Introduction.
The BNAT Program supports four trainees who are conducting research in the laboratories of BNAT Faculty members. Appointments begin July 1 and last for one year. They are renewable.
Eligibility
BNAT is an acronym for Basic Neuroscience Advanced Training. Our trainees are drawn from advanced graduate students and postdoctoral trainees working in BNAT labs.
Applicants must meet NIH guidelines for eligibility. This includes U.S. citizenship or green card holder, and fewer than three years of support from this or other NIH training grants (including National Research Service Award (NRSA).
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Advanced usually means that an applicant has completed her/his comprehensive exam, although in some situations, such as MSTP students, applications may be accepted before the comprehensive exam is completed. |
Selection Criteria
The most important criteria are your scientific qualifications, and the quality of your research proposal. In addition, the following may be considered:
- Mix of trainees. We seek to have both pre- and post-doctoral trainees in the program.
- Junior BNAT faculty. We seek to nurture and promote the research and training programs of junior faculty.
- New research area. When established faculty change research directions or otherwise undertake new research projects, if pilot data appear promising, we favor applicants working on such projects.
- History of support. We try to maintain a reasonably even distribution of trainees between trainers.
- Emergency support. If a BNAT trainer temporarily loses a grant, and if that grant provides support for a trainee who meets the qualifications for joining the BNAT program, then we try to accommodate the trainee.
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The BNAT Training Committee selects awardees. The committee comprises Angie Ribera, Tom Finger, Nathan Schoppa, Sukumar Vijayaraghavan, and Bill Betz (ex officio). |
Application Process
The application deadline is May 1 of every year. Awards are announced June 1. Appointments begin July 1. Application Packages should be submitted electronically to the BNAT Director (bill.betz@ucdenver.edu). The Application Package should be prepared single-spaced, 12-point type, with one inch margins. Page limits for specific sections are indicated below.
Application Package
- Applicant’s CV. Pre-doctoral applicants are to supply a copy of their Graduate School Transcript. Submitted by applicant.
- Research project (Five pages or fewer, excluding References). The reference list should contain the full title of article/chapter. Submitted by applicant.
- Career goals and description of the impact of the training on applicant’s career development (one page or less). Submitted by applicant.
- Supporting letter from applicant's BNAT mentor. The letter should provide information about the current positions of previous BNAT trainees and the total number of trainees (BNAT and other) currently in the laboratory. The Mentor should indicate sources of funding for research during the proposed training period of the applicant. The Mentor should comment on the extent to which the applicant contributed to the development of the proposed research project. Submitted by faculty mentor.
- Two supporting letters from qualified individuals. A post-doctoral applicant should obtain a reference letter from his/her thesis mentor. The most effective reference letters address the applicant’s qualifications for the proposed research project and assess the candidate's potential for a successful independent research career. Referees should rank the applicant with respect to intellectual capacity and research potential in comparison to previous trainees at a comparable career stage. Submitted by letter authors.
Fluorophores and Microscopes
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The faculty of the Basic Neuroscience Advanced Training (BNAT) program offer a course called “Fluorophores and Microscopes.” The course features classroom sessions (lectures, student and faculty presentations) and didactic and independent laboratory work (utilizing the four advanced microscopes in the Light Microscopy Facility). This course is designed to provide both a theoretical background and practical experience for students in fluorescence microscopy and the use of exogenous and genetically engineered fluorophores. |
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Who: BNAT trainees and other PhD students, postdoctoral fellows, and faculty. Enrollment limited to 12.
When: Tue & Thu, 1.5 hrs each meeting; Spring semester, 2006. 29 sessions total. Time of day TBA.
Where: Neuroscience /Physiology & Biophysics conference room, RC1 north, 7th floor
Text: There is no required text. Copies of relevant textbooks will be made available as appropriate. Handouts, online materials, and original papers will also be provided.
Evaluation of students (by faculty) is according to performance on individual laboratory projects and classroom and laboratory participation. There are no written examinations. Evaluation of faculty (by students) is according to clarity of presentations, appropriateness of content, availability for and helpfulness of consultation.
Faculty: BNAT trainers: Drs. Beam, Betz, Ribera, Caldwell, Dell’Acqua,Finger, Levinson, Restrepo, Sather; BNAT trainee Dr. Joe Johnson, non-BNAT faculty: Dr. Nicholas Barry, Assistant Professor, Dept. of Medicine; Dr. Amy Palmer, Assistant Professor, Chemisty & Biochemistry (Boulder campus) Teaching Assistants: BNAT trainee Dan Sdrulla; Former BNAT trainee Dr. Ernie Salcedo; Light Microscopy Facility Manager Fadul; Other trainees Dr. Sophie Breusegem, Michael Gaffield, Marc Yonkers.
Content: The course is divided into seven parts. Part 1 is an overview of the entire course. It is largely didactic and relatively highly structured. Part 2 gives hands-on experience with advanced microscopes in the Light Microscopy Facility (LMF) or Electron Microscopy Facility (EMF). Part 3 is back in the classroom for discussion of special techniques. Part 4 involves faculty research seminars (presenters chosen by students). The focus is on advanced techniques (faculty lectures and student presentations). Parts 5-7 involve advanced topics and student lab projects that focus on technology, not biology, although students may use preparations of their choosing.
Administration. Anisha Phillips-Thomas, UCD at Fitzsimons, RC1 North Tower Room P18-7130. Phone: 303-724-4500. email: Anisha.phillips-thomas@ucdenver.edu
Schedule: FLUOROPHORES AND MICROSCOPES
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Jan 24 |
Betz/Fadul |
Introduction, tour of LMF (microscope demos by senior trainees) |
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Jan 26 |
Beam/Betz |
Optics (diffraction limit, resolution, illumination, image formation, filter sets), Microscopes (conventional, laser scanning confocal, digital deconvolution, two photon, TIRF, STED-4pi) |
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Feb 2 |
Levinson/Johnson |
Fluorescence (chemistry of fluorophores, excited state, emission and excitation spectra, photobleaching, other fluorescence phenomena) |
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Feb 7 |
Levinson/Palmer |
Fluorophores (exogenous dyes, immunofluorescence, genetically encoded fluorescent proteins) |
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Feb 9 |
Restrepo/Barry |
Image acquisition (CCD cameras, laser scanners), Image processing (enhancement, feature extraction) |
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Feb 14 |
Lab |
The 4 microscopes are:
- Zeiss 510 NLO (two photon) Meta; HP Fluorimeter
- Olympus TIRF
- Deltavision Digital Deconvolution
- Olympus spinning disk
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Feb 16 |
Lab |
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Feb 21 |
Lab |
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Feb 23 |
Lab |
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Feb 28 |
Caldwell/Sather |
FRAP, FLIP, exogenous fluorophores |
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Mar 2 |
Sather/Beam/Dell’Acqua |
FRET |
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Mar 7 |
Barry/Beam |
FCS, FLIM (demo and discussion at 9th Avenue Campus (Moshe Levi’s lab – 4th floor, BRB) |
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Mar 9 |
Dell’Acqua/Ribera |
Fluorescent proteins, tour of transgenic core facility |
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Mar 14 |
TBA |
Other (e.g., 2nd harmonic generation, calcium imaging, quantum dots) |
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Mar 16 |
TBA |
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Mar 28 |
TBA |
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Mar 30 |
TBA |
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Apr 4 |
TBA |
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Apr 6 |
Student presentations |
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Apr 11 |
Student presentations |
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Apr 13 |
Student presentations |
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Apr 18 |
Student presentations |
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Apr 20 |
Lab projects |
Potential Projects (students may also design independent projects)
- Point-spread function: Measure the PSF of two microscopes in the LMF
- Bleedthrough: Given fixed material that is dually stained, measure the amount of emission ‘bleedthrough.’ Compare results with that obtained by using the Zeiss Meta.
- FRET: Measure FRET of cameleon transfected into tissue culture cells.
- FCS: Measure the diffusion coefficient of GFP in tissue culture cells (9th Ave campus), or fluorescent beads in media of different viscosities.
- TIRF: Compare the Brownian movements of fluorescent beads of different sizes. Measure the airy Airy disk of diffraction-limited beads.
- Confocality: Measure the effects on xy axis and z axis resolution by adding or removing the nipkow Nipkow disk in the Olympus spinning disk microscope.
- Image processing: Given an image stack, examine methods of feature extraction (e.g., nodes of Ranvier, secretory granules).
- Photobleach: Compare the effects of various anti-fade’ agents (e.g., Profade, Vectashield,Prolong on bleaching of fluorophores
- Meta (Zeiss) versus fluorimeter: Measure emission spectra with both instruments and compare results
- 2-photon imaging: image GFP transfected motor neurons in zebrafish embryos
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Apr 25 |
Lab projects |
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Apr 27 |
Lab projects |
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May 2 |
Lab projects |
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May 4 |
Student presentations |
Students will analyze results from their laboratory projects, rehearse with appropriate BNAT faculty, and then present their work in class. |
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May 9 |
Student presentations |
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May 11 |
Student presentations |