Microbiota Bioinformatics

Whole Genome Sequencing of biological samples triggered the emergence of new projects focusing on microbiota analysis. The influence of microorganisms on human health has been described in recent projects. Micro LifePipe® now brings absolute quantification which will become a new asset in microbiota analysis.

The microbiota represents all the microorganisms, like fungi, viruses or bacteria, living in a host environment.

Microbiota

Our Pipeline

The detetion of a microorganism in a sample is performed based on reads alignment on microorganism masked reference genomes. A qualitative validation is performed on the reads repartition on reference genome to confirm the presence of a species inside sequenced sample.

Our absolute quantification is based on a calibration range of microorganism samples: a statistical model is built to determine microorganism concentration. Through this calibration step, the detection threshold of our pipeline is very low - below the quantitative PCR threshold for virus detection and quantification.

The pipeline is used to study the microbiota of biological samples and quantify each found species.

Why choose Micro LifePipe®?

Specific

Our tool provides detection sensitivity and specificity greater than 99% for one or more microorganisms.

Fast

The analysis is fast for the quantification of one microorganism : it takes about 5 minutes per sample.

Supported

The tool is supported by our expert team and updated regarding the new published genomes. We also provide training and support for users.

Flexible

Our pipeline is fully cutomizable to better achieve the goal of the analysis: species to quantify, detection threshold.

Micro LifePipe® Applications

The pipeline has been validated on a public sequenced sample NA12878, a transformed cell line with EBV insertion. As for this example, Micro LifePipe can be used to study the microbiota from biological samples by precisely quantifying each species.

It can also be used for targeted applications such as quantify a unique species like Cytomegalovirus quantification during pregnancy. This approach has been published recently in Scientific Reports.

Using massively parallel shotgun sequencing of maternal plasmatic cell-free DNA for cytomegalovirus DNA detection during pregnancy: a proof of concept study. Chesnais et al. Scientific Reports 2018

Latest News

SFH 2018

SFH 2018

28th
March , 2018

Life and Soft was present at the 38th congress of the French Society of Hematology in Paris with a poster selected by the SFH scientific committee and introducing Micro LifePipe®.

Scientific Reports

Scientific Reports

12th
March , 2018

Life&Soft first clinal study has been published in Scientific Reports. It is a Proof-Of-Concept of the feasibility to detect CMV virus on same samples that the one used for classical fetal aneuploidy detection with NIPT assay.

9èmes Assises de Génétique Humaine et Médicale

9th Assises de Génétique Humaine et Médicale

24th
January , 2018

Life & Soft will participate to the Assises de Génétique Humaine et Médicale in Nantes, from January 24th to 26th. Our team will be present at booth #41 and at the poster area for a presentation of our work on quantification of micro-organisms from WGS data. Please contact us to plan a meeting during the event.

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 Micro LifePipe® in a poster presentation.

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