What does Amaryllis do?RNA Sequencing

● RNA-Seq determines the identities of RNA molecules, and is most often used to quantify gene expression

● Traditional methods of library synthesis = expensive, time consuming, complex

● Amaryllis uses new, streamlined chemistry that addresses all three

Product and Service

● Kit for RNA-Seq library synthesis

● End-to-end service, which includes experiment design, benchwork, bioinformatics, etc.

● Currently raising funds and marketing our product/service

● Goal: increase volume, expand, and automate, so we can focus on developing new products

What does Amaryllis do?

Who are we?

● B.S. Bioengineering, May 2017● Worked on water remediation devices

with the National Science Foundation● POC Diagnostics in Lee Lab, QB3 ● DNA assay development at Illumina● Excited about genomics revolutionizing

personalized medicine and public health!

Allison Reichl

Molecular

Biology Intern

● B.A. Statistics, Molecular & Cell Biology● Developer in Krauss/Medina Lab, CHORI● Maternal & Child Health volunteer at

Highland Hospital● Organic chemistry lab undergraduate

student instructor at UC Berkeley● Live to manage and analyze data

Victor Kong

Bioinformatics

Intern

Our Pipeline

Allison: Molecular Biology Optimizing RNA Sample

Preparation

1. Lower RNA input requirement2. Improve profitability by

validating alternative reaction components

3. Modulate cycling conditions to improve amplification

RNA EXTRACTION FROM CELLS

Breath Capture Adapter Ligation

Enrichment and Quantification

Clean Up, Pool for Sequencing

RNA Fragmentation & cDNA Synthesis

How Does Breath Capture Work?RNA is primed

with a synthetic

DNA molecule

Complementary

cDNA strand is

synthesized

Terminal breathing

occurs naturally at

the ends of double

stranded amino

acids

Breathing allows for

access by specialized

adapter

DNA polymerase makes

the interaction

permanent in a

strand-specific manner

Final PCR step

amplifies the sample

exponentially

Victor: BioinformaticsStreamline Bioinformatics

Pipeline

1. Join together pipeline elements and automate

2. Maximize quality and reproducibility

3. Optimize with respect to runtime, memory usage, and ease of use

Removal of Low Quality Reads

Quantify Gene Expression

Analyze Differential Expression

Align Reads to Reference Genome

Victor

● Super-supportive learning environment; learn by doing

● Input is always considered and treated with respect

● Opportunity for discovery; freedom to put own twist on things

● Learning with mentors outside the scope of comfort zone

ReflectionsAllison

● Start-Up “Culture”○ Passion for the product○ Exciting to work on multiple facets

of the pipeline○ I know everyone at the company!

● Sequencing and Personalized Medicine

● Manufacturing

Thanks!Special thanks Brad Townsley, Mike Covington, Tiff Dressen, and the Bio-Manufacturing to Market Program.

The work on these projects are supported by the Bio-Manufacturing to Market pilot project, which is funded through the Advanced Manufacturing Jobs and Innovation Challenge grant (DE-EE00006026/0002) through the US Department of Energy.