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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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Final Project information
Information on writing assignments
Primary Literature / Vendor Resources

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h3. Approximate weekly

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Week of

Lecture Topic

Reading / Textook Chapters

2/2

Introduction / primary literature

Chapter 1

2/7

Model organisms / cell culture / cell fractionation

Chapters 2-4

2/14

Molecular Biology / cloning / genomics

Chapters 5-6

2/21

Electrophoresis / chromotography / protein purification

Chapters 8, 10, & 11

2/28

Enzyme assay development / enzyme mechanisms

Chapter 15

3/7

Mid-term oral presentations

 

3/14

Immunological assays / radioisotope techniques / proteomics

Chapters 7 & 14

3/21

Spring Break

 

3/28

Spectroscopy

Chapters 9, 12, & 13

4/4

Novel approaches to experimental biochemistry I

 

4/11

Novel approaches to experimental biochemistry II

 

4/18

Novel approaches to experimental biochemistry III

 

4/25

Novel approaches to experimental biochemistry IV

 

5/2

Final oral presentations

 

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 Kevin by Wednesday 3/2.  The requirements are that the paper must be:  1) biochemical in scope, 2) published in 2011, 3) a full paper, not a communication or review, and 4) something about which you are really excited.  For a more complete set of expectations, click the link below.  Remember, all students will be required to evaluate the others' presentations.  You should preview the evaluation for to get further clues as to the means of assessment.

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Oral presentation guidelines  -  Oral presentation evaluation form

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Date

Presenter

Source Journal

Presented Paper

March 7

Ian

Chemistry and Biology

Wang et al.

 

Elaura

Biochemistry

Raychaudhury et al.

March 9

Alex

ACS Chemical Biology

 

 

Emily

PNAS

 

March 11

Lindsay

Nucleic Acids Research

Scoumanne et al.

 

David

Molecular Cell

 

March 14

Roxy

EMBO Journal

 

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Primary Literature 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].

h6.


|| 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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