Sequencing Documentation

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Description
 
File Info
Date
TruSeq Exome Library Prep Checklist

This checklist is a condensed form of the TruSeq Exome Library Prep protocol. It is easy to print and carry with you in the lab.

HiSeq X Software v3.3.39 Release Notes

This document describes the changes and features introduced in HiSeq X software package v3.3.39, which includes HiSeq X Control Software v3.3.39 and updates to RTA, recipes, the BaseSpace Broker, and Sequencing Analysis Viewer software.

TruSeq Stranded mRNA Library Prep for NeoPrep Checklist

This checklist is a condensed form of the TruSeq Stranded mRNA Library Prep for NeoPrep protocol. It is easy to print and carry with you in the lab.

ScriptSeq Complete (Human/Mouse/Rat) Low-Input Library Prep Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq Complete (Human/Mouse/Rat) Low-Input Kit.

SurePlex Summary Protocol Experienced User Card
Experienced-level instructions for preparing samples using the SurePlex DNA Amplification kit.
HiSeq 3000 System Guide

The system guide describes instrument components, on-instrument software, the sequencing workflow, and maintenance procedures for the HiSeq 3000.

TruSeq Stranded mRNA Sample Prep HS EUC and LTF

Experienced-level instructions for preparing samples using the HS protocol for the TruSeq Stranded mRNA Sample Prep Kit.

TruSeq RNA Sample Preparation v2 High Sample Experienced User Card and Lab Tracking Form

Experienced-level instructions for preparing samples using the high sample protocol for the TruSeq RNA Sample Preparation v2 Kit.

NextSeq System Custom Primers Guide

This guide contains instructions for using custom primers on the NextSeq 500 and NextSeq 550 systems, which includes preparing and loading primers, and setting up the run to specify custom primers for the run.

TruSight Rapid Capture Checklist

This checklist is a condensed form of the TruSight Rapid Capture protocol. It is easy to print and carry with you in the lab.

MiniSeq System Guide

This guide contains an overview of instrument components and instructions for operating and maintaining the MiniSeq System.

TruSight Tumor Sample Prep Experienced User Card

Intended for the experienced user, this document summarizes instructions for using the TruSight Tumor Sample Prep Kit. Sufficient reagents are supplied for 48 samples and indexes provided enable sample indexing of 4 samples per sequencing run.

HiSeq Upgrade Welcome Letter

This is the welcome letter that was sent to customers about their HiSeq upgrade.

MiSeq Sequencing Welcome Card

This quick reference card is a graphical introduction to the MiSeq instrument. It covers information such as MiSeq appllications, MiSeq publications, Sample Preparation, navigating through the support website, and MiSeq community resources.

Installing MiSeq Reporter on an Off-Instrument Computer (15031742)

 

For instructions on how to install MiSeq Reporter software off-instrument, see the MiSeq Reporter Software Guide.

TruSeq Targeted RNA BaseSpace App Documentation

For instructions on using the TruSeq Targeted RNA BaseSpace App, see TruSeq Targeted RNA v1.0 Online Help.

Nextera Enrichment Sample Preparation Guide

Instructions for preparing samples using the Nextera Enrichment sample prep Kit.

mRNA-Seq Sample Prep Guide (1004898 D)

This download contains the sample preparation guide for mRNA sequencing.

TruSight Myeloid Sequencing Panel Checklist

This checklist is a condensed form of the TruSight Myeloid protocol. It is easy to print and carry with you in the lab.

Read 1 Primer Rehybridization on a HiSeq X Flow Cell

Instructions for performing Read 1 primer rehybridization on a HiSeq X flow cell using the HiSeq X cBot Multi-Primer Rehybridization Kit v2.

Directional mRNA-Seq Sample Prep Guide (15018460)

Instructions for performing the Directional mRNA-Seq sample prep assay.

Mate Pair Library v2 Sample Preparation Guide for 2-5 kb Libraries (15008135)

Instructions for preparing samples using the Mate Pair Library Kit v2.

HiSeq v4 System Upgrade FAQ

This document describes key upgrade features, upgrade components, software upgrade features, and new chemistry features.

Illumina Adapter Sequences Document

This document contains oligonucleotide (oligo) sequences of Illumina adapters used in Nextera, TruSeq, and TruSight library prep kits. This information is provided for use with Illumina sequencing instruments only: MiSeq, NextSeq, and HiSeq systems.

HiSeq and GAIIx Systems Denature and Dilute Libraries Guide

This guide contains instructions for denaturing and diluting libraries after library preparation and before sequencing on a HiSeq or GAIIx system. This guide also includes instructions for preparing a PhiX control.

ForenSeq DNA Signature Prep Protocol Guide

This guide contains just the steps needed to prepare ForenSeq DNA Signature Prep libraries. It is intended for users who are experienced with Illumina library prep methods.

Genome Analyzer IIx Run Rescue Protocols (15019044)

Instructions for restoring failed runs on the Genome Analyzer.

HiSeq 1500 System Guide

This guide provides an overview of instrument components and instructions for operating and maintaining the HiSeq 1500. Workflows include HiSeq v4, TruSeq v3, and Rapid Run.

TruSeq Stranded Total RNA Sample Prep Guide

Instructions for preparing samples using the TruSeq Stranded Total RNA Sample Prep Kit.

TruSight Cardio Sequencing Kit Consumables & Equipment

Consumables and equipment used with the TruSight Cardio Sequencing Kit. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

MiSeqDx Cystic Fibrosis 139-Variant Assay Physician Insert

 

This insert contains physician information for the MiSeqDx Cystic Fibrosis 139-Variant Assay.

 

TruSeq Amplicon - Cancer Panel Protocol Guide

This guide contains just the steps needed to prepare TruSeq Amplicon - Cancer Panel libraries. It is intended for users who are experienced with Illumina library prep methods.

TruSeq Custom Amplicon Low Input Library Prep Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSeq Custom Amplicon Low Input library prep protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

TruSeq Targeted RNA Expression Consumables & Equipment

Consumables and equipment used with the TruSeq Targeted RNA Expression kit. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

MiSeq Reporter TruSight Tumor 15 Workflow Guide

This guide provides an overview of the MiSeq Reporter TruSight Tumor 15 analysis workflow, including installation instructions, workflow requirements, and descriptions of analysis output files.

TruSeq RNA Sample Preparation High Throughput Lab Tracking Form

Instructions for using the TruSeq RNA sample prep HT protocol.

Nextera Rapid Capture Enrichment User-Supplied Consumables and Equipment

Consumables and equipment excerpt from the Nextera Rapid Capture Enrichment Guide.

MiSeq FGx Instrument Safety and Compliance Guide

 

This guide contains safety information and product compliance markings for the MiSeq FGx Instrument.

 

BaseSpace Variant Interpreter Beta Online Help

For instructions on using BaseSpace Interpreter Beta, visit BaseSpace Variant Interpreter Beta Online Help.

HiSeq Analysis Software v2.1 Release Notes

HiSeq Analysis Software v2.1 release notes describe features and changes introduced in the latest versions of the HiSeq Analysis Software v2.1.

Isaac Whole Genome Sequencing BaseSpace App Documentation

For instructions on using the Isaac Whole Genome Sequencing BaseSpace App, see the Isaac Whole Genome Sequencing v6.0 Online Help.

NextSeq System Site Prep Guide

This guide contains lab specifications and requirements for preparing a site for the NextSeq 500 and NextSeq 550 systems.

MiSeqDx Instrument Reference Guide for Dual Boot Configuration

 

For customers that have a MiSeqDx instrument with dual boot upgrade. If you are not sure if your instrument has the dual boot upgrade, contact Illumina Technical Support. This guide includes information about instrument components, MiSeq Operating Software, and instructions for performing a sequencing run and maintaining the MiSeqDx instrument. 

 

FastTrack Services Long Reads Pipeline User Guide

This document provides an overview of the Long Read Sequencing Service informatics pipeline. It provides details of the source and contents of the main files that Illumina sequencing services creates when assembling long read data sets. Additionally it provides information about the algorithms used for assembling the synthetic long reads. The aim of this document is to help you understand the Long Read Sequencing Service data package that you received from Illumina.

TruSeq DNA Sample Preparation Low Sample Experienced User Card

Experienced-level instructions for using the TruSeq DNA sample prep LS protocol.

TruSeq DNA Sample Preparation High Sample Experienced User Card

Experienced-level instructions for using the TruSeq DNA sample prep HS protocol.

Read 1 Primer Rehybridization on a HiSeq 3000/4000 Flow Cell

Instructions for performing Read 1 primer rehybridization on a HiSeq 3000/4000 flow cell using the HiSeq 3000/4000 cBot Multi-Primer Rehybridization Kit.

Preparing Samples for Paired-End Sequencing (1005063)

Instructions for preparing samples using the Paired-End sample prep Kit.

TruSeq Synthetic Long-Read DNA Library Prep Sequencing and Analysis Product Insert

This document outlines sequencing and analysis workflows with the TruSeq Synthetic Long-Read DNA Library Prep and TruSeq Synthetic Long-Read DNA Barcode kits.

BWA Whole Genome Sequencing BaseSpace App Documentation

For instructions on using the BWA Whole Genome Sequencing BaseSpace App, see BWA Whole Genome Sequencing v1.0 Online Help.

ScriptSeq Complete (Plant Seed/Root) Library Prep Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq Complete (Plant Seed/Root) Kit.

TruSeq DNA Sample Preparation High Sample Lab Tracking Form

Lab tracking form for the TruSeq DNA sample prep HS protocol.

MiSeq Reporter Workflows in BaseSpace Customer Release Notes

Release notes for MiSeq Reporter workflows in BaseSpace.

Nextera Rapid Capture Enrichment Protocol Guide

This guide contains just the steps needed to prepare Nextera Rapid Capture enriched libraries. It is intended for users who are experienced with Illumina library prep methods.

HiSeq System Upgrade Information Sheet

This document describes key upgrade features, upgrade components, software upgrade features, and new chemistry features.

TruSeq Small RNA Library Prep Kit Protocol Guide

This guide contains just the steps needed to prepare TruSeq Small RNA libraries. It is intended for users who are experienced with Illumina library prep methods.

Off-Line Basecaller v1.9.4 User Guide (15009920)

Instructions for using OLB v1.9.4 for basecalling and converting *.bcl files to *qseq.txt files.

Excerpt (Troubleshooting) from HiScanSQ System User Guide (15015392)

Instructions for troubleshooting problems on the HiScanSQ.

TruSeq Stranded Total RNA Sample Preparation User-Supplied Consumables and Equipment

Consumables and equipment excerpt from the TruSeq Stranded Total RNA Sample Preparation Guide.

TruSeq RNA Sample Preparation Guide

This download contains the guide for the TruSeq RNA Sample Preparation protocol for sequencing.

TruSeq Stranded mRNA Library Prep for NeoPrep Consumables & Equipment List

Consumables and equipment used with the TruSight Stranded mRNA Library Prep for NeoPrep Kit. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

MiSeq Sample Sheet Quick Reference Guide

This guide provides guidance for setting up sample sheets for sequencing on the MiSeq.

NovaSeq Series Safety and Compliance Guide

This guide describes safety information and provides product compliance statements for the NovaSeq Series of Sequencing Systems.

16S Metagenomic Sequencing Library Preparation

Includes the 16S Illumina Demonstrated Library Prep Guide and links to an example 16S dataset from libraries generated with the protocol and run on the MiSeq with v3 reagents.

TruSight Tumor 26 Protocol Guide

This guide contains just the steps for the TruSight Tumor 26 protocol. It is intended for users who are experienced with Illumina library prep methods.

CASAVA v1.8.2 Quick Reference Guide (15011197 C)

This download contains the quick reference guide for CASAVA v1.8.2 sequencing analysis software.

CASAVA v1.8 Quick Reference Booklet (15011197 B)

This download contains the quick reference booklet for CASAVA v1.8 sequencing analysis software.

TruSeq Synthetic Long-Read DNA Library Prep User-Supplied Consumables and Equipment

Consumables and equipment excerpt from the TruSeq Synthetic Long-Read DNA Library Prep Guide.

Nextera XT DNA Library Prep Kit Consumables & Equipment List

This document lists the consumables and equipment used with the Nextera XT DNA Library Prep Kit.

IEM TruSight Quick Reference Card

Instructions for using IEM with TruSight kits.

bcl2fastq Conversion Software v1.8.4 User Guide

This guide includes instructions for using the bcl2fastq Conversion Software v1.8.4 to demultiplex data and convert BCL files from MiSeq or HiSeq systems running RTA versions earlier than 1.8 to standard FASTQ file formats for downstream analysis.

ScriptSeq Complete Gold (Epidemiology) Library Prep Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq Complete Gold (Epidemiology) Kit.

TruSeq Targeted RNA Expression Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSeq Targeted RNA Expresion protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

TruSeq RNA Sample Preparation v2 Low Sample Experienced User Card and Lab Tracking Form

Experienced-level instructions for preparing samples using the low sample protocol for the TruSeq RNA Sample Preparation v2 Kit.

HiScanSQ Pausing a Sequencing Run to Scan BeadChips (15023459 A)

Instructions for pausing a sequencing run on the HiScanSQ.

MiSeqDx Instrument Site Preparation Guide

 

This guide provides requirements for preparing a lab for the MiSeqDx Platform: lab space requirements, electrical requirements, bench recommendations, UPS recommendations, and user-supplied consumables. For customers that do not have a MiSeqDx instrument with dual boot upgrade. If you are not sure if your instrument has the dual boot upgrade, contact Illumina Technical Support.

 

Lab Tracking Form Single-Read Cluster Station v5 (15019439)

Lab Tracking Form Single-Read Cluster Station v5 (15019439)

CASAVA User Guide (15011196 D)

This download contains the user guide for the CASAVA sequencing analysis software.

Frequently Asked Questions (FAQs) - Certificate of Analysis (CofA)

Frequently Asked Questions (FAQs) for the Certificate of Analysis (CofA)

TruSeq DNA Sample Preparation User-Supplied Consumables and Equipment

Consumables and equipment excerpt from the TruSeq DNA Sample Preparation Guide.

Local Run Manager Amplicon DS Analysis Module Workflow Guide

This guide provides instructions for setting up a run and viewing analysis results using the Amplicon DS analysis module.

TruSeq Custom Amplicon Low Input Library Prep Protocol Guide

This guide contains just the steps needed to prepare TruSeq Custom Amplicon Low Input libraries. It is intended for users who are experienced with Illumina library prep methods.

HiSeq 4000 and HiSeq 3000 Systems Safety and Compliance Guide

The safety and compliance guide describes safety considerations and lists product compliance markings for the HiSeq 4000 and HiSeq 3000.

MiSeqDx Instrument Site Preparation Guide for Dual Boot Configuration

 

For customers that have a MiSeqDx instrument with dual boot upgrade. If you are not sure if your instrument has the dual boot upgrade, contact Illumina Technical Support. This guide provides requirements for preparing a lab for the MiSeqDx Platform: lab space requirements, electrical requirements, bench recommendations, UPS recommendations, and user-supplied consumables. 

 

Isaac Enrichment BaseSpace App Documentation

For instructions on using the Isaac Enrichment BaseSpace App, see Isaac Enrichment v2.1 Online Help.

MethylSeq BaseSpace App Documentation

For instructions on using the MethylSeq BaseSpace App, see MethylSeq v1.0 Online Help.

MiSeq FGx Instrument Reference Guide

 

This guide includes information about instrument components, MiSeq FGx Control Software, and required consumables, and instructions for performing a sequencing run and maintaining the instrument.

 

TruSight Tumor 15 Consumables and Equipment

Consumables and equipment used with the TruSight Tumor 15 Kit. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window

TruSeq Rapid Exome Library Prep Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSeq Rapid Exome Library Prep protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

TruSeq DNA Sample Preparation (v1) High Throughput Lab Tracking Form

Lab tracking form for the TruSeq DNA sample prep HT assay.

Human_mtDNA_D_Loop_Hypervariable_Region Guide (15034858)

Instructions for Human mtDNA D-Loop Hypervariable Region sample preparation.

NextSeq System Safety and Compliance Guides

The safety and compliance guide contains safety considerations and product compliance markings for the NextSeq 500 and NextSeq 550 systems.

The RFID Reader guide contains compliance information for the RFID reader, an internal component of the NextSeq 500 and NextSeq 550 systems.

MiSeqDx Cystic Fibrosis Clinical Sequencing Assay Reference Guide

This guide contains best practices and instructions for preparing libraries using the MiSeqDx Cystic Fibrosis Clinical Sequencing Assay.

Paired-End Cluster Generation Lab Tracking Form (15009438)

This download contains the interactive lab tracking form for paired-end cluster generation on the Cluster Station.

TruSight RNA Pan-Cancer Panel Consumables & Equipment

Consumables and equipment used with the TruSight Pan-Cancer Panel. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

TruSight HLA v1 Sequencing Panel Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSight HLA protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

Local Run Manager Software Guide

This guide provides an overview of the Local Run Manager software, instructions for using software features, and instructions for installing analysis modules on the instrument computer.

VeriSeq NIPT Analysis Software (48 Samples) Guide

Instructions for analyzing NGS data using the VeriSeq NIPT Analysis Software (48 Samples).

TruSight Tumor 15 Checklist

This checklist is a condensed form of the TruSight Tumor 15 protocol. It is easy to print and carry with you in the lab.

Local Run Manager Targeted RNA Analysis Module Workflow Guide

This guide provides instructions for setting up a run and viewing analysis results using the Targeted RNA analysis module.

TruSeq Nano DNA Library Prep Protocol Guide

This guide contains just the steps needed to prepare TruSeq Nano DNA libraries. It is intended for users who are experienced with Illumina library prep methods.

TruSight One Sequencing Panel Checklist

This checklist is a condensed form of the TuSight One protocol. It is easy to print and carry with you in the lab.

RNA-Seq Alignment App Documentation

For instructions on using the RNA-Seq Alignment BaseSpace App, see RNA-Seq Alignment v1.0 Online Help.

TruSeq Custom Amplicon v1.5 Reference Guide

Instructions for preparing samples using the TruSeq Custom Amplicon Library Preparation Kit.

cBot System Site Prep Guide

This guide contains lab specifications and requirements for preparing a site for the cBot 2 and cBot systems.

TruSight RNA Pan-Cancer Panel Checklist

This checklist is a condensed form of the TruSight RNA Pan-Cancer Panel protocol. It is easy to print and carry with you in the lab.

TruSeq Targeted RNA Expression Checklist

This checklist is a condensed form of the TruSeq Targeted RNA Expression protocol. It is easy to print and carry with you in the lab.

Cluster Station Support - User Guide Download

Instructions for using the Cluster Station for cluster generation.

TruSeq Nano DNA Library Prep for NeoPrep Checklist

This checklist is a condensed form of the TruSeq Nano DNA Library Prep for NeoPrep protocol. It is easy to print and carry with you in the lab.

TruSeq Stranded mRNA Dual Index Product Insert

Instructions for dual-indexing with TruSeq Stranded mRNA HT Sample Prep.

NovaSeq Series Custom Primers Guide

This guide provides instructions for using custom primers on the NovaSeq Sequencing System.

NovaSeq Series Site Prep Guide

The site prep guide provides lab specifications and requirements to prepare your site for the NovaSeq Series of Sequencing Systems.

TruSeq Targeted RNA Expression Protocol Guide

This guide contains just the steps needed to prepare TruSeq Targeted RNA Expression libraries. It is intended for users who are experienced with Illumina library prep methods.

TruSeq Stranded Total RNA Sample Prep HS EUC and LTF

Experienced-level instructions for preparing samples using the HS protocol for the TruSeq Stranded Total RNA Sample Prep Kit.

TruSeq Nano DNA Library Prep Checklist

This checklist is a condensed form of the TruSeq Nano DNA Library Prep protocol. It is easy to print and carry with you in the lab.

IEM TruSeq or TruSight Amplicon Quick Reference Card

Instructions for using IEM with the TruSeq Amplicon or TruSight DNA Amplicon kits.

Ribo-Zero rRNA Removal Kit Reference Guide

This guide provides instructions for using the Ribo-Zero kits to remove rRNA from samples.

TruSight Enrichment DNA Sample Prep Guide

Instructions for using the TruSight Enrichment DNA Sample Prep Kit to prepare up to 96 indexed paired-end libraries, followed by enrichment using the TruSight Content Set CSO (custom selected oligos).

TruSight HLA v2 Sequencing Panel Protocol Guide

This guide contains just the steps for the TruSight HLA v2 Sequencing Panel protocol. It is intended for users who are experienced with Illumina library prep methods.

IEM SureCell WTA 3' Quick Reference Card

Instructions for using IEM  with the SureCell WTA 3' Kit.

TruSight Tumor Sample Prep Guide

Instructions for using the TruSight Tumor Sample Prep protocol.

TruSight One Sequencing Panel Consumables and Equipment

Consumables and equipment used with the TruSight One Sequencing Panel. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

TruSeq RNA Sample Preparation Low Throughput Lab Tracking Form

Lab tracking form for the TruSeq RNA sample prep LT protocol.

MiSeq System Site Prep Guide

This guide provides requirements for preparing your lab for a MiSeq System: lab space requirements, electrical requirements, bench recommendations, UPS recommendations, and user-supplied consumables.

MiSeqDx Cystic Fibrosis Clinical Sequencing Assay Physician Insert

This document contains physician information for the MiSeqDx Cystic Fibrosis Clinical Sequencing Assay.

TruSight Tumor 15 BaseSpace App Documentation

For instructions on using the TruSight Tumor 15 BaseSpace App, see TruSight Tumor 15 v1.0.1 Online Help.

Conexio Assign v1.0 TruSight HLA Analysis Software User Guide

Instructions for using the Conexio Assign v1.0 TruSight HLA Analysis Software.

TruSight One Sequencing Panel Quick Reference Cards

These application workflow cards provide guidance for planning, running, and analyzing a TruSight One Sequencing Panel project.

TruSeq ChIP Sample Prep EUC and LTF

Experienced-level instructions for using the TruSeq ChIP Sample Prep Kit to prepare samples for sequencing.

Nextera XT DNA Sample Preparation Insert

Summary of the Nextera XT DNA sample preparation.

NextSeq 500 System Guide

This guide contains an overview of instrument components and instructions for operating and maintaining the NextSeq 500.

TruSeq Cluster Kit v2 Reagent Prep Guide

This guide provides instructions for preparing clustering, PE, and indexing reagents provided in the TruSeq Cluster Kit v2 for use on the cBot and Genome Analyzer.

NextSeq 550 System Guide

This guide contains an overview of instrument components and instructions for operating and maintaining the NextSeq 550.

TruSight Enrichment DNA Sample Prep Experienced User Card

Intended for the experienced user, this document summarizes instructions for using the TruSight Enrichment DNA Sample Prep Kit to prepare up to 96 indexed paired-end libraries, followed by enrichment using the TruSight Content Set CSO (custom selected oligos).

TruSeq Rapid Exome Library Prep Consumables and Equipment List

Consumables and equipment used with the TruSeq Rapid Exome Library Prep protocol. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

TruSeq Custom Amplicon Low Input Consumables & Equipment List

This document lists the consumables and equipment used with the TruSeq Custom Amplicon Low Input kit.

HiSeq 4000 System Guide

The system guide describes instrument components, on-instrument software, the sequencing workflow, and maintenance procedures for the HiSeq 4000.

Tumor Normal BaseSpace App Documentation

For instructions on using the Tumor Normal BaseSpace App, see Tumor Normal v4.0 Online Help.

Ultra Low mRNA-Seq Sample Prep Guide

Instructions for Ultra Low mRNA-Seq sample preparation.

TruSight Tumor 26 Consumables and Equipment

Consumables and equipment used with the TruSight Tumor 26 Kit. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window

HiSeq 2500 System Safety and Compliance Guide

The safety and compliance guide describes safety considerations and lists product compliance markings for the HiSeq 2500 system.

Human mtDNA Genome Guide (15037958)

Instructions for Human mtDNA Genome sample preparation.

TruSeq Ribo Profile (Mammalian) Reference Guide

This guide contains an overview of the TruSeq Ribo Profile (Mammalian) protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables and equipment.

HiSeq X System Lab Setup and Site Prep Guide

The lab setup and site prep guide provides important information about setting up a lab for the HiSeq X Ten and HiSeq X Five systems, including instrument dimensions, lab space requirements, electrical requirements, user-supplied consumables, and storage space.

Genomic DNA Sample Prep Guide - Oligo Only Kit (1003492)

This download contains the sample preparation guide for sequencing genomic DNA (Oligo Only Kit).

BaseSpace Sequence Hub Data Storage Management Quick Reference Card

Instructions for managing data storage in BaseSpace Sequence Hub.

TruSeq DNA PCR-Free Library Prep Checklist

This checklist is a condensed form of the TruSeq DNA PCR-Free Library Prep protocol. It is easy to print and carry with you in the lab.

MiSeq Run Folder Quick Reference Card

Quick reference overview of the MiSeq Output and Analysis Folders.

TruSight Rapid Capture Protocol Guide

This guide contains just the steps needed to prepare TruSight Rapid Capture libraries. It is intended for users who are experienced with Illumina library prep methods.

TruSeq DNA Sample Preparation Low Sample Lab Tracking Form

Lab tracking form for the TruSeq DNA sample prep LS protocol.

TruSight HLA v1 Sequencing Panel Checklist

This checklist is a condensed form of the TruSight HLA protocol. It is easy to print and carry with you in the lab.

ScriptSeq Complete (Bacteria) Library Prep Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq Complete (Bacteria) Kit.

IEM TruSeq DNA, RNA, or ChIP Quick Reference Card

Instructions for using IEM with the TruSeq DNA, RNA, or ChIP library prep kits.

MiSeqDx Instrument Reference Guide

 

This guide includes information about instrument components, MiSeq Operating Software, and instructions for performing a sequencing run and maintaining the MiSeqDx instrument. For customers that do not have a MiSeqDx instrument with dual boot upgrade. If you are not sure if your instrument has the dual boot upgrade, contact Illumina Technical Support.

 

TruSeq Exome Library Prep Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSeq Exome Library Prep protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

MiSeqDx Cystic Fibrosis Clinical Sequencing Assay Lab Tracking Form

This document summarizes the steps in the MiSeqDx Cystic Fibrosis Clinical Sequencing Assay and includes fields for recording reagent lot numbers, as well as start and stop times for various steps.

Genome Analyzer IIx User Guide (for SCS v2.10) (15030966)

This guide contains an overview of instrument components and instructions for operating and maintaining the Genome Analyzer.

Genome Analyzer IIx Site Prep Guide

This guide contains lab specifications and requirements for installing and operating the Genome Analyzer.

BaseSpace Onsite Sequence Hub Site Prep Guide

This guide contains site preparation instructions for the BaseSpace Onsite Sequence Hub System, a genomics analysis platform that is a directly integrated end-to-end solution.

DesignStudio Customer Release Notes

DesignStudio release notes describe features and changes introduced in the latest versions of DesignStudio.

Analysis Visual Controller v1.7 User Guide

Analysis Visual Controller (AVC) v1.7 User Guide

MiSeq Software Release Notes

MiSeq software release notes describe features and changes introduced in the latest versions of MiSeq Control Software (MCS) and related software components, including MiSeq Reporter.

TruSeq RNA Sample Preparation Low Throughput Experienced User Card

Experienced-level instructions for using the TruSeq RNA sample prep LT protocol.

NovaSeq 6000 Sequencing System Guide

This guide provides an overview of instrument components and instructions for operating and maintaining the NovaSeq 6000 Sequencing System.

TruSight One Sequencing Panel Sample Prep Experienced User Card

Intended for the experienced user, this document summarizes the steps for preparing samples using the TruSight One Sequencing Panel Sample Prep protocol.

Small RNA v1.5 Sample Prep Guide (15002615)

Instructions for using the Small RNA v1.5 sample prep.

MiSeqDx Instrument Package Insert for Dual Boot Configuration

For customers that have a MiSeqDx instrument with dual boot upgrade. If you are not sure if your instrument has the dual boot upgrade, contact Illumina Technical Support. This document includes information about the intended use, instructions for use, and performance characteristics of the MiSeqDx Instrument.

TruSeq Small RNA Library Prep Kit Consumables & Equipment

Consumables and equipment used with the TruSeq Small RNA Library Prep Kit. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

MiSeq Enhancements Customer Letter

This customer letter describes enhancements and components associated with the MiSeq upgrade, and how upgrades are schedule.

Local Run Manager TruSight Tumor 15 Analysis Module Workflow Guide

This guide provides instructions for setting up a run and viewing analysis results using the TruSight Tumor 15 analysis module.

ScriptSeq Complete Gold (Blood) Library Prep Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq Complete Gold (Blood) Kit.

TruSeq DNA Sample Preparation (v1) High Throughput Experienced User Card

Instructions for using TruSeq DNA sample prep HT protocol.

TruSeq Amplicon - Cancer Panel Reference Guide

Instructions for preparing samples using the TruSeq Amplicon - Cancer Panel Library Preparation Kit.

ScriptSeq Complete (Plant Leaf) Low-Input Library Prep Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq Complete (Plant Leaf) Low-Input Kit.

Nextera Rapid Capture Enrichment Sequencing Product Insert

This document outlines the sequencing workflows and requirements with the Nextera Rapid Capture Exome, Expanded Exome, and Custom Enrichment Kits.

TruSeq Amplicon BaseSpace App Documentation

For instructions on using the TruSeq Amplicon BaseSpace App, see TruSeq Amplicon 2.0 Online Help.

TruSeq SBS Kit v5 Reagent Preparation Guide (for the Genome Analyzer) (15013595)

Instructions for preparing TruSeq SBS v5 reagents for the Genome Analyzer.

ScriptSeq Complete Gold (Human/Mouse/Rat) Library Prep Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq Complete Gold (Human/Mouse/Rat) Kit.

TruSeq Amplicon - Cancer Panel Consumables & Equipment

Consumables and equipment used with the TruSeq Amplicon - Cancer Panel Kit. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

VariantStudio Release Notes

Summary of changes introduced in VariantStudio software.

HiSeq System Custom Primers Guide

This guide contains instructions for using custom primers for a sequencing run on the HiSeq 2500, HiSeq 1500, or HiSeq 2000 system.

BlueFuse Multi Software Guide

Instructions for using BlueFuse Multi Software, with chapters about Getting Started, the CytoChip Module, and the Karyomapping Module.

HiSeq 1000 System User Guide (15023355)

Instructions for using the HiSeq 1000 system for sequencing.

Local Run Manager Generate FASTQ Analysis Module Workflow Guide

This guide provides instructions for setting up a run and viewing analysis results using the Generate FASTQ analysis module.

Read 1 Primer Rehyb on a TruSeq v3 or TruSeq v2 Flow Cell

Instructions for performing Read 1 primer rehybridization on a TruSeq v3 (HiSeq) or TruSeq v2 (GAIIx) flow cell using the TruSeq v2 cBot Multi-Primer Re-Hybridization Kit.

TruSeq Amplicon - Cancer Panel Library Preparation Experienced User Card

Experienced-level instructions for preparing samples using the TruSeq Amplicon - Cancer Panel Library Preparation Kit.

TruSeq Library Prep Pooling Guide

Guidelines for pooling TruSeq libraries for Illumina sequencing systems that require balanced index combinations.

BlueFuse Multi Installation Guide

This guide describes how to install BlueFuse Multi for the first time or to upgrade BlueFuse Multi from an earlier release.

Local Run Manager Small RNA Analysis Module Workflow Guide

This guide provides instructions for setting up a run and viewing analysis results using the Small RNA analysis module.

IEM TruSight Tumor 15 Quick Reference Card

Instructions for using IEM with the TruSight Tumor 15 Kit.

Nextera XT Sample Preparation Lab Tracking Form

Interactive form for recording sample preparation steps using the Nextera XT sample prep Kit.

MiSeqDx Universal Kit 1.0 Reference Guide

This guide contains best practices and instructions for preparing libraries using the MiSeqDx Universal Kit 1.0.

MiSeq System Guide

This guide includes information about instrument components, MiSeq Control Software (MCS), and required consumables, and instructions for performing a sequencing run and maintaining the instrument.

RNA Express BaseSpace App Documentation

For instructions on using the RNA Express BaseSpace App, see RNA Express v1.0 Online Help.

TruSight Tumor 15 Protocol Guide

This guide contains just the steps for the TruSight Tumor 15 protocol. It is intended for users who are experienced with Illumina library prep methods.

Preparing Samples for ChIP Sequencing of DNA

Instructions for preparing samples using the ChIP-Seq sample prep Kit.

TruSight Tumor 26 Checklist

This checklist is a condensed form of the TruSight Tumor 26 protocol. It is easy to print and carry with you in the lab.

TruSeq DNA Dual Index Product Insert

Summary of instructions for using the TruSeq DNA Dual Index.

BWA Enrichment BaseSpace App Documentation

For instructions on using the BWA Enrichment BaseSpace App, see the BWA Enrichment v2.1 Online Help.

TruSight Myeloid Sequencing Panel Protocol Guide

This guide contains just the steps needed to prepare TruSight Myeloid libraries. It is intended for users who are experienced with Illumina library prep methods.

TruSeq Stranded mRNA Sample Prep Guide

Instructions for using the TruSeq Stranded mRNA sample prep protocol.

TruSeq Exome Library Prep Protocol Guide

This guide contains just the steps for the TruSeq Exome Library Prep protocol. It is intended for users who are experienced with Illumina library prep methods.

TruSeq DNA PCR-Free Library Prep Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSeq DNA PCR-Free Library Prep protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

MiSeq Reagent Kit v3-PGS Reagent Preparation Guide

The MiSeq Reagent Kit v3-PGS Reagent Preparation Guide provides an overview of kit contents and instructions for preparing the reagent cartridge for a sequencing run on the MiSeq for the VeriSeq PGS workflow.

Illumina FFPE QC Kit for TruSeq Amplicon - Cancer Panel and TruSeq Custom Amplicon v1.5

Instructions for using the FFPE QC kit with the TruSeq Amplicon - Cancer Panel Kit or the TruSeq Custom Amplicon Kit.

Nextera Rapid Capture Enrichment Consumables & Equipment List

This document lists the consumables and equipment used with the Nextera Rapid Capture Enrichment Kit.

ForenSeq DNA Signature Prep Checklist

This checklist is a condensed form of the ForenSeq DNA Signature Prep protocol. It is easy to print and carry with you in the lab.

NeoPrep Library Prep System Guide

This guide contains an overview of instrument components and instructions for operating and maintaining the NeoPrep Library Prep System.

MiniSeq System Site Prep Guide

This guide contains lab specifications and requirements for preparing the lab for the MiniSeq System.

MiniSeq System Denature and Dilute Libraries Guide

This guide contains instructions for denaturing and diluting libraries before sequencing on the MiniSeq System, and instructions for preparing a PhiX control.

TruSight HLA v2 Sequencing Panel Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSight HLA v2 Sequencing Panel protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

IEM Nextera Quick Reference Card

Instructions for using IEM with the Nextera library prep kits.

Custom Protocol Selector

The Custom Protocol Selector enables you to generate your own customized documentation, specifically tailored to your experiment on the NovaSeq 6000, MiniSeq, MiSeq, NextSeq, HiSeq 2000, HiSeq 2500, HiSeq 3000, HiSeq 4000, or HiSeq X systems. You select the products and workflow options, then the Custom Protocol Selector generates a PDF with only the instructions that you need.

Cluster Station Support - Decontamination Procedure Download

This download contains instructions on how to prepare a Cluster Station for shipping.

BaseSpace Onsite Sequence Hub Release Notes

Release Notes for BaseSpace Onsite

TruSeq Synthetic Long-Read DNA Library Prep Guide

Instructions for preparing libraries using the TruSeq Synthetic Long-Read DNA Library Prep and TruSeq Synthetic Long-Read DNA Barcode kits.

TruSeq Nano DNA Library Prep User-Supplied Consumables and Equipment

Consumables and equipment excerpt from the TruSeq Nano DNA Library Prep Reference Guide.

ScriptSeq Complete Gold (Yeast) Library Prep Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq Complete Gold (Yeast) Kit.

MiSeqDx Cystic Fibrosis Clinical Sequencing Assay Package Insert

This document includes information about the intended use, instructions for use, and performance characteristics of the MiSeqDx Cystic Fibrosis Clinical Sequencing Assay.

Nextera DNA Library Prep Checklist

This checklist is a condensed form of the Nextera DNA library prep protocol. It is easy to print and carry with you in the lab.

Small RNA Sample Prep Guide (1004239)

Instructions for performing the Small RNA sample prep assay.

MiSeq FGx Forensic Genomics System Software Release Notes

 

MiSeq FGx Forensic Genomics System software release notes describe features and changes introduced in the latest versions of MiSeq FGx Control Software and related software components, including ForenSeq Universal Analysis Software.

 

16S Metagenomics BaseSpace App Documentation

For instructions on using the 16S Metagenomics BaseSpace App, see 16S Metagenomics v1.0 Online Help.

cBot 2 System Safety and Compliance Guide

The safety and compliance guide contains safety considerations and product compliance markings for the cBot 2 system.

HiSeq 2500 System Guide

This guide provides an overview of instrument components and instructions for operating and maintaining the HiSeq 2500. Workflows include HiSeq v4, TruSeq v3, and Rapid Run.

CASAVA v1.8 Changes

Summary of changes introduced in CASAVA v1.8.

MiSeq FGx Reagent Kit Reference Guide

 

Reagent prep guide contain an overview of kit contents and instructions for preparing the reagent cartridge for a sequencing run on the MiSeq FGx.

 

Sequencing Analysis Viewer Software Guide

This guide includes instructions for installing and using Sequencing Analysis Viewer (SAV) software to view metrics generated by the real-time analysis software on Illumina sequencing systems.

TruSeq Ribo Profile Bioinformatics User Guide

This guide provides information about the TruSeq Ribo Profile analysis pipeline.

ForenSeq DNA Signature Prep Reference Guide

This guide contains everything a first-time user needs, including an overview of the ForenSeq DNA Signature Prep protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

TruSight Myeloid Sequencing Panel Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSight Myeloid Sequencing Panel protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

MiSeqDx Universal Kit 1.0 Lab Tracking Form

This document summarizes the steps in the MiSeqDx Universal Kit 1.0 and includes fields for recording reagent lot numbers, as well as start and stop times for various steps.

HiSeq 1500 and HiSeq 2000 Systems Safety and Compliance Guide

The safety and compliance guide describes safety considerations and lists product compliance markings for the HiSeq 1500 and HiSeq 2500 systems.

TruSeq Custom Amplicon Low Input Library Prep Checklist

This checklist is a condensed form of the TruSeq Custom Amplicon Low Input library prep protocol. It is easy to print and carry with you in the lab.

IEM NeoPrep Quick Reference Card

Instructions for using IEM with the NeoPrep Library Prep System.

MiSeqDx Instrument Safety and Compliance Guide

This guide contains safety information and product compliance markings for the MiSeqDx instrument.

TruSight HLA v1 Sequencing Panel Protocol Guide

This guide contains just the steps needed to prepare TruSight HLA libraries. It is intended for users who are experienced with Illumina library prep methods.

Nextera XT DNA Library Prep Kit Checklist

This checklist is a condensed form of the Nextera XT DNA protocol. It is easy to print and carry with you in the lab.

HiSeq v4 System Upgrade Welcome Letter

This letter was sent to customers about their HiSeq v4 system upgrade.

TruSeq Small RNA Library Prep Kit Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSeq Small RNA protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

MiSeqDx Cystic Fibrosis 139-Variant Assay Lab Tracking Form

This document summarizes the steps in the MiSeqDx Cystic Fibrosis 139-Variant Assay and includes fields for recording reagent lot numbers, as well as start and stop times for various steps.

cBot Safety and Compliance Guide

The safety and compliance booklet contains safety considerations and product compliance markings for the cBot system.

ScriptSeq v2 RNA-Seq Library Prep Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq v2 RNA-Seq Library Prep Kit.

FastTrack Phasing Analysis Services Guide

This document provides an overview of the FastTrack Phasing Informatics Pipeline 1.1.0. deliverables and phasing algorithm. FastTrack Phasing Informatics Pipeline uses Prism v2.2, the same algorithm used in the TruSeq Phasing Analysis BaseSpace App. The purpose of this document is to help you understand the Phasing Analysis Service data package you receive from Illumina.

TruSeq Custom Amplicon Library Preparation Experienced User Card and Lab Tracking Form

Experienced user level instructions for preparing samples using the TruSeq Custom Amplicon Library Preparation Kit.

TruSeq Synthetic Long-Read DNA Library Prep Experienced User Card and Lab Tracking Form

Experienced-level instructions for preparing libraries using the TruSeq Synthetic Long-Read DNA Library Prep and TruSeq Synthetic Long-Read DNA Barcode kits.

TruSight Rapid Capture Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSight Rapid Capture protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

TruSeq Nano DNA Library Prep for NeoPrep Consumables and Equipment

Consumables and equipment used with TruSeq Nano DNA Library Prep Kit for NeoPrep. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

TruSight RNA Pan-Cancer Panel Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSight RNA Pan-Cancer Panel protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

MiSeq Reporter Analysis Workflow Reference Guides

Each workflow reference guide contains an overview of the analysis workflow and descriptions of analysis output files. For information about the MiSeq Reporter interface and instructions for instructions for installing, using, and troubleshooting the software, see the MiSeq Reporter User Guide.

Local Run Manager Resequencing Analysis Module Workflow Guide

This guide provides instructions for setting up a run and viewing analysis results using the Resequencing analysis module.

TruSeq Custom Amplicon v1.5 Checklist

This checklist is a condensed form of the TruSeq Custom Amplicon v1.5 protocol. It is easy to print and carry with you in the lab.

HiScanSQ System User Guide (15015392)

Instructions for using the HiScanSQ.

Multiplexing Sample Prep Guide (1005361)

Instructions for performing the Multiplexing sample prep assay.

TruSeq RNA Sample Prep v2 Guide

Instructions for preparing samples using the TruSeq RNA Sample Preparation Kit v2.

TruSeq Stranded Total RNA Sample Preparation LS EUC and LTF

Experienced-level instructions for preparing samples using the LS protocol for the TruSeq Stranded Total RNA Sample Prep Kit.

RFID Reader Compliance Guide

This guide provides compliance information for the RFID reader module, an internal component of the NovaSeq Sequencing System and the MiniSeq System.

HiSeq Analysis Software User Guide

HiSeq Analysis Software User Guide

TruSight RNA Pan-Cancer Panel Protocol Guide

This guide contains just the steps for the TruSight RNA Pan-Cancer Panel protocol. It is intended for users who are experienced with Illumina library prep methods.

ForenSeq Universal Analysis Software Guide

This guide provides an overview of the ForenSeq Universal Analysis Software interface and instructions for use. 

TruSight Myeloid Sequencing Panel Consumables & Equipment

Consumables and equipment used with the TruSight Myeloid Sequencing Panel. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

BaseSpace Variant Interpreter Beta Release Notes

Summary of changes introduced in BaseSpace Variant Interpreter Beta software.

Nextera Rapid Capture Enrichment Reference Guide

This guide contains everything a first-time user needs, including an overview of the Nextera Rapid Capture Enrichment protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

TruSeq DNA PCR-Free Library Prep User-Supplied Consumables and Equipment

 

Consumables and equipment excerpt from the TruSeq DNA PCR-Free Library Prep Reference Guide.

 

TruSight One Sequencing Panel Protocol Guide

This guide contains just the steps for the TruSight One protocol. It is intended for users who are experienced with Illumina library prep methods.

Local Run Manager RNA Fusion Analysis Module Workflow Guide

This guide provides instructions for setting up a run and viewing analysis results using the RNA Fusion analysis module.

TruSeq Cluster Kit v5 (CS-GA) Reagent Prep Guide

This guide contains descriptions of kit components and reagent preparation instructions for the Cluster Station.

HiSeq Analysis Software v2.1 User Guide

This guide includes instructions for performing sequencing analysis using the HiSeq Analysis Software v2.1.

TruSeq Rapid Exome Library Prep Checklist

This checklist is a condensed form of the TruSeq Rapid Exome Library Prep protocol. It is easy to print and carry with you in the lab.

TruSeq HT Dual Index Quick Reference Card

This document outlines dual index sequencing workflows and requirements for the TruSeq Nano DNA HT Sample Prep Kit.

TruSeq Nano DNA Library Prep for NeoPrep Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSeq Nano DNA Library Prep for NeoPrep protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

BaseSpace Onsite LT Sequence Hub System

This guide contains instructions for using the BaseSpace Onsite LT Sequence Hub System, a genomics analysis platform that is a directly integrated end-to-end solution for the MiSeq and MiniSeq System.

TruSeq Sample Prep Best Practices Guide

Overview of the best practices for the TruSeq sample prep protocol.

MiSeq System Denature and Dilute Libraries Guide

This guide provides instructions for denaturing and diluting libraries after llibrary preparation and before sequencing on the MiSeq. This guide also includes instructions for preparing a PhiX control.

TruSight HLA v2 Sequencing Panel Consumables and Equipment List

Consumables and equipment used with the TruSight HLA v2 Sequencing Panel. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

HiSeq X System Safety and Compliance Guide

The safety and compliance guide describes safety considerations and lists product compliance markings for the HiSeq X system.

cBot System Guide

This guide contains instructions for using the cBot system for cluster generation on HiSeq X, HiSeq, and Genome Analyzer flow cells.

TruSeq Rapid Exome Library Prep Protocol Guide

This guide contains just the steps for the Truseq Rapid Exome Library Prep protocol. It is intended for users who are experienced with Illumina library prep methods.

IEM TruSeq Small RNA Quick Reference Card

Instructions for using IEM with the TruSeq Small RNA Sample Prep Kit.

TruSight Rapid Capture Consumables & Equipment

Consumables and equipment used with the TruSight Rapid Capture kit. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

Preparing Samples for Analysis of Small RNA Using the Oligo Only Kit (1003651)

Instructions for preparing samples using the Small RNA Oligo Only Kit.

TruSeq ChIP Sample Prep Guide

Instructions for using the TruSeq ChIP Sample Prep Kit to prepare samples for sequencing.

mtDNA Variant Analyzer BaseSpace App Documentation

For instructions on using the mtDNA Variant Analyzer BaseSpace App, see mtDNA Variant Analyzer v1.0 Online Help.

Cufflinks Assembly & DE BaseSpace App Documentation

For instructions on using the Cufflinks Assembly & DE BaseSpace App, see Cufflinks Assembly & DE v1.0 Online Help.

TruSeq Stranded mRNA Library Prep for NeoPrep Protocol Guide

This guide contains just the steps needed to prepare TruSeq Stranded mRNA-NeoPrep libraries. It is intended for users who are experienced with NeoPrep library prep methods.

TruSeq DNA Sample Preparation (v1) Low Throughput Lab Tracking Form

Lab tracking form for the TruSeq DNA sample prep protocol.

HiSeq X System Guide

The system user guide describes instrument components, on-instrument software, the sequencing workflow, and maintenance procedures.

Small RNA BaseSpace App Documentation

For instructions on using the Small RNA BaseSpace App, see Small RNA v1.0 App Online Help.

Nextera DNA Library Prep Consumables and Equipment

Consumables and equipment used with the Nextera DNA kit. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window

ScriptSeq Complete (Plant Leaf) Library Prep Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq Complete (Plant Leaf) Kit.

TruSeq Nano DNA Library Prep for NeoPrep Protocol Guide

This guide contains just the steps needed to prepare TruSeq Nano DNA-NeoPrep libraries. It is intended for users who are experienced with NeoPrep library prep methods.

Nextera DNA Sample Preparation Product Insert

This download contains the product insert listing the necessary sample preparation kits, software, and documentation for Nextera DNA Sample Preparation as well as pooling guidelines and requirements for enabling dual indexing.

BaseSpace Sequence Hub Online Help

For instructions on using BaseSpace Sequence Hub, visit BaseSpace Sequence Hub Online Help.

Sequencing TruSight HLA v2 Libraries on a MiniSeq System Quick Reference Guide

This quick reference guide contains the procedure for sequencing TruSight HLA v2 libraries on a MiniSeq System.

TruSeq DNA PCR-Free Library Prep Protocol Guide

This guide contains just the steps needed to prepare TruSeq DNA PCR-Free libraries. It is intended for users who are experienced with Illumina library prep methods.

Paired-End Sample Preparation User-Supplied Consumables and Equipment

Consumables and equipment excerpt from the Paired-End Sample Preparation Guide.

BaseSpace Onsite Sequence Hub Software Upgrade Guide

This document explains how to update your BaseSpace Onsite Sequence Hub Software through the Admin Panel Updates page.

For a BaseSpace Onsite Sequence Hub v2.1 upgrade kit, contact techsupport@illumina.com.

HiSeq 2000 System Guide

This guide provides an overview of instrument components and instructions for operating and maintaining the HiSeq 2000.

Sequencing Library qPCR Quantification Guide

This download contains the protocol guide for SBS library qPCR quantification.

TruSeq RNA Access Library Prep User-Supplied Consumables and Equipment

Consumables and equipment excerpt from the TruSeq RNA Access Library Prep Guide, 15049525 A

MiSeq Reagent Kit Reagent Preparation Guide

MiSeq Reagent Kit Reagent Prep Guides provide an overview of kit contents and instructions for preparing the reagent cartridge for a sequencing run on the MiSeq.

TruSeq Long-Reads Assembly BaseSpace App Documentation

For instructions on using the TruSeq Long-Reads Assembly BaseSpace App, see TruSeq Long-Reads Assembly v1.1 Online Help.

TruSeq Stranded mRNA Sample Prep LS EUC and LTF

Experienced-level instructions for preparing samples using the LS protocol for the TruSeq Stranded mRNA Sample Prep Kit.

MiSeqDx Cystic Fibrosis 139-Variant Assay Package Insert

This document includes information about the intended use, instructions for use, and performance characteristics of the MiSeqDx Cystic Fibrosis 139-Variant Assay.

Nextera DNA Library Prep Protocol Guide

This guide contains just the steps for the Nextera DNA library prep protocol. It is intended for users who are experienced with Illumina library prep methods.

MiSeq Reporter Software Reference Guide

This guide describes the MiSeq Reporter user interface, defines concepts and terms, and explains the folders, files, and data generated from the Amplicon workflow used to analyze MiSeqDx Cystic Fibrosis Assays and Universal Kit 1.0.

Sequencing Dual-Indexed Libraries on the HiSeq

This guide contains instructions for sequencing dual-indexed libraries on the HiSeq.

MiSeq FGx Instrument Site Prep Guide

 

This guide provides requirements for preparing your lab for a MiSeq FGx Forensic Genomics System: lab space requirements, electrical requirements, bench recommendations, UPS recommendations, and user-supplied consumables.

 

Illumina Experiment Manager User Guide

Instructions for using the Illumina Experiment Manager.

TopHat and Cufflinks RNA-Seq BaseSpace App Documentation

For instructions on using the TopHat and Cufflinks RNA-Seq BaseSpace App, see TopHat Alignment and Cufflinks v1.0 Online Help

VariantStudio User Guide

This guide provides an overview of the Illumina VariantStudio desktop application and instructions for importing, annotating, and filtering variants.

TruSight HLA v2 Sequencing Panel Checklist

This checklist is a condensed form of the TruSight HLA v2 Sequencing Panel protocol. It is easy to print and carry with you in the lab.

HiScanSQ System Sequencing Best Practices (15029252)

Best practices poster for the HiScanSQ system.

MiSeqDx Universal Kit 1.0 Package Insert

This document includes information about the intended use, instructions for use, and performance characteristics of the MiSeqDx Universal Kit.

User-supplied consumables and equipment excerpt from the TruSeq RNA Sample Preparation v2 Guide.

Consumables and equipment excerpt from the TruSeq RNA Sample Preparation v2 Guide.

ScriptSeq Complete Gold (Epidemiology) Low-Input Library Prep Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq Complete Gold (Epidemiology) Low-Input Kit.

TruSeq Small RNA Library Prep Kit Checklist

This checklist is a condensed form of the TruSeq Small RNA protocol. It is easy to print and carry with you in the lab.

Genome Analyzer IIx (SCS v2.10) Quick Reference Guide (15030967)

This guide contains instructions for the experienced user for sequencing on the Genome Analyzer.

Preparing Samples for Sequencing Genomic DNA (1003806)

Instructions for preparing samples using the Genomic DNA kit.

TruSeq Amplicon - Cancer Panel Resources (15033227)

Links to documentation, accessories, and product files for the TruSeq Amplicon - Cancel Panel.

Sequencing Kit v4 Reagent Preparation Guide (15002739)

Instructions for using the Reagent Preparation for the Genome Analyzer - Sequencing Kit v4

CASAVA 1.8.2 Quick Reference Guide (15011197)

Reference Guide for CASAVA v1.8.2 software.

BaseSpace Onsite HT Sequence Hub System

This guide contains instructions for using the BaseSpace Onsite HT Sequence Hub System, a genomics analysis platform that is a directly integrated end-to-end solution for the MiSeq, NextSeq 500, NextSeq 550, NeoPrep, HiSeq 1000, HiSeq 1500. HiSeq 2000, HiSeq 2500, HiSeq 3000, HiSeq 4000 Systems.

mtDNA Variant Processor BaseSpace App Documentation

For instructions on using the mtDNA Variant Processor BaseSpace App, see mtDNA Variant Processor v1.0 Online Help.

MiSeq Reporter Software Guide (15042295)

This guide provides an overview of the MiSeq Reporter interface and instructions for using the MiSeq Reporter. For information about analysis workflows, see the MiSeq Reporter Workflow Reference Guides.

Globin-Zero Gold rRNA Removal Kit Reference Guide

This guide provides instructions for removing rRNA and globin mRNA from samples.

TruSeq DNA Methylation Kit Reference Guide

This guide provides instructions for preparing libraries using the TruSeq DNA Methylation Kit.

ScriptSeq Index PCR Primers Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq Index PCR Primers Kit.

Nextera DNA Library Prep Reference Guide

This guide contains everything a first-time user needs, including an overview of the Nextera DNA library prep protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

Using the Paired-End Cluster Generation Kit v2 on the Cluster Station and Paired-End Module (1005629)

Instructions for using the Paired-End Cluster Generation Kit v2 on the Cluster Station and Paired-End Module.

TruSeq DNA Sample Preparation (v1) Low Throughput Experienced User Card

Instructions for using the TruSeq DNA sample prep LT protocol.

TruSeq Stranded mRNA Sample Preparation User-Supplied Consumables and Equipment

Consumables and equipment excerpt from the TruSeq Stranded mRNA Sample Preparation Guide.

MiSeqDx Library Prep Check Kit Quick Reference Card

This document includes information regarding the use of the MiSeqDx Library Prep Check Kit.

TruSight Cardio Sequencing Kit Protocol Guide

This guide contains just the steps needed to prepare TruSight Cardio libraries. It is intended for users who are experienced with Illumina library prep methods.

TruSight Cardio Sequencing Kit Checklist

This checklist is a condensed form of the TruSight Cardio Sequencing Kit protocol. It is easy to print and carry with you in the lab.

NeoPrep System Safety and Compliance Guide

This safety and compliance guide contains safety considerations and product compliance markings for the NeoPrep Library Prep System.

TruSeq RNA Sample Preparation High Throughput Experienced User Card

Instructions for using the TruSeq RNA sample prep HT protocol.

TruSeq Nano DNA Library Prep Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSeq Nano DNA Library Prep protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

HiSeq X Software v3.1.26 Release Notes

This document describes the changes and features introduced in HiSeq X software package v3.1.26, which includes HiSeq X Control Software v3.1.26 and updates to RTA, recipes, the BaseSpace Broker, and Sequencing Analysis Viewer software.

HiSeq 2500, 1500, and 2000 Systems Site Prep Guide

This guide provides lab specifications and requirements for preparing the lab for sequencing on the HiSeq 2500, HiSeq 1500, or HiSeq 2000 system.

VeriSeq NIPT Workflow Manager Guide

Instructions for using Workflow Manager software

Local Run Manager Amplicon Analysis Module Workflow Guide

This guide provides instructions for setting up a run and viewing analysis results using the Amplicon analysis module.

Amplicon DS BaseSpace App Documentation

For instructions on using the Amplicon DS BaseSpace App, see Amplicon DS v1.2 Online Help.

Frequently Asked Questions (FAQs) for the Master Lot Sheet (MLS)

Frequently Asked Questions (FAQs) for the Master Lot Sheet (MLS)

TruSeq ChIP Sample Preparation User-Supplied Consumables and Equipment

Consumables and equipment excerpt from the TruSeq ChIP Sample Preparation Guide.

TruSeq Amplicon - Cancer Panel Checklist

This checklist is a condensed form of the TruSeq Amplicon - Cancer Panel protocol. It is easy to print and carry with you in the lab.

Nextera Rapid Capture Enrichment Checklist

This checklist is a condensed form of the Nextera Rapid Capture Enrichment protocol. It is easy to print and carry with you in the lab.

TruSeq Stranded Total RNA Dual Index Product Insert

Instructions for dual-indexing with TruSeq Stranded Total RNA HT Sample Prep.

TruSeq Phasing BaseSpace App Documentation

For instructions on using the TruSeq Phasing BaseSpace App, see TruSeq Phasing v1.1 Online Help.

MiniSeq System Custom Primers Guide

This guide contains instructions for using custom primers on the MiniSeq system.

NeoPrep System Site Prep Guide

This guide contains lab specifications and requirements for operating the NeoPrep Library Prep System.

CASAVA Software Version 1.8 User Guide (15011196 B)

This download contains the user guide for the CASAVA v1.8 sequencing analysis software.

ForenSeq DNA Signature Prep Consumables and Equipment List

Consumables and equipment used with the ForenSeq DNA Signature Prep Kit. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

Indexed Sequencing Overview Guide

This guide provides an overview of the indexed sequencing process for single-indexing and dual-indexing workflows on the NovaSeq, MiniSeq, NextSeq, MiSeq, and HiSeq sequencing systems.

TruSeq DNA Sample Preparation Guide

Instructions for preparing samples using the TruSeq DNA Sample Prep Kit.

MiSeq System Custom Primers Guide

This guide provides instructions for using custom primers for sequencing on the MiSeq.

MiniSeq System Safety and Compliance Guide

The safety and compliance guide contains safety considerations and product compliance markings for the MiniSeq System.

IEM TruSeq Targeted RNA Expression Quick Reference Card

Instructions for using IEM with the TruSeq Targeted RNA Expression kits.

Local Run Manager DNA Enrichment Analysis Module Workflow Guide

This guide provides instructions for setting up a run and viewing analysis results using the DNA Enrichment analysis module.

NextSeq System Denature and Dilute Libraries Guide

This guide contains instructions for denaturing and diluting libraries after library preparation and before sequencing on the NextSeq System. This guide also includes instructions for preparing a PhiX control.

HiSeq 4000 and HiSeq 3000 Systems Site Prep Guide

The site prep guide contains lab specifications and requirements for preparing the lab for sequencing on the HiSeq 4000 or HiSeq 3000 system.

TruSight Tumor 15 Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSight Tumor 15 protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

ScriptSeq Complete (Human/Mouse/Rat) Library Prep Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq Complete (Human/Mouse/Rat) Kit.

MiSeqDx Instrument Package Insert

This document includes information about the intended use, instructions for use, and performance characteristics of the MiSeqDx Instrument. For customers that do not have a MiSeqDx instrument with dual boot upgrade. If you are not sure if your instrument has the dual boot upgrade, contact Illumina Technical Support.

TruSeq Custom Amplicon v1.5 Protocol Guide

This guide contains just the steps needed to prepare TruSeq Custom Amplicon v1.5 libraries. It is intended for users who are experienced with Illumina library prep methods.

BlueFuse Multi Release Notes

Describes new features and updates to the BlueFuse Multi v 4.4 Software.

TruSeq RNA Access Library Prep Experienced User Card and Lab Tracking Form

Experienced-level instructions for preparing libraries using the TruSeq RNA Access Library Prep Kit.

TruSeq DNA Sample Preparation (v1) Guide

Instructions for using the TruSeq DNA sample prep (v1) protocol.

MiSeqDx Cystic Fibrosis 139-Variant Assay Reference Guide

This guide contains best practices and instructions for preparing libraries using the MiSeqDx Cystic Fibrosis 139-Variant Assay.

ScriptSeq Complete (Plant Seed/Root) Low-Input Library Prep Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq Complete (Plant Seed/Root) Low-Input Kit.

MiSeq Reporter Amplicon DS Workflow Reference Guide

 

This guide provides an overview of the MiSeq Reporter Amplicon DS analysis workflow, including installation instructions, workflow requirements, and descriptions of analysis output files.

 

TruSight Cardio Sequencing Kit Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSight Cardio Sequencing Kit protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

IEM TruSeq Synthetic Long-Read DNA Quick Reference Card

Instructions for using IEM with the TruSeq Synthetic Long-Read DNA Library Prep and TruSeq Synthetic Long-Read DNA Barcode kits.

HiSeq v4 System Upgrade Information Sheet

This document describes key upgrade features, upgrade components, software upgrade features, and new chemistry features for the v4 upgrade.

TruSeq Exome Library Prep Consumables and Equipment List

Consumables and equipment used with the TruSeq Exome Library Prep Kit. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

BlueFuse Workflow Manager Quick Reference Card

Instructions for using the BlueFuse Workflow Manager to create VeriSeq PGS worklists and sample sheets.

MiSeq System Safety and Compliance Guide

This guide contains safety information and product compliance markings for the MiSeq System.

TruSight Tumor 26 Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSight Tumor 26 protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

TruSeq Custom Amplicon v1.5 Consumables & Equipment

Consumables and equipment used with the TruSeq Custom Amplicon Kit. Download this form to a preferred location before using it. The interactivity in this form is not designed for use in a browser window.

TruSeq Stranded mRNA Library Prep for NeoPrep Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSeq Stranded mRNA Library Prep for NeoPrep protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

IEM TruSight HLA Quick Reference Card

Instructions for using IEM with the TruSight HLA Sequencing Panel.

TruSight One Sequencing Panel Reference Guide

This guide contains everything a first-time user needs, including an overview of the TruSight One Sequencing Panel protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

TruSeq Ribo Profile (Yeast) Reference Guide

This guide contains an overview of the TruSeq Ribo Profile (Yeast) protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables and equipment.

ScriptSeq Complete (Bacteria) Low-Input Library Prep Guide

This guide provides instructions for preparing sequencing libraries using the ScriptSeq Complete (Bacteria) Low-Input Kit.

Nextera Enrichment Sample Preparation Experienced User Card

Experienced-level instructions for preparing samples using the Nextera Enrichment Kit.

Nextera XT DNA Library Prep Kit Reference Guide

This guide contains everything a first-time user needs, including an overview of the Nextera XT DNA protocol, tips and techniques, protocol steps, kit contents, and user-supplied consumables.

cBot 2 System Guide

This guide contains instructions for using the cBot 2 system for cluster generation with or without positive sample tracking on a HiSeq X, HiSeq, or Genome Analyzer flow cell.

Whole-Genome Bisulfite Sequencing for Methylation Analysis Guide (15021861)

Instructions for WGBS for Methylation Analysis.

TruSeq RNA Access Library Prep Guide

Instructions for preparing libraries using the TruSeq RNA Access Library Prep Kit.

BaseSpace Sequence Hub Core Apps Release Notes

View the BaseSpace Squence Hub Core Apps software release notes for new features and changes introduced in the latest versions.

IEM TruSight RNA Pan-Cancer and RNA Fusion Quick Reference Card

Instructions for using IEM with the TruSight RNA Pan-Cancer and TruSight RNA Fusion Panels.

Using a PhiX Control for TruSight HLA v2 Sequencing Runs Quick Reference Guide

This quick reference guide contains the procedure for using a PhiX control for TruSight HLA v2 sequencing runs.

Genome Analyzer PE Lab Tracking Form (15014599)

This download contains the interactive lab tracking form for the Genome Analyzer.