Functional Genomics Research Stream

Transcription

1 Functional Genomics Research Stream Research Meeting: January 19, 2010 Introduction, Policy Discussion & Scientific Writing

2 histone occupancy histone occupancy histone modification histone occupancy histone modification al

3 histone occupancy histone modification al gene activation histone occupancy histone modification al gene activation gene repression histone occupancy histone modification al gene activation gene repression Which cellular molecules mediate al? Transcription Factors Protein that binds specific DNA sequences controlling the activation or repression of. cis-regulatory sequence start stop

4 Transcription Factors Protein that binds specific DNA sequences controlling the activation or repression of. Transcription Factors Protein that binds specific DNA sequences controlling the activation or repression of. TF start stop TF start stop cis-regulatory sequence cis-regulatory sequence mrna produced AAAAAAAAAAAA One Gene Whole Genome (Saccharomyces cerevisiae has 16 chromosomes + mitochondrial DNA) K TF start stop cis-regulatory sequence mrna produced AAAAAAAAAAAA TF start stop cis-regulatory sequence AAAAAAAAAAAA mrna produced

5 Whole Genome (Saccharomyces cerevisiae has 16 chromosomes + mitochondrial DNA) ,000 Whole Genome (Saccharomyces cerevisiae has 16 chromosomes + mitochondrial DNA) ,000 I II III IV V VI VII VIII IX X XI XII XIII XIV XV XVI M I II III IV V VI VII VIII IX X XI XII XIII XIV XV XVI M Genomics Molecular Biology Simon et al. Serial of al regulators in the yeast cell cycle. Cell (2001) vol. 106 (6) pp Computational Biology

6 Freshman Research Initiative Functional Genomics Research Stream Course UNIQUE Course(s): BIO 205L (49425), BIO 170C (51640) CH 204 (52500), CH 108 (52885) Semester: Spring 2010 Faculty Leader: Dr. Vishy Iyer MBB 3.212a, (512) Research Educator: Dr. Patrick J. Killion PAI 3.04N, (512) Graduate Teaching Assistant: Kristin Benson Doctoral Candidate, De Lozanne Lab Undergraduate Mentors: Lauren Fairchild Linda Liu Alissa Shelton Morgan Williams Sebastien Weyn Course ID Course Description Course UNIQUE BIO 205L LAB EXP BIO: CELL/MOL BIO-FRI BIO 170C CONFERENCE COURSE-FRI CH 204 INTRO TO CHEMICAL PRACT-FRI CH 108 CONFERENCE COURSE-FRI Course Website URL: Course Lecture: Tuesdays, 2:30 to 3:30 PM, WEL Laboratory Location: PAI 2.46 Textbook Online Course Materials Course Website Course Calendar Research Resource Calendars Results Central Blackboard

7 Course Calendar Research Resource Calendars Due Dates Office Hours TA Hours Lab Closures Online protocol for use instructions. Research Resource Calendars Evaluation Standard What You Earn What I Assign University Credit What You Earn What I Assign University Credit > A 4.0 > 70 C > 90 A > C > B > D+ 1.0 > B 3.0 > 60 D 0.67 > 80 B >= D > C < F 0.0 > C 2.0 Online protocol for use instructions.

8 Student Evaluation Research Meetings Research Meeting Attendance 5% Research Meeting Evaluations 10% Laboratory Notebooks 15% Laboratory Hours 10% Research Progress Reports 50% Final Report 10% Official Schedule: Tuesdays, 2:30-3:30 PM, WEL Alternate Session: Tuesdays, 11:00-12:00 PM, WEL Attendance at one session per week is required and recorded 5% of total course grade Research Meeting Evaluations Preparation and participation will occasionally be evaluated Short preparatory documents, simple quizzes at the end of meetings Do not be passive 10% of total course grade Laboratory Notebooks National Brand Computation Notebook (43-648) 75 sheets, quad-ruled (no carbon) Will be evaluated any time... Complete record of your work 15% of your total course grade

9 Laboratory Hours 6 hours required per week 14 weeks in semester 84 hours total (cumulative) General lab hours: 9 AM to 7 PM, weekdays only Lab closed to FG stream on Tuesdays Check course calendar for lab closures 10% of total course grade Laboratory Expectations Resource calendaring system used Productive work when in lab Do not sit and wait on long procedures Plan ahead & think before you act Community work is essential (make notebook entries) Research Progress Reports Section I: Research Fundamentals Section II: Research Practical Skill Assessment Section III: Research Progress & Productivity 50% of total course grade Final Report End of semester, details provided later Do quality Research Progress Reports then Final Report is simple aggregation of results 10% of total course grade

10 Additional Issues Publication Goals Accommodations Academic Integrity Computer Use Office Hours Safety Information Lab Hours This Week Research Progress Report I Safety Contract Online Safety Courses Cell Cycle Background Research Post Draft to Results Central Due: January 26, 2:30 PM (Research Meeting or PAI 3.04N Mailbox) Scientific Writing Goals Fulfill Expectations 1. Fulfill Expectations 2. Persuade 3. Be Clear & Focused 4. Attention to Detail Audience & Format Length Tone Organization Quality

11 Persuade Assert Clearly Avoid Adjectives & Adverbs Audience Structure & Flow (Order of Presentation) Be Clear & Focused Eliminate the Unnecessary (even if it creatively hurts) Simple vs. Complex Word Selection Sentence Structure Descriptions Figures & Pictures Attention to Detail Active Voice, Consistent Person & Tense Varied Transitions & Structure Subject & Verb Agreement Citations Spell & Grammar Check Never Enough Proofreading by Peers Caution: Plagiarism The use or imitation of words, thoughts that are not your own. Difficult to overcome. Advice: Focus on or draw pictures. Advice: Take notes then remove sources of notes from your immediate access.

12 How To Learn More? Study Journal Articles Google Scientific Writing Tutorial Revise, Revise Peer Review