BMCB625

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BMCB625 Advanced Topics in Molecular Biology

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Note

Info Management section updated with Connotea, Crystal Structure Info and (new!) iTunesU on Help page


Course overview

  • Location: BRB 603. Wednesdays from 9:30 - 11:30 (practice and review session) and Thursdays (The Real Thang) from 10:30 - 12:30
  • How the Class Works

Advanced Molecular Biology: Topics and Methods in Modern Molecular Biology. An advanced graduate course with an emphasis on the latest research from the primary literature along with in-depth presentation of the basic concepts of biochemistry and molecular biology. Topics will be chosen from areas of expertise in the Biochemistry and Molecular Biology faculty. Topics will include properties of nucleotides and nucleic acids, the composition and structure of eukaryotic chromatin, eukaryotic gene expression, DNA replication, RNA transcription, RNA splicing and metabolism, and protein translation.

This class is not a faculty-driven lecture class, but is based on student presentations of background material and research papers selected from the current literature. It is designed to maximize active roles for students in each class.

Goals of the Class

  1. encourage students to seize every available resource for sifting and apprehending scientific matter (e.g., Nature podcasts, social bookmarking, RSS feeds, faculty, each other)
  2. develop an appreciation for the molecular machines that duplicate nucleic acids
  3. get familiar with collaborative web-based tools (OWW and wiki)
  4. create ambassadors for open science
  5. improve presentation skills, both in form and scientific content
  6. engage in active group-based learning
  7. gain leadership and organizational experience
  8. build a shared web resource for information obtained in the class


Extras

Thanks

Thanks to David Ransom, OHSU, Ted Weinert, University of Arizona, J. David Castle, U. Va, and many of our OpenWetWare colleagues who have helped inspire and inform development of this course. Special thanks to Reshma Shetty for creating a terrific course template (see help hosting courses).

Recent updates to the course

List of abbreviations:
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24 April 2019

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Desireegonzalez Week 12‎‎ (2 changes | history) . . (+601). . [Desireegonzalez‎ (2×)]

     

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(cur | prev) . . (+312). . Desireegonzalez (talk | contribs) (Questions Refering to the 2007 Tai Research Paper: adding answers)

     

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3D Printing Techniques-Hanna Scher‎‎ (2 changes | history) . . (+62). . [Hscher‎ (2×)]

     

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(cur | prev) . . (-1). . Hscher (talk | contribs) (Fused Deposition (Extrusion) Printing)

     

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(cur | prev) . . (+63). . Hscher (talk | contribs) (Fused Deposition (Extrusion) Printing)

     21:31 (Upload log) . . Hscher (talk | contribs) uploaded File:Mechanical Characterization of PDMS Samples.JPG

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3D Printing Materials-Hanna Scher‎‎ (6 changes | history) . . (+2,063). . [Hscher‎ (6×)]

     

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     18:38  Lee:JC‎ (diff | hist) . . (-2). . Wooin Lee (talk | contribs) (Lab meeting schedule)

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BIOL478/S19:Microarray Data Analysis‎‎ (10 changes | history) . . (+810). . [Kam D. Dahlquist‎ (10×)]

     

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(cur | prev) . . (+79). . Kam D. Dahlquist (talk | contribs) (Modified t test for each timepoint: modify tdist equation)

     

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(cur | prev) . . (+1). . Kam D. Dahlquist (talk | contribs) (Modified t test for each timepoint: add paren)

     

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(cur | prev) . . (+65). . Kam D. Dahlquist (talk | contribs) (Summary list of files you need to turn in to your folder in Box: clarify steps)

     

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(cur | prev) . . (+656). . Kam D. Dahlquist (talk | contribs) (Visualizing Your Gene Regulatory Network with GRNsight: add list of files)

     

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(cur | prev) . . (-19). . Kam D. Dahlquist (talk | contribs) (Identifying regulatory transcription factors responsible for observed changes in gene expression (step 10): clarified a couple of things)

     

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(cur | prev) . . (+32). . Kam D. Dahlquist (talk | contribs) (Visualizing Your Gene Regulatory Network with GRNsight: mention grid layout)

     

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(cur | prev) . . (-2). . Kam D. Dahlquist (talk | contribs) (Comparing results with known data (step 7): elevating heading level)

     

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(cur | prev) . . (0). . Kam D. Dahlquist (talk | contribs) (Clustering and GO Term Enrichment with stem (steps 7-8): changings step number)

     

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(cur | prev) . . (+7). . Kam D. Dahlquist (talk | contribs) (Comparing results with known data: elevating level)

     

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(cur | prev) . . (-9). . Kam D. Dahlquist (talk | contribs) (Clustering and GO Term Enrichment with stem (steps 7-8): change ASH1 to HMO1, uncomment YEASTRACT/GRNsight)

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Austindias Week 12‎‎ (3 changes | history) . . (+112). . [Austindias‎ (3×)]

     

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(cur | prev) . . (+73). . Austindias (talk | contribs) (Conclusion: saved initial conclusion)

     

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(cur | prev) . . (+49). . Austindias (talk | contribs) (saved parameters found in Tai paper)

     15:48  User:Hoang D. Lu‎ (diff | hist) . . (+7). . Hoang D. Lu (talk | contribs) (Select Publications)
     15:29  BIOL388/S19:Class Journal Week 12‎ (diff | hist) . . (+344). . Austindias (talk | contribs) (saved reflection)

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Alison S King Week 12‎‎ (5 changes | history) . . (+912). . [Alison S King‎ (5×)]

     

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(cur | prev) . . (+302). . Alison S King (talk | contribs) (References: referenc)

     

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(cur | prev) . . (+67). . Alison S King (talk | contribs) (Answers from Literature: answered some)

     

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(cur | prev) . . (+48). . Alison S King (talk | contribs) (Answers from Literature: wrote parameters)

     

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(cur | prev) . . (+161). . Alison S King (talk | contribs) (Answers from Literature: answered some)

     

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     13:19 (User creation log) . . User account Zhengjia (talk | contribs) was created by Yar (talk | contribs) and password was sent by email ‎

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McClean:KS Amino Acid Supplement‎‎ (2 changes | history) . . (+360). . [Lauterjung‎ (2×)]

     

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     10:08  BioMicroCenter:BIG meeting‎ (diff | hist) . . (-1). . Huiming Ding (talk | contribs) (2018-2019 academic year)

23 April 2019

     21:20  Alison S King Week 12‎ (diff | hist) . . (+541). . Alison S King (talk | contribs) (Answers from Literature: answered some)

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Nannochloropsis genetic elements‎‎ (3 changes | history) . . (+433). . [Poli‎ (3×)]

     

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(cur | prev) . . (0). . Poli (talk | contribs) (Codon optimization)

     

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(cur | prev) . . (+387). . Poli (talk | contribs) (Codon optimization)

     

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(cur | prev) . . (+46). . Poli (talk | contribs) (Localization peptides)

     17:24 (User creation log) . . User account CoryCasikenquirm (talk | contribs) was created by Yar (talk | contribs) and password was sent by email ‎

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Angela C Abarquez Week 12‎‎ (6 changes | history) . . (+471). . [Angela C Abarquez‎ (6×)]

     

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(cur | prev) . . (+58). . Angela C Abarquez (talk | contribs) (added second file)

     

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(cur | prev) . . (0). . Angela C Abarquez (talk | contribs) (edit format)

     

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(cur | prev) . . (+2). . Angela C Abarquez (talk | contribs) (edit file format)

     

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(cur | prev) . . (+105). . Angela C Abarquez (talk | contribs) (added link to box)

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. . Angela C Abarquez (talk | contribs) uploaded File:AA chemostat 2nutrient script.m.zip(script MATLAB file)

     

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. . Angela C Abarquez (talk | contribs) uploaded File:AA chemostat 2nutrient dynamics.m.zip(Matlab dynamics file)