NEURAL CODING: Scientist I – Microscale (EM)

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Amar Annamalai
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NEURAL CODING: Scientist I – Microscale (EM)

Scientist I - Microscale (EM) Functional Connectomics

The Allen Institute for Brain Science, located in Seattle, Washington, is comprised of a multidisciplinary staff committed to understanding how the brain works and helping to unlock the mysteries of neurological diseases and disorders affecting millions worldwide. Serving the scientific community is at the center of our mission to accelerate progress toward understanding the brain and neurological systems. Creating tools and data that advance the pursuits of thousands and thousands of scientists around the world is our contribution to revolutionary neuroscience. To this end, the Allen Institute's resources - each a groundbreaking creation - are free and publicly available online.

We are seeking a Scientist to be an essential member of a team investigating the relationship between the structure of cortical circuits and their function. The project is a large scale effort combining electron microscopy, electrophysiology, 2-photon microscopy, genomics and computer modeling to obtain a comprehensive theory of how the mouse visual system codes and processes information.
The Scientist you will investigate the connectivity of recorded somata/dendrites/axons with light and electron correlated microscopy. The Scientist should have experience with microscopy techniques be able to work in tight collaboration with theoreticians and physiologists.

  • Establish protocols for light/electron correlated microscopy of axons, dendrites and cell bodies that were recorded/imaged in vivo or in vitro. Such methods should be reproducible, standardizable and scalable.
  • Apply the protocols to investigate the connectivity matrix of layer 4.
  • Work with theoreticians to incorporate anatomy and physiology data into their models.
  • Contribute to the refinement of software for acquisition and analysis of large imaging data sets
  • Work efficiently in a collaborative team environment. Demonstrate integrity and credibility.


  • PhD in Neuroscience or related field
  • Experience with microscopy techniques
  • Electron microscopy skills are desirable.
  • Experience with histological techniques
  • Programming experience is desirable (Python, Matlab)
  • Strong publication record
  • Strong verbal and written communication skills
  • Ability to work as a part of a team
  • Ability to meet aggressive timelines and deliverables

Deadline: 7 November 2013

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