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This is the home of the CH444 - Advanced

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Methods in Biochemistry

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Instructor: Kevin Rice (Keyes 313, x5763, kprice@colby.edu)

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h3. Approximate weekly

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Week of

Lecture Topic

Reading / Textook Chapters

2/3

Introduction / primary literature

Chapter 1

2/8

Model organisms / cell culture / cell fractionation

Chapters 2-4

2/15

Molecular Biology / cloning / genomics

Chapters 5-6

2/22

Electrophoresis / chromotography / protein purification

Chapters 8, 10, & 11

3/1

Enzyme assay development / enzyme mechanisms

Chapter 15

3/8

Mid-term oral presentations

 

3/15

Immunological assays / radioisotope techniques / proteomics

 

3/22

Spring Break

 

3/29

Spectroscopy I

 

4/5

Spectroscopy II

 

4/12

Chemical biology I

 

4/19

Chemical biology II

 

4/26

Final oral presentations

 

5/3

Final oral presentations

 

Mid-term oral presentation schedule (papers to be determined soon)

Date

Presentors

Presented Paper

March 8

Jo / Brit

 

 

Kate / Adam

Ray, K. et al. JMB. 2010, 395, 1102.

March 10

Dave / Jared

Krebs, et al. JMB, v395. pp. 1063-78

 

Solomon / Andrew C

 

March 12

Alex / Andrew T

 

 

Mike

Arunachalam, et al. v393. pp. 66-72

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Primary Literature Resources

Chemistry Resources

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 schedule, Spring 2015

|| Week of \\ || Lecture Topic \\ || Reading / Textook Chapters \\ || Assignments, etc. \\ ||
| 2/9 \\ | Introduction / Model organisms / cell culture / cell fractionation  | Chapter 1-4 \\ | JBC review, due in class \\ |
| 2/16 \\ | Molecular Biology / cloning / genomics | Chapters 5-6 \\ | [Literature search|^LitAssignment15.pdf], due in class \\
JBC review, due in class \\
[Writing assignment 1a|^WriteAssign1a_15.pdf], due by email on 2/20 \\ |
| 2/23 \\ | Electrophoresis / chromatography / protein purification | Chapters 8, 10, 11 \\ | JBC review, due in class \\
[Writing assignment 1b|^WriteAssign1b_15.pdf], due by email on 2/27 \\ |
| 3/2 \\ | In-class writing workshop \\
Enzyme assay development / enzyme mechanisms | Chapter 15 \\ | [Peer review|^PeerReview_15.pdf], due in class \\ |
| 3/9 \\ | Immunological assays / radioisotope techniques | Chapters 7, 14 \\ | JBC review, due in class \\
[Writing assignment 1c|^WriteAssign1c_15.pdf], due by email on 3/11 \\ |
| 3/16 \\ | *Mid-term oral presentations* \\ | | |
| 3/23 \\ | *Spring Break* | \\ | \\ |
| 3/30 \\ | Mass spectroscopy / proteomics | Chapters 9, 12, & 13 \\ | JBC review, due in class \\
[Final project executive summary|^FinalProject_ExecSum_14.docx], due by email on 4/3 \\ |
| 4/6 \\ | *Mid-term examination* \\ | \\ | 1-on1 meetings with Kevin \\ |
| 4/13 \\ | Modern approaches to experimental biochemistry I | TBD \\ | Literature review, due in class \\
Final project introduction, due by email on \\ |
| 4/20 \\ | Modern approaches to experimental biochemistry II | TBD \\ | Literature review, due in class \\
Final project draft, due by email on \\ |
| 4/27 \\ | Modern approaches to experimental biochemistry III | TBD \\ | Final project peer review, due in class \\ |
| 5/4 \\ | *Final oral presentations* \\ | | \\ |
| | | | Final project, due by email on \\ |

h3. Mid-term oral presentation schedule

Oral presentations will be presented in the order given below (unless folks mutually agree to switch).  Each student will choose a paper from the journal linked next to her/his name and email it to Kevin by Monday 3/9.  The requirements are that the paper must be:  1) biochemical in scope, 2) published in 2015, 3) a full paper, not a communication or review, and 4) something about which you are really excited.  Remember, all students will be required to evaluate the others' presentations.  Detailed guidelines and evaluation rubrics [can be viewed here|^MidtermOral_Guidelines_15.pdf].

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|| Order \\ || Presenter \\ || Source Journal || Presented Paper \\ ||
| 1 | Ryan \\ | [Chemistry and Biology|http://www.cell.com/chemistry-biology/] | [Segal, et al.|http://www.sciencedirect.com/science/article/pii/S1074552114004165]\\ |
| 2 \\ | Darcy \\ | [Biochemistry |http://pubs.acs.org/journal/bichaw] | [Ryan, et al.|http://pubs.acs.org/doi/abs/10.1021/bi5011267]\\ |
| 3 \\ | Sam \\ | [Molecular Cancer|http://www.molecular-cancer.com/]\\ | [Tuna, et al.|http://www.molecular-cancer.com/content/14/1/29]\\ |
| 4 \\ | Colin \\ | [Nucleic Acids Research|http://nar.oxfordjournals.org/] | [Beloglazova, et al.|http://nar.oxfordjournals.org/content/43/1/530.full?sid=1ed6b527-a286-41e8-a885-2a778727b148] |
| 5 \\ | Vania \\ | [Molecular and Cellular Biology|http://mcb.asm.org/]\\ | [Sohni, et al.|http://mcb.asm.org/content/35/6/1026.full?sid=b44c7908-f3da-4f72-a795-31eac105b186]\\ |
| 6 \\ | Sarah \\ | [ACS Chemical Biology|http://pubs.acs.org/journal/acbcct] | [Magpusao, et al.|http://pubs.acs.org/doi/abs/10.1021/cb500665r]\\ |
| 7 | Megan \\ | [Journal of Molecular Biology|http://www.sciencedirect.com/science/journal/00222836] | [He, et al.|http://www.sciencedirect.com/science/article/pii/S002228361400374X#]\\ |
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