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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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CH444 Syllabus
Kevin's Calendar

Weekly class assignments

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CH444 message board
Final Project information
Information on writing assignments
Primary Literature / Vendor Resources

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Wiki Markup
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h3. Approximate weekly schedule,

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Week of

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Lecture Topic

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Reading / Textook Chapters

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Assignments, etc.

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2/10

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Introduction / Model organisms / cell culture / cell fractionation 

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Chapter 1-4

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JBC review, due in class

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2/17

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Molecular Biology / cloning / genomics

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Chapters 5-6

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Literature search, due in class
JBC review, due in class
Writing assignment 1a, due by email on 2/21

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2/24

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Electrophoresis / chromatography / protein purification

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Chapters 8, 10, 11

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JBC review, due in class
Writing assignment 1b, due by email on 2/28

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3/3

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In-class writing workshop
Enzyme assay development / enzyme mechanisms

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Chapter 15

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Peer review, due in class
Writing assignment 1c, due by email on 3/7

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3/10

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Immunological assays / radioisotope techniques

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Chapters 7, 14

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JBC review, due in class

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3/17

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Mid-term oral presentations

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3/24

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Spring Break

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3/31

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Mass spectroscopy / proteomics

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Chapters 9, 12, & 13

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JBC review, due in class
Final project executive summary, due by email on 4/4

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4/7

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Mid-term examination

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1-on1 meetings with Kevin

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4/14

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Modern approaches to experimental biochemistry I

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TBD

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Literature review, due in class
Final project introduction, due by email on 4/18

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4/21

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Modern approaches to experimental biochemistry II

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TBD

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Literature review, due in class

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4/28

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Modern approaches to experimental biochemistry III

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TBD

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Literature review, due in class
Final project draft, due by email on 5/2

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5/5

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Final oral presentations

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Final project, due by email on 5/18

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 Monday 3/10.  The requirements are that the paper must be:  1) biochemical in scope, 2) published in 2014, 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.  You will be able to preview the evaluation.

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Order

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Presenter

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Source Journal

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Presented Paper

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1

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Thabiso

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Chemistry and Biology

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2

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Eddie

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Biochemistry

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3

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Dylan

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Molecular Cancer

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4

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Justin

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Molecular Cell

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6

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Katie

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Molecular and Cellular Biology

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7

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Juan

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ACS Chemical Biology

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Search CH444 Wiki

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Page Tree Search

 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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