Cronn Lab:Protocols

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==Genomic DNA Extraction==
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==Illumina GA Data Management==
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Add protocol here.
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[[Short read toolbox]].  Many of our projects use short-read data from the Illumina Genome Analyzer 1 & 2. [[user: Brian J. Knaus | Brian Knaus]] in our lab has developed a number of scripts for managing and analyzing short-read files and data.
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==Gel Electrophoresis==
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==Illumina GA DNA-Seq==
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Add protocol here.
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[[DNA_Seq Prep]]. Our research group has developed several methods for sequencing small genomes (mitochondria, chloroplasts, BACS) in multiplex using Illumina GA2. This page provides details on DNA-Seq library construction.
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==DNA Clean-up==
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==Illumina GA RNA-Seq==
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Add protocol here.
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[[RNA_Seq Prep]]. We do mRNA-sequencing using methods developed by [http://www.cgrb.oregonstate.edu/faculty/mockler| Todd Mockler's] group at Oregon State University. This page provides details on RNA-Seq library construction.
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==DNA Quantification==
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==Illumina GA Hyb-Seq==
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Add protocol here.
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[[Hyb_Seq Prep]]. Like many groups, we've developed customized approaches to enrich rare genomic targets for high-throughput sequencing. Our method for isolating chloroplast genomes by Hyb-Seq is detailed here.
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==Illumina DNA Sequencing==
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==Random Lab Methods==
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===Illumina product literature===
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[[Lab_Methods]]. DNA extraction, RNA extraction, gels, and short cuts... all here
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==References on the Illumina GA Sequencer==
*[http://www.illumina.com/downloads/SS_DNAsequencing.pdf Illumina Sequencing Technology]
*[http://www.illumina.com/downloads/SS_DNAsequencing.pdf Illumina Sequencing Technology]
*[http://www.illumina.com/downloads/GenomicSeq_DataSheet.pdf Genomic Sequencing]
*[http://www.illumina.com/downloads/GenomicSeq_DataSheet.pdf Genomic Sequencing]
*[http://www.illumina.com/downloads/targetedresequencing.pdf Targeted Resequencing]
*[http://www.illumina.com/downloads/targetedresequencing.pdf Targeted Resequencing]

Revision as of 04:08, 25 November 2009

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Contents

Illumina GA Data Management

Short read toolbox. Many of our projects use short-read data from the Illumina Genome Analyzer 1 & 2. Brian Knaus in our lab has developed a number of scripts for managing and analyzing short-read files and data.

Illumina GA DNA-Seq

DNA_Seq Prep. Our research group has developed several methods for sequencing small genomes (mitochondria, chloroplasts, BACS) in multiplex using Illumina GA2. This page provides details on DNA-Seq library construction.

Illumina GA RNA-Seq

RNA_Seq Prep. We do mRNA-sequencing using methods developed by Todd Mockler's group at Oregon State University. This page provides details on RNA-Seq library construction.

Illumina GA Hyb-Seq

Hyb_Seq Prep. Like many groups, we've developed customized approaches to enrich rare genomic targets for high-throughput sequencing. Our method for isolating chloroplast genomes by Hyb-Seq is detailed here.

Random Lab Methods

Lab_Methods. DNA extraction, RNA extraction, gels, and short cuts... all here

References on the Illumina GA Sequencer

Personal tools