendar>

<calendar> name=Brandon:LabNotes/Project1 format=%name/%year-%month-%day date=2011/02/01 view=twoyear </calendar>