In order to understand how brains work we need to map brain circuits. The classical discipline of neuroanatomy, where a central task is to understand circuit connectivity in brains, has undergone a renaissance and rapid growth due to our ability to acquire and analyze whole-brain image data volumes. Our laboratory originally proposed (https://doi.org/10.1371/journal.pcbi.1000334) and is carrying out whole-brain connectivity mapping in the mouse and the marmoset at a mesoscopic scale. We employ an integrated research effort including a high throughput experimental pipeline, analysis of the resulting big data volumes using machine learning methods, and dissemination on the web (http://mouse.brainarchitecture.org/).
As part of in the Brain Initiative Cell Census network, which aims to create a cell-type atlas of the mouse brain, we are engaged in management, analysis and dissemination of cell-type specific data sets to manage, analyze and disseminate whole-brain data sets for mouse pertaining to brain-wide distributions of specific cell types, reconstruction of single neurons projecting across the brain, and single-cell/single-nucleus transcriptome data.
We are recruiting for multiple open positions; application deadline: ASAP
The role will involve participating in and managing a team effort to analyze and disseminate large data sets gathered by a consortium of scientists engaged in creating a cell-type atlas of the mouse brain. The successful candidate is expected to have experience in writing papers as well as proposals and project reports. The candidate should have a Ph.D. or carried out postdoctoral research in neuroscience, particularly in the area of neuroanatomy, or bioinformatics with a focus on transcriptomic data analysis. Experience with experimental neuroscience will be an additional benefit but is not required.
This is a salaried position, with benefits. Compensation will be set DOE. Applicant must be willing to relocate to Cold Spring Harbor Labs in Long Island NY.
The Mitra laboratory at CSHL combines experimental, computational and theoretical approaches to understand how brains work.
PhD (necessary) in neuroscience, computer science, physics, bioengineering, or a related field
Should have machine learning/data science experience in neuroscience or bioinformatics
Must work well in a team environment and follow project management guidelines
Must be comfortable multitasking and working in a self directed manner
Report writing and publications
Working knowledge of Matlab, Linux
Familiarity with C/C++
Trained in computational neuroanatomy in the context of rodent/other histological imaging
Omics data analysis relevant for single cell/single nucleus transcriptome data
Experience working with distributed processing
Experience with distributed data storage and computational frameworks - MPI (multi-CPU), CUDA (GPU / multi-GPU, Opel CL, etc.
Internal Number: U19-M01
About Cold Spring Harbor Laboratory
Cold Spring Harbor Laboratory (CSHL), founded in 1890, is a preeminent international research institution, achieving breakthroughs in molecular biology and genetics and enhancing scientific knowledge worldwide.
The institution consists of over 600 researchers and technicians, with expertise in cancer, neuroscience, quantitative biology, plant biology, bioinformatics & genomics. CSHL has collaborations with top clinical institutions including Memorial Sloan-Kettering, Dana-Farber, Johns Hopkins, NYU, Weill Cornell, Columbia University, Yale and UCLA. 50% of our research funding is from private and unrestricted sources, allowing a unique degree of scientific freedom and collaboration.