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Andrey Andreev, PhD
Postdoctoral scholar
David Prober lab
Caltech
Current location: Los Angeles, California
Spawn: Saint-Petersburg, USSR
Currently at Caltech (October 2019—):
Light-sheet microscopy: zebrafish brain activity and sleep neuroscience
Better sciencing: data management, design, analysis
PhD at USC (2012—2019):
Development of a toolbox for global functional brain imaging of wake and sleep states in zebrafish, PhD thesis defense June 10, 2019
Publications (Google Scholar page):
Biophotonics and Biosensing. Chapter 4. Fluorescence microscopy, Elsevier 2024
Light Sheet Fluorescence Microscopy. Chapter 12. Light-Sheet Microscopy Technology in the Multiuser
Environment of a Core Imaging Facility – Practical Considerations, Wiley 2024
Analyzing calcium imaging data using Python, Focal Plane 2023
First steps into the cloud: Using Amazon data storage and computing with Python notebooks, PLOS One 2023
First steps for presentation and analysis of calcium imaging data, Focal Plane 2022
CAD we share? Publishing reproducible microscope hardware, Nature Methods 2022
Research Culture: Welcome to the lab, eLife 2022 (twitter thread with examples)
Regional synapse gain & loss accompany memory formation in larval zebrafish, PNAS 2022 (featured in Wired)
Biologists need modern data infrastructure on campus, aRxiv 2021
Opinion: Consult Researchers When Designing Lab Buildings, TheScientist 2021 (twitter thread with examples)
Open-source thermometer and other environmental sensors for the lab (Online demo), bioRxiv 2021
A biologist’s checklist for calcium imaging and optogenetic analysis, Focal Plane 2021
Two-photon microscopy and the $100,000 question: tunable or fixed-wavelength femtosecond laser?, Laser Focus World 2020
Neuropeptide VF neurons promote sleep via the serotonergic raphe, eLife 2020
Macropinocytosis-mediated membrane recycling drives neural crest migration by delivering F-actin to the lamellipodium, PNAS 2020
Practical Guide to Storage of Large Amounts of Microscopy Data, 2020
High-contrast, synchronous volumetric imaging with selective volume illumination microscopy, 2020
Eavesdropping on Biological Processes with Multi-dimensional Molecular Imaging, 2018
Genetic and neuronal regulation of sleep by neuropeptide VF, 2017
Talks & Conferences:
Technical oversharing: going beyond 'methods' section — sharing technical knowledge through publishing technical notes, 2022
Computer-aided design (CAD) helps build and share design of experimental setups, Neuromatch 3.0, 2020
Raw data storage is terrible and we can fix it, Light Sheet Fluorescence Microscopy Conference, 2020
Using computer-assisted design for the development of custom two-photon light-sheet microscope, Photonics Online Meetup, 2020
Society for Neuroscience Annual Meeting posters: 2015, 2016 (posters), 2017 (dynamic poster)
Biophysical Society meeting platform talk, March 2016
Teaching & mentoring:
Invited lectures: USC (2021), Weizmann (2021)
Bi23 Workshop at Caltech (2021) feature in Caltech Magazine
2012-2021 Supervising HS/undergraduates (6), PhD rotation students (3)
Small projects:
2023 What/Where guide to LA restaraunts
2021 Laser alignment demo
2021 Template for welcoming new PhD students to the lab
2020 Split-screen for PDF files splitscreen.aandreev.net
2019 Project management and design tips for academia: Extreme Sciencing blog
2017 Tool to help you concentrate Shut Up and {Write|Read|Code|Study}
2016 Organize your image contest at ImageContest.org
2009 Molecular and Cell Biology GRE test preparation blog MCB Q&A
Service and Volunteering:
2022 International Microscopy Hour together with UCSF and HUJI scienstists micro-hour.net
2021 Applicaiton review for SURF Summer Caltech program
2019 Poster judging for SURF Summer Caltech program
2015-2017 Support of fliptrap.org
2015-2019 Build and support of shared lab storage for >200TB, >5 projects, >15 users
2016 SEF Lab retreat image contest
2013- Volunteering at Theater Games studio
2017-2018 Volunteering at Inner-City Arts
2018-2019 Volunteering as event photographer Pasadena Heritage
2009 Subtitles translation into Russian for TED
Conferences:
2020 Neuromatch 3.0
2020 Light Sheet Fluorescence Microscopy Conference
2020 Photonics Online Meet-up @ Twitter
2018 Neuroscience Annual Meeting @ San Diego, CA
2017 Neuroscience Annual Meeting @ Washington, DC
2016 Neuroscience Annual Meeting @ San Diego, CA
2016 Biophysics Annual Meeting @ LA, CA
2016 Annual Advanced Imaging Methods Workshop @ Berkeley, CA
2015 Neuroscience Annual Meeting @ Chicago, IL
2014 Zebrafish Conference @ Madison, WI
2014 Biophysics Annual Meeting @ SF, CA
Education:
2012-2019 PhD, Biomedical Engineering, UCS (Los Angeles, USA)
2007-2011 B.S. (Physics), Dept. of Biophysics, State Polytechnical University (St.Petersburg, Russia)
2010-2010 Summer program (Mol. Biology; Physiology) Stanford University (plus work at Dr.Moerner's lab)
Travels:
Europe: Helsinki, Paris, Lisboa, Tallinn, Kiev
US: San-Francisco & Bay Area, Urbana-Champaign, St. Louis, NYC, Chicago, Madison@WI, San Diego
Russia: Moscow, Nizhniy Novgorod, Vyborg, Sarov, Bay Area
Photography
Oleg Andreev
Hosted on Dreamhost
Flow
February 17, 2019
System Olympia @ NTS Radio (03.02.17)
April 22, 2017
March 29, 2017
February 17, 2017
January 21, 2017
January 6, 2017
December 31, 2017
December 25, 2016
December 1st, 2016
November 11, 2016
November 8, 2016
October 7, 2016
ohshitgit.com
September 22, 2016
September 5, 2016
August 31, 2016
October 14, 2015
Focus group of your presentation:
July 22, 2015
July 18, 2015
Things that are OK to google:
'tilde in latex'
July 15, 2015
Not using brain considered harmful
- not having backup
- not having RAID
- having ill-conceived plans with ill-defined outcomes
- present data as movie and scroll through frames
- don't think about end goal and/or end user
July 10, 2015
Grad school is a harsh mistress
July 7, 2015
For God's sake, let us sit upon the ground
And tell sad stories of the death of kings
July 3, 2015
BRUNO
Wait till the debates. Elections in six weeks, Mr. President. The world was created in a lot less time.
BARTLET
Well, one day I'll buy you a beer and you'll tell us all how you did it.
BRUNO
Thank you, sir.
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