Our home-built microscope system for Stochastic Optical Reconstruction Microscopy and Multiplexed Error Robust FISH is now up and running.
Nov 4th, 2016: Assembly of Microscope 1 finally begins, after waiting for renovations and supplies to arrive. Here’s what the room looked like last month: Now newly renovated, our optics table has been rigged and floated. Carly help move equipment into the new space. And Simon has assembled several beam expanders for each of the lasers. They’re […]
Ask me about rotation projects! Graduate students from any program interested in gene regulation, genome structure, advanced microscopy, and/or quantitative biology are encouraged to visit. Please contact Alistair by email: boettiger at stanford dot edu to set up a time. Potential Rotation Projects: Imaging insulator activity in action. Structural relationships of enhancers and promoters in development. Advanced error-correction codes […]
Postdoctoral positions available. Please send a C.V. and contact information for three references to boettiger at stanford dot edu. Additional information on working and living in the Stanford area and the resources available to postdocs: Stanford Office of Postdoctoral Affairs. http://postdocs.stanford.edu/
Available immediately: advanced optics research assistant. Interested in learning about single-molecule imaging and programming instrument control software? Join the lab as an undergraduate researcher and assist with programming our two super-resolution Stochastic Optical Reconstruction Microscopy setups! Previous experience with Matlab or Python is advantageous. Commitment 4-10 hrs/wk. Undergraduates interested in working on a summer research project in 2018 are encouraged […]
Mathematical models allow us to develop rich predictions from quantitative measurement. This approach to date has been vastly more successful in physics than molecular biology, where models have enable us to predict the existence of fundamental particles long before they are detected in nature, or determine the mass of celestial bodies that we could never put on a scale and […]
Single molecule fluorescent in situ hybridization (FISH) is a powerful technique to label and count individual RNA molecules of a particular type inside a fixed cell or tissue. It allows us to study the organization of RNAs within a cell and the organization of cell-types (classified by RNA expression) within a complex tissue or environment. The ability to have precise […]
In order to study the 3D DNA structures which regulate contacts between cis-regulatory elements (CREs) and their target transcribed elements (TEs), we are developing a super-resolution imaging approaches capable of resolving tens to hundreds of individual CREs, TEs, and intervening sequence in single cells of sectioned embryonic tissue and cultured cells at better than 20 nm resolution. We are applying this approach […]
Differences in gene expression arise due to differences in how accessible the sequence encoding a gene is to the transcription machinery of the cell. While we know much about the structure of DNA at small lengths scales (<1 kilobase) and at large length scales (whole chromosomes), we understand little about its organization at the intermediate scale of kilobases to megabases. […]
Lab renovations are planned to start in September 2016. Microscope assembly and basic experiments should start in November. We’ll be accepting rotation students in both winter and spring quarters!