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LECTURES: MON, 10-11:40 AM pm Davis 223* *unless different room/day/time noted Instructor: Dr. E. Wurtzel See Blackboard for weekly course study questions |
LABS:
TUES, 10-1:40 PM, * *unless different room/day/time noted Instructor: Rena Quinlan |
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| Jan 30 | Lecture
1: Protein Structure & Function
(1-3) Begin weekly course study questions. |
31 | Introduction
and lab tour Davis Hall 223 |
| Feb 6 |
Lab
#5A: Bioinformatics
and Internet Tools (Medline Searching, Molecular Biology Tools) Class will take place in Davis Hall 223 |
7 | Lab #5B: Bioinformatics and Internet Tools (continued) Davis Hall 223 |
|
13 NO CLASS |
14 |
Lab
#5C: Bioinformatics
and Internet Tools (continued)
Independent projects Davis Hall 223 |
|
|
20 NO CLASS |
21 "MON" |
Lab
#1: Basic
Techniques- Measurements
lab handout in class appendix for lab |
|
| 27 | Lab #2:Plasmid DNA preparation |
28
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Lab #3: Restriction digestion and gel electrophoresis Semilog paper: 10 division |
|
Mar 5
|
Lecture
2: DNA Structure/DNA Replication (4.1;
4.5; 5: 187-188)
DNA sequencing VIDEO Next generation sequencing_review
|
6 | Lab #4: Cloning and Transformation |
| 12 | Lecture 3: Gene Structure, Transcription, and Translation (4.2-4.4; 7.1) | 13 |
Lab
#6: Polymerase
Chain Reaction
Recommended Reading: Chapter 1 ("Optimization of PCRs") in PCR Protocols. A Guide to Methods and Applications (Innis et al., editors). Academic Press 1990. (PCR animation) |
| 19 | Lecture 4: Cell Culture and Viruses (4.7; 9.5) (Read 19.1-19.6 as review in cell biology) | 20 | Lecture 5: Recombinant DNA Techniques (5) Davis 223 |
| 26 | Lecture 6: Transgenic organisms (5) | 27 |
Lecture
7:
Gene structure & Davis 223 |
| April 2 | COURSE REVIEW for midterm- bring questions! | 3 |
MIDTERM
EXAM (lectures 1-6)
The exam will be based on course study questions! Davis 223
|
| 9 NO CLASS |
|
10 NO CLASS |
|
| 16 |
Lecture
8:
Transcription initiation (7) DEADLINE! to submit articles for presentations |
17 |
Lab
#9A:SDS-PAGE
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| 23 | Lecture 9: Transcription termination, splicing and post-transcriptional control (8) | 24 |
Lab
#9B:
Western
Blotting and immunodetection
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| 30 | Lecture 10: Gene control in development (21.2-21.4; 22) ABC model; model update | May 1 | Set up for (lecture) presentations- bring journal article pdf and PowerPoint file plus hard copy of article to class. |
| 7 |
Research presentation "Discoveries for obtaining sustainable agricultural solutions to global vitamin A deficiency" reading: link Read Cuttriss et al. (2011). |
8 | PowerPoint Presentations of journal article- Davis 223 |
| 14 |
Lab posters for presentation: Bring hard copy for presentation and PowerPoint file for submission to instructor. |
15 | Meet with lab instructor for final evaluations- Davis 223 |
| May 21 |
FINAL exam 10 AM- noon |
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| MOLECULAR BIOLOGY- (Professor Wurtzel) Office hours: Contact Dr. Wurtzel by electronic mail (e-mail): wurtzel@lehman.cuny.edu Send an e-mail message to ask brief questions or to request an appointment for additional help. Also, see Dr. Wurtzel after class to make appointments. Lab instructor: Rena Quinlan rena_q@hotmail.com |
| TEXTS: 1. Molecular Cell Biology, Sixth Edition (Lodish, Berk, Kaiser, Krieger, Scott, Bretscher, Ploegh,Matsudaira,), W.H. Freeman, NY 2008. 2. Companion web site for many text resources: http://bcs.whfreeman.com/lodish6e/ |
| OTHER RESOURCES: 1. Access the Lehman Molecular Biology server for up to date info on this course: http://maize.lehman.cuny.edu/ The syllabus is hyperlinked to useful ancillary reading materials and information resources. Information will be added and updated throughout the semester. 2. Current Protocols in Molecular Biology -internet access- available in the library. 3. Background texts. Go to the NCBI Bookshelf. |
| COURSE REQUIREMENTS: EXAMS: One midterm and a cumulative final. PRESENTATIONS: Students will prepare and present a PowerPoint presentation of a recent (less than one year old) primary literature journal article. One week before you present, submit a copy of your presentation on CD or on flash drive together with the journal article (pdf) used for the poster. Presentations will be in alphabetical order during the designated sessions. See PRESENTATION INSTRUCTIONS below. LAB poster PRESENTATION: Students should choose one lab or related labs and present the data in poster created using PowerPoint. You must submit the PowerPoint file containing all the pages of the poster and print out a copy for a 5'oral presntation in class. See instructions below. LAB notebook: Students will be required to keep a lab notebook with lab methods and results. These will be checked weekly. |
| GRADING POLICY: Grades will be based on (approximate %): Midterm and Final Exam (50%); Lab grade (30%); PowerPoint slide presentation of recent journal article (10%) and its in-class slide presentation (10%) +/- other factors (class participation, effort, preparation for lab experiments, and attendance). ****Late material will not be accepted! No makeups for exams or labs! Grading will be based on lecture (70%) and lab (30%): 70% Lecture- comprised of: Midterm and Final Exam (50%) PowerPoint slide presentation of recent journal article (10%) and its in-class slide presentation (10%) 30% Lab-comprised of: Lab notebook (5%) Lab poster and presentation (15%) Preparation for lab experiments, collaboration, and attendance (10%). |
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PRESENTATION INSTRUCTIONS: Students must prepare a Microsoft PowerPoint presentation based on one recent article chosen from a primary journal and present it to the class within 15 minutes. Review articles are not permitted. Step 1: Find an article to present. The journal must be "peer-reviewed" and have an impact factor of at least 3. The article must have been published within the past year. and should not be a "review". Use articles from "primary" journals such as: Science; Nature; Cell; Plant Physiology; The Plant Cell; Proceedings of the National Academy of Sciences, USA. Here is also a link to a long list of journals; other freely accessible journals Also check this useful journal site from CSHL : LINK Lehman Library access to journals on the Internet ; MEDLINE. Step 2: Get approval: Submit a PDF file of the complete article to Dr. Wurtzel for approval (see syllabus for deadline). This can be sent by e-mail. Please send only one article at a time for approval. See this link for an example of what a PDF file should look like. Once the paper is approved, provide a hard copy version to Dr. Wurtzel. Step 3: Prepare a presentation written in your own words! BIO 420: prepare a maximum of 12, and no less than 8 slides. BIO 642: prepare a maximum of 24, and no less than 16 slides. Name the file with your last name and course number and semester (ie. wurtzel_BIO420_Spring2011.ppt) Make images and type as large as possible to fill the screen. Keep words to a minimum. The presentation will consist of the following slides. A. "TITLE" which should include the following- title of paper; journal, volume, page numbers, year; authors and institution; your name and email link. B. General background- why the topic is of interest and other information to understand the research. C . Introduction of the research (Hypothesis and Specific Aims) D. BIO 420: Data for at least 2 key experiments. The experiments you will describe should be chosen with care. Make sure that they are the key experiments in the paper. BIO642: Describe all key experiments (>4). The experiments you will describe should be chosen with care. Make sure that they are the key experiments in the paper. E. Summary of results of the other experiments F. Conclusions G. Future DirectionsStep 4: One week before presentation (see date on syllabus): Bring the PowerPoint presentation file (named with the format: "yourlastname_Spring2011.ppt"), the article pdf and a hard copy of the journal article to class. All presentations will be collected by the course assistant onto one CD. You must check your presentation on this day; no changes to the slide presentation can be made after this session. Step 5: Presentation: You will have 15 minutes (BIO 420) or 30 minutes (BIO642) to present your presentation to the class followed by a 5 minute (BIO 420) or 10 minutes (BIO642) student discussion period. The time limit is strict; practice beforehand using the timer in PowerPoint (Go to "SlideShow....Rehearse Timing")! Begin your presentation by giving the article title and journal. Go through each slide, pointing to the slide, but making contact with the audience (do not prepare slides for just reading) Describe the 2 (BIO 420) or >4 (BIO642) key experiments in detail, summarize the other experiments, and go over the conclusions made in the paper. (Do not present a separate methods section of all methods used in the paper; instead, precede each experiment with methods as appropriate). You should also mention future directions of the work. The other students are expected to participate and ask questions. Here is a link on how to make an effective presentation: You tube video: Susan McConnell: Designing effective scientific presentations |
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LAB POSTER and presentation
Instructions: Students should
choose one lab or related labs and present the data in a "poster" created using
PowerPoint. You must submit the PowerPoint file containing all the pages of the
poster. Each of the pages should also be printed out and taped to
the lab wall for a 5 minute presentation on the designated day. To prepare the
poster, use PowerPoint to create separate "slides" (using page format of 8.5 in
x 11.5 in) for the following pages. Please refer to the video links below on
tips to make an effective poster. Your poster should include the following
pages. 1. Title (includes title and author). 2. Abstract 3. Introduction 4. Methods 5. Results (include data from the lab- such as restriction enzyme digest or western blot) 6. Discussion (of your results- what do the results mean? If the experiment did not work, what else would you try? What are other methods that could be used for this analysis? 7. Summary. 8. References. 9. Acknowledgments. (Where was this project conducted and in what course? Who were the instructor(s) that helped to train you?______________________________________________________________________________________________________________ Here are some links on effective ways to make a scientific poster- You tube videos- Tips for Creating a Scientific Poster Making an academic research poster using Power Point How to make a Great Scientific Poster to Present at Research Symposium of College of Optometrists Written Directions- How to Make a Great Poster (ASPB) |