CRISPR Bioinformatics

The introduction of targeted genomic sequence changes by CRISPR technology into living cells has become a powerful tool for gene therapy or disease modeling. Our solution guide you from the begining of your experiment to their validation.

Preliminary bioinformatics analysis for both gRNA and donor templates design can greatly improve the success of the experiment. This is where CRISPR LifePipe® will make sequence design for genome editing as simple as using a text editor.

NGS allows to scan your edited cells to validated their genomic modification. CRISPRseq LifePipe® quantifies insertions and deletions, compute their length, position and allele frequency to give you a precise outlook of what append in your edited cells.

CRISPR: Gene editing is just the beginning. The real power of the biological tool lies in exploring how genomes work - Nature, 2016

Guide RNA design

The guide RNA (gRNA) is a short RNA sequence which guides the Cas9 endonuclease to the targeted region to cut the genome. gRNA is crucial for CRISPR gene editing because it provides targeting efficiency on the genomic region of interest while limiting the number of off-targets.

Our gRNA design tool targets different genomic regions: The tool is also configurable with advanced design options like the GC percent of the sequence or sequence pattern, and off-targets identification options like maximal number of off-targets per gRNA and mismatches to best meet the user’s needs.

Our tool selects gRNA sequences with the lowest number of off-targets to avoid side effects within the cell. It also predicts the gRNA efficiency with several annotations like the estimation of secondary structures, detection of frequent SNPs or computing efficiency prediction scores described in scientific literature. Finally, a ranking is also provided within the results interface to help the user choose the best gRNA candidate.



Donor template design

The donor template is a DNA sequence inserted into the cell along with the gRNA and the endonuclease. It acts by homologous recombination during DNA repair (HDR) to replace the host DNA with the donor template sequence.

Our tool can design plasmid donor sequences with variable length homology arms as well as ssDNA oligos (ssODN). Different modes are available to insert modifications into the host:
• Insertion of a mutation into a gene
• Gene tagging in 5’ or 3’

The tool computes the best location on the host genome to insert an exogenous DNA fragment like a selection cassette to avoid disruption of transcription or splicing of targeted gene.
A donor template quality control is systematically performed to inactivate the gRNA sequence on the donor template which prevents the endonuclease cutting.



Experiment validation by NGS

After completed biological experiment and before results’ interpretation it is recommended to validated the experiment to confirm genome edition. NGS is a useful tool to visualize genomic modification.

CRISPRseq LifePipe® analyzes your NGS results to report both insertions and deletions. For each sequenced region it reports the position, the allele frequency and the size of all insertions and deletions.

The tool can also used the gRNA sequence of your experiment to annotate if each indel is inside the on-target. Finally the consequence of each genomic alterations is also reported to predict a potential impact on coding sequences.

Report includes an excel file with different sheets for an easily interpretation of the results as well as graphical output.

Why choose CRISPR LifePipe®?

Convenient

Our application combines different tools required to perform CRISPR genome editing, from gRNA and donor template design to the identification of off-targets after NGS

Flexible

All our CRISPR design tools are entirely customizable to consider your specific and evolving needs: design mode, organism and PAM… A batch mode is also available to help you to parallelize several designs and analysis

Supported

Our application has been developed to include the new findings and ideas published in scientific literature. CRISPR LifePipe® is supported and regularly updated by our team

Easy to use

Intuitive web form is fully customizable by the user for his specific design needs. An interface is also available with a genome browser to help the user to visualize and download the designs’ results

Validation Study

We have validated CRISPR LifePipe® gRNA design tool by performing a meta-analysis of 10 studies in human primary cells or cell lines, published between 2016 and 2018.

27 experimentally validated single or paired gRNAs for Cas9sp wt and nickase mutant were extracted from these publications and studied. All corresponding targets were submitted to CRISPR LifePipe® gRNA design tool, and the ranking of gRNAs was analyzed.

Firstly, we found that all published gRNAs were found by our application, indicating its high level of accuracy. Moreover, we observed that most of them ranked in the 3 best gRNAs returned by our application. All of these results prove the quality of the CRISPR LifePipe® gRNA design tool and its ability to help scientists to choose the best gRNAs for their experiments.

Our Pricing Plan

Find the pricing model that best suit your needs.

Standard Private Cloud

From 150€
per month / per user
  • Dedicated instance
    Recommended for
    less than 5 users.
    4 CPU, 13Gb RAM
  • gRNA checker
  • gRNA design
  • Donor DNA design
  • Batch Mode
    Unlimited
  • New species on demand
  • Premium support

Premium Private Cloud

From 250€
per month / per user
  • Dedicated instance
    Recommended for
    more than 5 users.
    8 CPU, 26Gb RAM
  • gRNA checker
  • gRNA design
  • Donor DNA design
  • Batch Mode
    Unlimited
  • New species on demand
  • Premium support

On-Premise

Contact Us
_
  • Hoster server
     
     
     
  • gRNA checker
  • gRNA design
  • Donor DNA design
  • Batch Mode
    Unlimited
  • New species on demand
  • Premium support

Request a Demo

We will be happy to arrange a demo to discuss your need and how CRISPR LifePipe® can help you.

Latest News

Innov'inMED 2017

LinkedIn articles, 2018

16
November , 2017

Life and Soft has published articles on LinkedIn to explain how bioinformatics can improve the success of your CRISPR experiment and to help you design and select your gRNA with CRISPR LifePipe®

Innov'inMED 2017

SFG Congress, 2017

16
November , 2017

Life and Soft is a partner of the 2017 congress of the French Society of Genetics, this year focusing on CRISPR. Come and meet us at the Faculty of Sciences of Montpellier, from November 16th to 18th, to get a glimpse of the latest advances for our CRISPR design tool: CRISPR LifePipe.

Innov'inMED 2017

JOBIM Congress, 2017

6
July , 2017

Life and Soft was present at the Biology, Bioinformatics and Mathematics Days in Lille. We were glad to introduce CRISPR LifePipe® in a poster presentation.

Contact Us

Ask about our offer, find answers to your questions and get in touch.