Brandon Sos: Difference between revisions

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[[Brandon:Protocols/tn5_production_updated_9_3_2014 | tn5 production protocol updated R4 (9/3/2014)]]
[[Brandon:Protocols/tn5_production_updated_9_3_2014 | tn5 production protocol updated R4 (9/3/2014)]]
[[Brandon:Protocols/transposon_annealing | transposon_annealing]]


[http://genome-tech.ucsd.edu/LabNotes/index.php/Brandon:LabNotes/Project1/2012-5-8 Nextera V1 protocol sequences detail]
[http://genome-tech.ucsd.edu/LabNotes/index.php/Brandon:LabNotes/Project1/2012-5-8 Nextera V1 protocol sequences detail]
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[http://genome-tech.ucsd.edu/LabNotes/index.php/Brandon:LabNotes/Project1/2015-8-3 THS-seq protocol updated to using Nextera XT V2 sequences detail]
[http://genome-tech.ucsd.edu/LabNotes/index.php/Brandon:LabNotes/Project1/2015-8-3 THS-seq protocol updated to using Nextera XT V2 sequences detail]


[[Brandon:Protocols/transposon_annealing | transposon_annealing]]
[http://genome-tech.ucsd.edu/LabNotes/index.php/Brandon:LabNotes/Project1/2015-9-18 combinatorial barcoding using contiguity preserved barcoded Tn5 method with Nextera XT V2 sequences detail]
 
[http://genome-tech.ucsd.edu/LabNotes/index.php/Brandon:LabNotes/Project1/2015-9-21 multiplex combinatorial cellular indexing adaptation to THS-seq using nXTv2 sequence detail and protocol]
 


*notes
*notes
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==Main Calendar==
==Main Calendar==
<calendar>
name=Brandon:LabNotes/Project1
format=%name/%year-%month-%day
date=2017/02/01
view=twoyear
</calendar>
<calendar>
name=Brandon:LabNotes/Project1
format=%name/%year-%month-%day
date=2016/02/01
view=twoyear
</calendar>


<calendar>
<calendar>

Latest revision as of 23:41, 1 February 2017

Current Projects[edit]

Protocols[edit]

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)

transposon_annealing

Nextera V1 protocol sequences detail

original T7-top protocol sequences detail

THS-seq_RNA_processing_with_double_stranded_cDNA_and_tn5_fragmentation_adaptor_addition_and_sequences_detail

Nextera_XT_V2_sequences_and_outline_sequences_detail

THS-seq protocol updated to using Nextera XT V2 sequences detail

combinatorial barcoding using contiguity preserved barcoded Tn5 method with Nextera XT V2 sequences detail

multiplex combinatorial cellular indexing adaptation to THS-seq using nXTv2 sequence detail and protocol


  • 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[edit]

<calendar> name=Brandon:LabNotes/Project1 format=%name/%year-%month-%day date=2017/02/01 view=twoyear </calendar>

<calendar> name=Brandon:LabNotes/Project1 format=%name/%year-%month-%day date=2016/02/01 view=twoyear </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>