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Our Research / Former Labs
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Former Labs
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View the web pages of former Janelia labs:

Baker Lab Bock Lab Cardona Lab
Chklovskii Lab Clayton Lab Cui Lab
Druckmann Lab Eddy/Rivas Lab Egnor Lab
Fetter Lab Freeman Lab Gonen Lab
Grigorieff Lab Gustafsson Lab Hantman Lab
Jain Lab Ji Lab Kainmueller Lab
Kerr Lab Koyama Lab Leonardo Lab
Magee Lab Menon Lab Murphy Lab
Myers Lab Pastalkova Lab Pavlopoulos Lab
Peng Lab Podgorski Lab Riddiford Lab
Rinberg Lab Simpson Lab Truman Lab
Tjian Lab Zlatic Lab Zuker Lab

Baker Lab

September 2008 - August 2016

We study the genetic basis of the neural circuits underlying innate behaviors and how these circuits function in the behaving animal. We use the mating behavior of the fruit fly Drosophila melanogaster as a model.

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Bock Lab

September 2014 - April 2019

Multiterabyte electron microscopy image volumes containing the neuronal circuits of interest are generated using high-throughput electron microscopy of serial thin sections. The arbors of selected neurons and the synaptic connections between them are then mapped, and the resulting 'wiring diagram' is analyzed in the context of circuit function.

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Cardona Lab

January 2012 - December 2019

The pathways of information flow and the properties of neurons and glia constrain the computational capabilities of the nervous system. In our lab, we are mapping the wiring diagram, with synaptic resolution, of the complete nervous system of the larval Drosophila. And, in the context of known circuitry, we study the neural basis of behavior using electrophysiology, optogenetics and modeling.

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Chklovskii Lab

July 2007 - July 2014

How does electrical activity in neuronal circuits give rise to intelligent behavior? To answer this question, we are pursuing two synergistic research directions.

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Clayton Lab

September 2008 - February 2014

Our laboratory has a long-standing and continuing interest in this extrachromosomal genome, mainly in the areas of mtDNA replication and transcription.

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Cui Lab

September 2010 - August 2015

The advance of optical technologies has revolutionized a broad range of biomedical research fields. During the past two decades, novel optical imaging techniques have been developed to provide unprecedented resolution, sensitivity, and speed. However, the optical penetration depth in tissues remains very limited.

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Druckmann Lab

January 2013 - December 2017

What makes one’s brain a brain? Our lab is interested in elucidating the relationship between behavior and the underlying neuronal circuit structure and neural population dynamics.

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Eddy/Rivas Lab

July 2006 - June 2015

Genome sequences are now known for thousands of different species. We are at a remarkable time in biology where at last we can look at the "source code" for life—the DNA sequences that specify development, regulation, and function of organisms—but we are still far from adequately understanding how to read this vast trove of encoded information or being able to reconstruct how it evolved.

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Egnor Lab

January 2008 - January 2015

Roian Egnor uses multi-generational groups of socially-housed mice to study the neural basis of complex vocal and social behavior.

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Fetter Lab

May 2012 - September 2015

The Fetter lab is interested in developing tools and techniques to faithfully preserve the in vivo biological structure and maximize information content at nanometer resolution for the next generation of Drosophila EM connectomes.

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Freeman Lab

March 2014 - October 2016

Exploring neural computation in behaving animals at the scale of large populations and entire brains, through a combination of collaborative data analysis and experimental design across multiple model systems, and developing technology for modern computational science.

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Gonen Lab

September 2011 - June 2018

Our laboratory studies the structures of membrane proteins important in homeostasis and signaling. We develop new tools in structural biology, namely MicroED as a new method for cryo EM, to facilitate the study of such membrane proteins to atomic resolution from vanishingly small crystals.

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Grigorieff Lab

2013 - August 2020

The Grigorieff Lab developed high-resolution electron cryo-microscopy (cryo-EM) to study the atomic structures of biomolecules and their assemblies.

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Gustafsson Lab

August 2008 - April 2011

The Gustafsson Lab was dedicated to creating new forms of light microscopy for biological imaging.

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Hantman Lab

2010 - August 2021

The Hantman lab investigated how top-down feedback affects sensory processing. In particular, how cortical output influences proprioceptive streams in the brain.

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Jain Lab

February 2011 - January 2014

Electron microscopy (EM) is still the best technique for producing data from which one can unambiguously determine the complete synaptic connectivity of neuronal assemblies.

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Ji Lab

February 2011 - January 2018

We develop optical methods for in vivo imaging and apply these methods to structural and functional studies of neural circuits.

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Kainmueller Lab

November 2016 - May 2018

The lab will focus on automated reconstruction and identification of neurons in EM and light microscopic image data of the fly brain, where the goal is to exploit prior knowledge about global neuron shapes. This will enable biologists to find specific neurons of interest efficiently in huge EM volumes. Furthermore, it will be exciting to map circuits known from EM onto functional acquisitions to be able to observe known circuits in action. Therefore, the respective specific cell bodies have to be identified in functional imaging data.

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Kerr Lab

September 2006 - August 2013

How does an organism compute its behavior?  The Kerr lab seeks to answer this question for one of the simplest model organisms, the nematode worm Caenorhabditis elegans.

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Koyama Lab

2014 - Dec 2020

Our goal is to find simple sets of rules that can explain the organization of neuronal circuits in a broad range of systems.

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Leonardo Lab

2014 - Dec 2020

Our lab is interested in general principles underlying neural information processing. The broad aim of our work is to understand the computations neural circuits implement, how robust they are, and how different circuits are linked into systems to produce behaviors. These questions are pursued in the context of prey capture in the salamander and the dragonfly.

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Magee Lab

August 2006 - July 2018

Our ultimate goal is to provide a mechanistic understanding of a behaviorally relevant brain function.

To this end we are attempting to produce biophysically based explanations of the information-processing and storage capabilities of single and small networks of neurons. We use a variety of optical (two-photon transmitter uncaging, single and two-photon ChR2/NpHR activation, two photon Ca2+ imaging) and electrical (dual whole-cell recordings, cell-attached and outside-out patches) techniques in the various projects.

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Menon Lab

September 2016 - April 2018

Simultaneous advances in biochemical techniques and computing power in the early 21st century have transformed the field of biology by allowing for the generation of comprehensive large-scale molecular datasets. At Janelia, we will characterize cell types in the brain using transcriptome-wide data from single cells and small populations of cells to uncover the molecular grammar underlying the components of the nervous system and their connections. Ultimately, linking gene expression and epigenetic information to other phenotypes – including lineage, neuronal connectivity, and cell-cell communication – is crucial to understanding the control of neuronal identity.

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Murphy Lab

September 2009 - August 2015

Determining the properties and salience of sensory cues is fundamental to the survival and characteristic behavior of most, if not all, organisms. Our lab identifies mechanisms that underlie the sensitivity and selectivity with which neurons in the mammalian nervous system respond to visual stimuli.

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Myers Lab

September 2005 - May 2012

The Myers Lab is developing algorithms and software for the automatic interpretation of images produced by light and electron microscopy of stained samples, with an emphasis on building 3D and 4D "atlases" of brains, developing organisms, and cellular processes.

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Pastalkova Lab

January 2010 - August 2016

The hippocampus is the region of the brain that is necessary for the formation and storage of episodic memories - unique events we experience in our lives as "I just met my best friend and we went for a walk." We study what firing patterns of hippocampal neurons are responsible for encoding and recall of these memories.

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Pavlopoulos Lab

July 2013 - August 2019

Probing the molecular and cellular basis of developmental morphogenesis.

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Peng Lab

November 2007 - August 2012

Hanchuan Peng develops bioimage analysis and informatics techniques. He uses these techniques to mine and fuse knowledge from three-dimensional animal brain images, at both micrometer and nanometer scales. His group is building 3D neuronal atlases of brains – incorporating neuron distribution, projection, and connection statistics and mapping functional data of neurons.

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Podgorski Lab

2016 - August 2021

The brain computes using neurons that each integrate thousands of inputs to determine their firing output. We are developing tools to record those input patterns at high speed, to study computations that occur in individual neurons during behavior.

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Riddiford Lab

October 2007 - September 2016

We are interested in how the developmental hormones, ecdysone and juvenile hormone, interact to allow and orchestrate metamorphosis.

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Rinberg Lab

August 2006 - August 2012

Our lab is using electrophysiology, optogenetics, and psychophysics to understand the principles of sensory information processing. Specifically, we are focused on two questions: 1) how is odor information coded in the brain of the awake, behaving mouse? And 2) how is information relevant to animal behavior extracted by the brain? In short, we want to know what the mouse’s nose tells its brain.

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Simpson Lab

July 2006 - July 2015

We use genetic tools and screening strategies to identify the specific neurons necessary and sufficient to control grooming and feeding, behaviors which were chosen for their sequential progression and cue integration properties.

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Truman Lab

Our research is focused on the neurons of the larval CNS.

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Tjian Lab

April 2009 - September 2016

Robert Tjian is interested in the biochemistry of gene regulation in humans and animals. In particular, what is the nature of the molecular machinery that controls the turning up and down of gene expression in human cells, and how does disruption of this highly regulated process lead to various disease states?

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Zlatic Lab

September 2009 - December 2019

Marta Zlatic studies the neural and genetic basis of behavior, including sensory processing, decision making, and motor production in Drosophila larvae.

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Zuker Lab

July 2009 - February 2015

Our long-term goal is to elucidate mechanisms used for signal transduction and information processing in sensory systems and to understand how the senses create an internal representation of the outside world.

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