Overview
BaseSpace Sequence Hub (BSSH) is a genomics cloud computing software that provides researchers with streamlined run management and intuitive analysis apps in a user-friendly format. BSSH helps growing and established labs scale next-generation sequencing (NGS) operations by offering:
Key features
Simplified run planning and analysis configuration with reduced manual touch points
Out-of-the-box analysis apps for diverse research needs
Expandable storage for changing laboratory needs
Efficient conversion of sequencing data to a standard format and direct streaming to the cloud
Immediate data sharing and collaboration with peers
Integration with all Illumina sequencing systems enables one-stop run planning, analysis configuration, and real-time run monitoring from anywhere.
Scale up or down depending on your storage needs—without hardware maintenance or IT support. Archive data for long-term data retention and optimized savings.
Enhance productivity with a curated menu of over 90 point-and-click genomic analysis apps, including DRAGEN, Illumina, and third-party apps.
See all BaseSpace apps
Applications
BaseSpace Sequence Hub offers easy-to-use analysis apps that cover an extensive range of analysis methods used with Illumina NGS data, from RNA-Seq to exome/enrichment, amplicon, whole-genome sequencing, de novo assembly, 16S metagenomics, and more.
Software product portfolio
Clarity LIMS
Efficient sample tracking and workflow management for genomics labs.
BaseSpace Sequence Hub
Streamlined cloud-based run setup and monitoring.
Local Run Manager
This software provides a user-friendly integrated solution for creating sequencing runs, monitoring run status, and analyzing data.
DRAGEN secondary analysis
Accurate, comprehensive, and efficient analysis of NGS data.
DRAGEN Array
Accurate, comprehensive and efficient secondary analysis for Infinium microarray-based assays.
Illumina Connected Analytics
A secure, scalable bioinformatics platform for seamless sequencer integration and flexible workflows.
BaseSpace Apps
BaseSpace Sequence Hub offers a wide variety of NGS data analysis apps for common Illumina sequencing methods.
Emedgene
Emedgene streamlines tertiary analysis workflows for rare disease genomics and other germline research applications.
Correlation Engine
An interactive omics knowledge base and data search engine that puts private data into biological context with highly curated public omics data.
Related applications and methods
Informatics infrastructure and pipeline set up
We offer a variety of resources and information to help simplify the process of setting up your informatics infrastructure and data analysis pipeline.
Sequencing data analysis
Our sequencing data analysis software helps you spend more time doing research, and less time configuring and running analysis workflows.
Genomic data storage and security
Store, process, and share large genomic and NGS datasets in the cloud with built-in speed and scalability.
Plans and pricing
BaseSpace Sequence Hub requires purchase of an annual license and sufficient iCredits to meet data storage and analysis needs based on throughput.
Subscription options
Feature: Basic
Included storage: 1 TB
Complimentary credits: 250* iCredits
Payment plans: N/A
Run setup and monitoring: checkmark
FASTQ generation: Free
Data egress: Free
Data sharing: checkmark
Advanced security and compliance (encryption, ISO 27001 and ISO 27701 certified, ISO 13485 compliant): checkmark
API and command-line access: checkmark
Number of users: One
Workgroups: One
Premier security (private Domain, single sign-on**, audit trail, access control): checkmark
HIPAA business associate agreement (BAA) support (US only): checkmark
Service level agreement: checkmark
* 250 iCredits expire after 30-day introductory trial. ** Available for systems with control software that support Universal Copy Service. Not available for all legacy systems.
How much does it cost to process one sample in BaseSpace Sequence Hub?
Application: Cost
Human whole-genome sequencing: 7 iCredits
Sample : 30× hWGS
Size : 120 Gb
App : DRAGEN Germline
Output : VCF, BAM/CRAM
Exome sequencing: 2 iCredits
Sample : Exome
Size : 100 Gb
Input : FASTQ
Cancer panel: 2 iCredits
Sample : Myeloid panel
Size : 50 Mb
App : DNA Amplicon
Output : Somatic variants
Transcriptome: 2 iCredits
Sample : RNA-Seq
Size : 50M Reads
App : DRAGEN RNA
Output : Fusions, Transcripts
Differential expression: 1 iCredit
Sample : Tumor exome
Size : 10 Gb
App : RNA-Seq Differential Expression
RNA panel: 2 iCredits
Sample : RNA panel
Size : 3 million reads
App : RNA Amplicon
16S rRNA: 1-2 iCredits
Sample : 16S Metagenomics
App : 16S Metagenomics
Output : Taxonomic classification
Intuitive BaseSpace Sequence Hub dashboard
Find notifications, status updates, and information about the latest runs and analyses at a glance.
Monitor data in real time
Sequence Analysis Viewer (SAV) capabilities are built into the BaseSpace Sequence Hub user interface, allowing real-time, cycle-by-cycle monitoring. The Charts view shows data by lane and by cycle, with Q-score distribution and heat map features. Each graph can be expanded to full size.
Launch analytical tools on demand
Browse and explore a growing list of DRAGEN and Illumina apps in the BaseSpace Apps Store, and launch selected apps with a single click directly from the data set.
Individual and Workgroup accounts
Log into BaseSpace with personal credentials, then switch between individual and Workgroup accounts. In Workgroup accounts, you can view all runs and analyses common to the Workgroup, as well as use the storage and computation hours purchased by the Workgroup, as shown in the different dashboards.
Explore BaseSpace example data sets
See sample data sets for various methods in BaseSpace Sequence Hub, or test apps of interest and evaluate results interactively.
View sample data sets
Resources
Watch an introduction to BaseSpace Sequence Hub to learn how you can store and analyze your genomic data with ease.
Illumina informatics blog
Read about the latest informatics product releases, version updates, and feature highlights.
BaseSpace Sequence Hub informational resources
Get access to a compilation of resources designed to help new users get started with BaseSpace Sequence Hub.
Accelerate coronavirus detection and identification, perform host response studies, simplify your sample tracking, and contribute to public databases.
BaseSpace Sequence Hub Professional Annual Subscription
20042109
Annual subscription for BaseSpace Sequence Hub Professional. The Professional tier Includes 500 iCredits to get started quickly with BaseSpace apps and data storage, 1 workgroup to enhance collaboration, and access to powerful APIs. View less
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List Price:
Discounts:
BaseSpace Sequence Hub Enterprise Annual Subscription
15066411
Annual subscription for BaseSpace Sequence Hub Enterprise. This subscription includes support for multiple workgroups, private domains, single sign-on, and HIPAA compliance (US-only). View less
Illumina Analytics - 1 iCredit
20042038
iCredits are used for data storage and analysis on either BaseSpace Sequence Hub or Illumina Connected Analytics. View less
Illumina Analytics Starter Pack - 1,000 iCredits
20042039
Illumina Analytics - 5,000 iCredits
20042040
Illumina Analytics - 50,000 iCredits
20042041
Illumina Analytics - 100,000 iCredits
20042042
Illumina Analytics Consumption Billing
20012931
Illumina Analytics Consumption Billing - The not to exceed amount is represented as the amount on the quote. Customers will be invoiced monthly for consumption of compute, storage, and 3rd party Apps up to the amount associated with item number 20012931. View less
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Can I try BaseSpace Sequence Hub before ordering?
Yes, a 30-day free trial is available and begins automatically when you first create an account and log in. The trial provides 250 iCredits (expiring after 30 days) that can be applied to compute fees for any BaseSpace app and data storage > 1 TB. After 30 days, you may no longer run apps, but can still monitor sequencing runs, demultiplex uploaded runs, store a limited amount of data, share and transfer with collaborators, and download data.
What are iCredits and are they required to use BaseSpace Sequence Hub?
iCredits are the currency used to purchase Illumina genomic data storage and analysis options. Purchase of iCredits is required for running data analysis apps and storing data in BaseSpace Sequence Hub. Learn more about iCredits and billing for BaseSpace Sequence Hub .
Does Illumina have access to my data in BaseSpace Sequence Hub?
Illumina is committed to keeping customer data confidential and secure. All data sharing is controlled by the customer or their proxy. Illumina uses role-based access controls to inhibit nonauthorized accession of data and audits authorization of role-based access annually.
What support does Illumina provide for BaseSpace Sequence Hub users?
Illumina provides extensive support for BaseSpace Sequence Hub users. Support documentation, training, and other resources are available on the BaseSpace developer site and BaseSpace support section . You can also contact technical support .
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