BioMicroCenter:Protocols: Difference between revisions

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{{BioMicroCenter}}
{{BioMicroCenter}}
== BioMicro Center Protocol Testing ==
* [[BioMicroCenter:RTPCR Protocol for Sample QC|RT-PCR Protocol for Sample QC]]
* [[BioMicroCenter:Cluster Visualization Protocol for Flowcell QC|Cluster Visualization Protocol for Flowcell QC]]


== [[BioMicroCenter:Sequencing|ILLUMINA SEQUENCING PROTOCOLS]] ==
== [[BioMicroCenter:Sequencing|ILLUMINA SEQUENCING PROTOCOLS]] ==
To access the official Illumina protocols please got to the [http://illumina.com Illumina website] and create an iCom account. Once an iCom account has been created please feel free to use the links below to download specific protocols.
[[Media: BioMicro_Single_Read_Illumina_Primer_Seq_WorkFlow.xlsx | Illumina Single Read and Multiplexing Sequence Workflow]] <br>


<B><BIG> Cluster Station and Genome Analyzer </BIG></B>
<B><BIG> Cluster Station and Genome Analyzer </BIG></B>
*[https://icom.illumina.com/Download/Summary/6OVjeOd3X0aH0rzu0JGTYQ Cluster Station Operations Guide]
*[https://icom.illumina.com/Download/Summary/T8b3pGVc_EumaUulIvCw_w Cluster Station User Guide]
*[https://icom.illumina.com/Download/Summary/pR7OF2lK7029XIt0-dkSdQ Genome Analyzer II User Guide]
*[[Media:LaneByLaneConverterV2.zip|Python script for Lane-by-lane GAII recipe conversion (compatible with SCS2.10 recipes).]]
<B><BIG> ChIP-Seq </BIG></B>
*[https://icom.illumina.com/Download/Summary/Yy2liOS-nEWyTUnT5w9UMA ChIP-Seq Sample Prep Guide]


* [[BioMicroCenter:Priming and Single Read Protocol|Priming and Single Rread Protocol]]
<B><BIG> mRNA-Seq </BIG></B>
* [[BioMicroCenter:Priming and Paired-End Protocol| Priming and Paired-End Protocol]]
*[https://icom.illumina.com/Download/Summary/rOfzT_z3S0C4de1GFDL7qQ Directional RNA-Seq Library Prep Pre-Release]
*[https://icom.illumina.com/Download/Summary/kUyOp1caIk6Sea-x5DN6hw DSN Normalization Sample Prep Guide]
*[https://icom.illumina.com/Download/Summary/A4zkeV3eLUOO2mzisssR1g mRNA-Seq Sample Prep Guide]


<B><BIG> ChIP Seq </BIG></B>
<B><BIG> SmallRNA-Seq </BIG></B>
* [http://biocenter.private.openwetware.org/images/8/85/ChIP-Seq_Sample_Prep_11257047_RevA.pdf Illumina Protocol]
*[https://icom.illumina.com/Download/Summary/MBkxLGP9Q0u_psYnP0xQCw SmallRNAv1.5 Sample Prep Guide]
*[https://icom.illumina.com/Download/Summary/hJKJ92FSg0-ggFSSFSOnpQ SmallRNA Oligo Only Kit Sample Prep Guide]


<B><BIG> Genomic DNA </BIG></B>
<B><BIG> Genomic DNA </BIG></B>
* [http://biocenter.private.openwetware.org/images/8/88/Genomic_DNA_Sample_Prep.pdf Illumina protocol (full kit protocol)]<br>
*[https://icom.illumina.com/Download/Summary/5vvsqmSoGUKq8t6SBWjjyg Genomic Sample Prep]
* [http://biocenter.private.openwetware.org/images/6/6c/Genomic_DNA_Sample_Prep_OligoOnly_1003492_Rev_A.pdf Illumina protocol (oligos only protocol)] - unlike the full kit, this kit provides only the adapters PCR primers. Users wishing to adapting current lab protocols may find this protocol more useful.
*[https://icom.illumina.com/Download/Summary/vCFO-bin9ES31x5cPVYFmA Paired End Sample Prep Guide]
 
*[https://icom.illumina.com/Download/Summary/ABR93AL3D0eLNaP3P-yckw Multiplexing Sample Prep Guide]
<B><BIG> Digital Gene Expression </BIG></B>
*[https://icom.illumina.com/Download/Summary/LAJkz5z08kOWWwwsoZFjmg Mate Pair 2-5Kb Sample Prep Guide]
* [http://biocenter.private.openwetware.org/images/4/47/GEX_NlaIII_Sample_Prep.pdf Illumina Protocol (NlaIII, full kit protocol)]
 
* [http://biocenter.private.openwetware.org/images/e/ed/GeneExp_NlaIII_Sample_Prep_OligoOnly_1003652_Rev_A.pdf Illumina Protocol (NlaIII, oligos only protocol)]


* [http://biocenter.private.openwetware.org/images/4/46/GEX_DpnII_Sample_Prep_1004241_RevA.pdf Illumina Protocol (DpnII, full kit protocol)]
== [[BioMicroCenter:Microarray|AGILENT MICROARRAY PROTOCOLS]] ==


* [http://biocenter.private.openwetware.org/images/1/10/GeneExp_DpnII_Sample_Prep_OligoOnly_1003653_Rev_A.pdf Illumina Protocol (DpnII, olgios only protocol)]
* [[BioMicroCenter:Microarray|aRNA Synthesis and Labeling]] - [[Media:aRNA_labeling.docx| DOWNLOAD]] <br>
* [[BioMicroCenter:Microarray|Hybridization]] - [[Media:hybridization.docx| DOWNLOAD]] <br>
* [[BioMicroCenter:Microarray|Wash and Scan]] - [[Media:wash_scan.docx| DOWNLOAD]]


== [[BioMicroCenter:Microarray|Caliper Information]] ==


<B><BIG> mRNA Seq </BIG></B>
* [[BioMicroCenter:Microarray|BioRad HSP dimensions]] - [[Media:BioRad HSP dimensions Feb 2011.pdf| DOWNLOAD]]
* [http://biocenter.private.openwetware.org/images/e/e5/MRNA-Seq_SamplePrep.pdf Illumina Protocol]
 
 
<B><BIG> Small RNA Seq </BIG></B>
* [http://www.umassmed.edu/uploadedFiles/nemo/Mellolab_smRNA_cloning_a_la_Tuschl_(071408).doc Tuschl Lab Protocol]
 
* [http://biocenter.private.openwetware.org/images/b/bb/GEX_SmallRNA_Sample_Prep_1004239_RevA.pdf Illumina Protocol (full kit protocol)]
 
* [http://biocenter.private.openwetware.org/images/b/bb/SmallRNA_Sample_Prep_OligoOnly_1003651_Rev_A.pdf Illumina Protocol (oligos only protocol)]
 
== BioMicro Center Protocol Testing ==
* [[BioMicroCenter:RTPCR_for_Solexa|RT-PCR for Sample QC]]
 
* [[BioMicroCenter:RTPCR Protocol for Sample QC|RT-PCR Protocol for Sample QC]]

Revision as of 07:18, 12 April 2013

HOME -- SEQUENCING -- LIBRARY PREP -- HIGH-THROUGHPUT -- COMPUTING -- OTHER TECHNOLOGY

BioMicro Center Protocol Testing

ILLUMINA SEQUENCING PROTOCOLS

To access the official Illumina protocols please got to the Illumina website and create an iCom account. Once an iCom account has been created please feel free to use the links below to download specific protocols.

Illumina Single Read and Multiplexing Sequence Workflow

Cluster Station and Genome Analyzer

ChIP-Seq

mRNA-Seq

SmallRNA-Seq

Genomic DNA

AGILENT MICROARRAY PROTOCOLS

Caliper Information

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