CTR:Notebook/PIRE

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==Project Description/Abstract==
==Project Description/Abstract==
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* Experimental online lab notebook for PIRE work
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* Online lab notebook for PIRE work
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==Files==
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*[http://openwetware.org/images/2/22/BestRAD_Library_Prep_Protocol_April2016.docx BestRAD Library Prep Protocol 96 samples]
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*[http://openwetware.org/wiki/Image:BestRAD_Barcode_Template.xls BestRAD Barcode Sequences]
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*[http://openwetware.org/wiki/Image:BestRad_Adaptor_Information.docx BestRAD Adaptor Information]
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*[http://openwetware.org/images/e/e8/Protocol_for_Annealing_Oligos_BestRad.pdf Protocol for Annealing BestRAD adaptor oligos]
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*[http://openwetware.org/images/4/4e/RAD_Illumina_Library_Prep_Protocol_2016-01-26-_For_48_Samples.docx RAD Library Prep Protocol Edited for 48 samples] (updated 2016-01-27)
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*[http://openwetware.org/images/6/62/RAD_Illumina_Library_Prep_Protocol_2015-04-02_2.docx RAD Library Prep Protocol] (updated 2015-04-02)
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**note: NEBNext kit now comes with HiFi Master Mix. High Fidelity 2x Master Mix can still be purchased separately. Both mixes included in kit until June 6, 2015.
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*[https://sites.google.com/site/millermichaelryan Mike Miller's files] (see Downloads section for RAD information kit)
==Notebook==
==Notebook==
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* [http://openwetware.org/wiki/CTR:Notebook/PIRE/2014/05/05 RAD Library Prep - Olive Sunbirds Plate 1]
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* Protocols
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** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2014/04/24 Troubleshooting tests with adapter ligation]
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** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2014/11/21 RAD P1 Adapter Preparation]
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* Birds
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** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2014/05/05 RAD Library Prep - Olive Sunbirds Plate 1]
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** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2014/07/09 RAD Library Prep - Olive Sunbirds Plate 2 and Little Greenbuls Plates 1 & 2]
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** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/02/02 RAD Library Prep - Birds Plate 3]
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* Skinks
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** Quantification
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/08/07 Quantification of Skink Extracts for Plate 3]
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** RAD Library Preps
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/01/14 RAD Library Prep - Skinks Plate 1]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/04/01 RAD Library Prep - Skinks Plate 2]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/08/25 RAD Library Prep - Skinks Plate 3 (reruns, 48 well)]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/08/31 RAD Library Prep - Skinks Plate 4 (reruns, 48 samples, with Mice, Frogs, Butterflies)]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/09/09 RAD Library Prep - Skinks Plate 4 Re-prep (reruns, 48 samples, with Butterflies, Frogs, Skinks P5)]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/09/09 RAD Library Prep - Skinks Plate 5 (reruns, 48 samples, with Butterflies, Frogs, Skinks P4)]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/09/15 RAD Library Prep - Skinks Plate 5 Re-prep (reruns, 48 samples)]
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* Mice
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** Quantification
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/06/15 Gel for Praomys Gel-extracted Samples]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/07/30 E-gel for Original Praomys Samples]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/12/13 E-gel for New Praomys Samples sent November 2015]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2016/05/04 E-gel for New Praomys Samples sent May 2016]
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** RAD Library Preps
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/08/31 RAD Library Prep - Mouse Plate 1 (48 samples, with Frogs, Butterflies, Skinks P4)]
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* Frogs
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** Quantification
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2014/11/17 Frog and Mouse DNA QC]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/07/15 E-gel of Plant and Frog Samples]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/07/29 E-gel of Frog Samples]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/12/14 E-gel of New Frog Samples Sent November 2015]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2016/05/05 E-gel of New Frog Samples Sent May 2016]
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** RAD Library Preps
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/08/31 RAD Library Prep - Frogs Plate 1 (48 samples, with Butterflies, Mice, Skinks P4)]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/09/09 RAD Library Prep - Frogs Plate 1 Re-prep (48 samples, with Butterflies, Skinks P4, Skinks P5)]
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* Butterflies
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** Quantification
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/07/17 E-gel_of_B.dorothea_Extractions]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2016/05/19 E-gel_of_B.dorothea_Extractions sent in May 2016]
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** RAD Library Preps
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/08/31 RAD Library Prep - Butterflies Plate 1 (48 samples, with Frogs, Mice, Skinks P4)]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/09/09 RAD Library Prep - Butterflies Plate 1 Re-prep (48 samples, with Frogs, Skinks P4, Skinks P5)]
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2016/02/16 RAD Library Prep - Butterflies Plate 2 (96 samples, Original RAD protocol)]
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** BESTRAD Library Preps
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*** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2016/02/21 Butterfly Plate 2 (96 samples, BestRAD protocol)]
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*Plants
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** [http://openwetware.org/wiki/CTR:Notebook/PIRE/2015/09/23 Assessment of Plant DNA quality sent from Alexandra Ley 04-2015]
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Project Description/Abstract

  • Online lab notebook for PIRE work

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