BioMicroCenter:Protocols

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(ILLUMINA SEQUENCING PROTOCOLS)
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{{BioMicroCenter}}
{{BioMicroCenter}}
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== BioMicro Center Protocol Testing ==
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* [[BioMicroCenter:RTPCR Protocol for Sample QC|RT-PCR Protocol for Sample QC]]
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* [[BioMicroCenter:Cluster Visualization Protocol for Flowcell QC|Cluster Visualization Protocol for Flowcell QC]]
== [[BioMicroCenter:Sequencing|ILLUMINA SEQUENCING PROTOCOLS]] ==
== [[BioMicroCenter:Sequencing|ILLUMINA SEQUENCING PROTOCOLS]] ==
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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.
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[[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>
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* [[BioMicroCenter:Clustering|Clustering Protocol]]
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*[https://icom.illumina.com/Download/Summary/6OVjeOd3X0aH0rzu0JGTYQ Cluster Station Operations Guide]
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* [[BioMicroCenter:Priming and Single Read Protocol|Priming and Single Rread Protocol]]
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*[https://icom.illumina.com/Download/Summary/T8b3pGVc_EumaUulIvCw_w Cluster Station User Guide]
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* [[BioMicroCenter:Priming and Paired-End Protocol| Priming and Paired-End Protocol]]
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*[https://icom.illumina.com/Download/Summary/pR7OF2lK7029XIt0-dkSdQ Genome Analyzer II User Guide]
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*[[Media:LaneByLaneConverterV2.zip|Python script for Lane-by-lane GAII recipe conversion (compatible with SCS2.10 recipes).]]
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<B><BIG> ChIP Seq </BIG></B>
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<B><BIG> ChIP-Seq </BIG></B>
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* [http://biocenter.private.openwetware.org/images/8/85/ChIP-Seq_Sample_Prep_11257047_RevA.pdf Illumina Protocol]
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*[https://icom.illumina.com/Download/Summary/Yy2liOS-nEWyTUnT5w9UMA ChIP-Seq Sample Prep Guide]
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<B><BIG> Genomic DNA </BIG></B>
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<B><BIG> mRNA-Seq </BIG></B>
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* [http://biocenter.private.openwetware.org/images/8/88/Genomic_DNA_Sample_Prep.pdf Illumina protocol (full kit protocol)]<br>
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*[https://icom.illumina.com/Download/Summary/rOfzT_z3S0C4de1GFDL7qQ Directional RNA-Seq Library Prep Pre-Release]
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* [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.
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*[https://icom.illumina.com/Download/Summary/kUyOp1caIk6Sea-x5DN6hw DSN Normalization Sample Prep Guide]
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*[https://icom.illumina.com/Download/Summary/A4zkeV3eLUOO2mzisssR1g mRNA-Seq Sample Prep Guide]
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<B><BIG> Digital Gene Expression </BIG></B>
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<B><BIG> SmallRNA-Seq </BIG></B>
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* [http://biocenter.private.openwetware.org/images/4/47/GEX_NlaIII_Sample_Prep.pdf Illumina Protocol (NlaIII, full kit protocol)]
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*[https://icom.illumina.com/Download/Summary/MBkxLGP9Q0u_psYnP0xQCw SmallRNAv1.5 Sample Prep Guide]
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*[https://icom.illumina.com/Download/Summary/hJKJ92FSg0-ggFSSFSOnpQ SmallRNA Oligo Only Kit Sample Prep Guide]
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* [http://biocenter.private.openwetware.org/images/e/ed/GeneExp_NlaIII_Sample_Prep_OligoOnly_1003652_Rev_A.pdf Illumina Protocol (NlaIII, oligos only protocol)]
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<B><BIG> Genomic DNA </BIG></B>
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*[https://icom.illumina.com/Download/Summary/5vvsqmSoGUKq8t6SBWjjyg Genomic Sample Prep]
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* [http://biocenter.private.openwetware.org/images/4/46/GEX_DpnII_Sample_Prep_1004241_RevA.pdf Illumina Protocol (DpnII, full kit protocol)]
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*[https://icom.illumina.com/Download/Summary/vCFO-bin9ES31x5cPVYFmA Paired End Sample Prep Guide]
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*[https://icom.illumina.com/Download/Summary/ABR93AL3D0eLNaP3P-yckw Multiplexing Sample Prep Guide]
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* [http://biocenter.private.openwetware.org/images/1/10/GeneExp_DpnII_Sample_Prep_OligoOnly_1003653_Rev_A.pdf Illumina Protocol (DpnII, olgios only protocol)]
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*[https://icom.illumina.com/Download/Summary/LAJkz5z08kOWWwwsoZFjmg Mate Pair 2-5Kb Sample Prep Guide]
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<B><BIG> mRNA Seq </BIG></B>
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* [http://biocenter.private.openwetware.org/images/e/e5/MRNA-Seq_SamplePrep.pdf Illumina Protocol]
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== [[BioMicroCenter:Microarray|AGILENT MICROARRAY PROTOCOLS]] ==
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<B><BIG> Small RNA Seq </BIG></B>
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* [[BioMicroCenter:Microarray|aRNA Synthesis and Labeling]] - [[Media:aRNA_labeling.docx| DOWNLOAD]] <br>
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* [http://www.umassmed.edu/uploadedFiles/nemo/Mellolab_smRNA_cloning_a_la_Tuschl_(071408).doc Tuschl Lab Protocol]
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* [[BioMicroCenter:Microarray|Hybridization]] - [[Media:hybridization.docx| DOWNLOAD]] <br>
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* [[BioMicroCenter:Microarray|Wash and Scan]] - [[Media:wash_scan.docx| DOWNLOAD]]
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* [http://biocenter.private.openwetware.org/images/b/bb/GEX_SmallRNA_Sample_Prep_1004239_RevA.pdf Illumina Protocol (full kit protocol)]
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== [[BioMicroCenter:Microarray|Caliper Information]] ==
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* [http://biocenter.private.openwetware.org/images/b/bb/SmallRNA_Sample_Prep_OligoOnly_1003651_Rev_A.pdf Illumina Protocol (oligos only protocol)]
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* [[BioMicroCenter:Microarray|BioRad HSP dimensions]] - [[Media:BioRad HSP dimensions Feb 2011.pdf| DOWNLOAD]]

Revision as of 10:18, 12 April 2013

Image:BioMicroCenter-header6.jpg

Contents

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

Personal tools