Welcome to the Konermann Lab!

We develop and apply next-generation functional genomics to understand the cellular and molecular pathways underlying the neuronal system and neurodegenerative disease, with the long-term goal of developing rationally targeted therapeutics for neurodegenerative disorders.

Konermann Lab

Research Focus

1

Development of CRISPR technologies for transcriptome engineering

The ability to perturb desired RNA molecules in a cell with high efficiency and specificity is a key technology across biomedical science. Despite rapid progress in effective technologies for genome engineering, analogous systems for transcriptome engineering lag behind their DNA counterparts. We recently identified the RNA-targeting type VI-D CRISPR-Cas family (Cas13d), in particular the engineered Cas13d from R. flavefaciens strain XPD3002 (CasRx) (Konermann et al., 2018), which are the smallest and most efficient Cas13 RNA targeting effectors in mammalian and plant cells reported to date. We are working to further characterize and optimize the Cas13d enzymes as RNA-targeting tools (Wei et al., 2022) to advance the investigation of RNA biology and application in RNA therapeutics.

2

Optimization and application of CRISPR technologies for investigating the genetics of neurodegenerative diseases

High-throughput CRISPR perturbation screening has emerged as a powerful approach to interrogate gene expression networks (Konermann et al., 2015; Joung et al., 2017; Biering et al., 2022). We are developing and applying methods for CRISPR screening in stem cell-derived models of the human brain to investigate the cellular and molecular pathways driving genetic risk in neurodegenerative disease. Concurrently, we are developing computational methods for analyzing large-scale perturbation datasets towards the goal of elucidating the genetic architecture of complex disease risk.

Publications

publication alt

Genome-wide, bidirectional CRISPR screens identify mucins as critical host factors modulating SARS-CoV-2 infection

Scott B. Biering, Sylvia A. Sarnik, Eleanor Wang, James R. Zengel, Sarah R. Leist, Alexandra Schäfer, Varun Sathyan, Padraig Hawkins, Kenichi Okuda, Cyrus Tau, Aditya R. Jangid, Connor V. Duffy, Jin Wei, Rodney C. Gilmore, Mia Madel Alfajaro, Madison S. Strine, Xammy Nguyenla, Erik Van Dis, Carmelle Catamura, Livia H. Yamashiro, Julia A. Belk, Adam Begeman, Jessica C. Stark, D. Judy Shon, Douglas M. Fox, Shahrzad Ezzatpour, Emily Huang, Nico Olegario, Arjun Rustagi, Allison S. Volmer, Alessandra Livraghi-Butrico, Eddie Wehri, Richard R. Behringer, Dong-Joo Cheon, Julia Schaletzky, Hector C. Aguilar, Andreas S. Puschnik, Brian Button, Benjamin A. Pinsky, Catherine A. Blish, Ralph S. Baric, Wanda K. O’Neal, Carolyn R. Bertozzi, Craig B. Wilen, Richard C. Boucher, Jan E. Carette, Sarah A. Stanley, Eva Harris, Silvana Konermann, Patrick D. Hsu

Nature GeneticsJuly 2022

All Publications

Team

Silvana Konermann
EXECUTIVE DIRECTOR AND CORE INVESTIGATOR

Silvana Konermann

Silvana is an Assistant Professor of Biochemistry at Stanford. Her research laboratory aims to understand the molecular pathways that drive the development of Alzheimer’s disease using next-generation functional genomics, with the long-term goal of developing rationally targeted therapeutics for neurodegenerative disorders. She received her Ph.D. in Neuroscience from MIT. Silvana’s pioneering work on tools to directly perturb the transcriptomic landscape of the cell using CRISPR has been recognized by her faculty appointment as a Chan Zuckerberg Biohub Investigator and Hanna Gray Fellow of the Howard Hughes Medical Institute.

Current Members

Jingyi Wei
Graduate Student

Jingyi Wei

Jingyi Wei is a Graduate Student in the Stanford Bioengineering Program. She received her B.S. in biology from Peking University. She is interested in genome engineering, synthetic biology and neurodegenerative diseases.

Connor Duffy
Graduate Student

Connor Duffy

Connor Duffy is a graduate student in the Stanford Genetics PhD program. He received his S.B. in Computer Science and Molecular Biology from MIT.

Hannah Slabodkin
Research Associate

Hannah Slabodkin

Hannah Slabodkin is a Research Associate. She received her B.A. in molecular biology from Princeton University.

Emily Kinnaman
Research Associate

Emily Kinnaman

Emily Kinnaman is a Research Associate. She received her B.A. in molecular/cell biology from UC Berkeley.

Jayesh Salvi
Senior Scientist

Jayesh Salvi

Jayesh Salvi is a Senior Scientist in the Konermann and Hsu labs at the Arc Institute. He received his PhD from the University of Toronto and completed Postdoctoral training in Dr. Thomas Rando’s lab at Stanford University. Jay is broadly interested in modeling CNS disorders and determining important signaling pathways in development and disease.

Kiki Chu
Lab Manager

Kiki Chu

Kiki Chu is the lab manager for the Konermann and Hsu labs at the Arc Institute. She received her PhD from the University of Wisconsin-Madison and completed her postdoctoral training at Massachusetts General Hospital. Before joining the Arc Institute, she was a lab manager at MIT in a neuroelectrophysiology lab, further adding to her diverse research background in the fields of lipid metabolism and cancer biology.

Contact Us

We are recruiting at multiple levels (Senior scientists, postdocs and research assistants) with an emphasis on people with genomics, molecular biology, cell biology, neuroscience or computer science backgrounds. Both wet and dry lab folks are welcome to apply! More info on open roles can be found here.

Address

Arc Institute
3160 Porter Dr
Palo Alto, CA 94304
info@arcinstitute.org
Arc Institute Location