• Introduction
• 26 min
  1. From DNA to proteins: the multiple levels of regulation

  • Prof. Panagiotis Tsonis
• Chromatin and DNA
• 44 min
  2. Chromatin architecture and alterations in the control of gene regulation

  • Prof. Jeffrey Hansen
• 43 min
  3. Nucleosome dynamics and remodeling

  • Prof. Jonathan Widom
• 25 min
  4. DNA replication

  • Prof. Smita Patel
• Transcription
• 47 min
  5. Nucleotide dependent functioning of bacterial enhancer binding proteins, activators of sigma54 RNA polymerase

  • Prof. Martin Buck
• 44 min
  6. Mechanisms of transcription: the eukaryotic pre-initiation complex

  • Prof. Michael Hampsey
• RNA (I)
• 38 min
  7. Pre-mRNA splicing

  • Prof. Timothy Nilsen
• 60 min
  8. Self-splicing intron RNAs: ribozymes, parasites and agents of genomic change

  • Prof. Anna Marie Pyle
• 47 min
  9. Polyadenylation of mRNA precursors: mechanism, regulation and connections with other cellular processes

  • Prof. James Manley
• 46 min
  10. mRNA capping

  • Prof. Aaron Shatkin
• RNA (II)
• 40 min
  11. Nonsense-mediated and Staufen1-mediated mRNA decay: related pathways of post-transcriptional control in mammalian cells

  • Prof. Lynne Maquat
• 40 min
  12. The silent revolution: an introduction to gene regulation by microRNAs

  • Dr. Frank Slack
• 50 min
  13. RNA editing: changing the code in plants, animals and parasites

  • Prof. Stephen Hajduk
• Proteins
• 18 min
  14. The principle of translation

  • Prof. Joachim Frank
• 17 min
  15. Translation initiation

  • Prof. Patrick Linder
• 47 min
  16. Elongation of protein synthesis: structural basis of the process of decoding

  • Prof. Marina Rodnina
• 40 min
  17. Elongation of protein synthesis: structural basis of the peptide bond

  • Prof. Marina Rodnina
• 44 min
  18. How do proteins fold and why?

  • Prof. Walter Englander
• 55 min
  19. Protein degradation

  • Prof. Alfred Goldberg
• Understanding Global Gene Expression
• 33 min
  20. Comparing transcriptomes of distant organisms: the comparative ENCODE resource 1

  • Prof. Mark Gerstein
• 22 min
  21. Comparing transcriptomes of distant organisms: models of gene expression 2

  • Prof. Mark Gerstein
• 47 min
  22. Protein networks and analysis of global gene expression

  • Dr. Trey Ideker
• Archived Lectures *These may not cover the latest advances in the field
• 42 min
  23. Chromatin and transcription

  • Prof. Roger Kornberg
• 40 min
  24. Nuclear organization and gene expression

  • Prof. David Spector
• 35 min
  25. Gene and protein microarrays: tools for gene discovery and function

  • Prof. Craig R. Tomlinson

Printable Handouts

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Navigable Slide Index

1. Introduction
2. The nucleosome
3. Histone post-translational modifications
4. Histones during transcriptional activation
5. Site specific recombination at the POH5 locus
6. Linking difference due to core particles removal
7. Chromatin remodeling
8. Measurment of relative nucleosome number
9. Nucleosomes retained on activated promotor
10. Nucleosomes are retained with differet probabilities
11. Results of limit nuclease and topology analysis
12. Why fractional value?
13. Two possible mechanisms of nucleosome removal
14. Reversing the order of activation and recombination
15. Results of the order reversing
16. Nucleosome removal: experimnetal results
17. Nucleosome removal: conclusions
18. Histone octamer transfer by the RSC
19. Assembly of transcription machinery
20. RNA polymerase II underlines the central dogma
21. RNA pol-II transcription machinery
22. Regulation of RNA pol II transcription
23. Conserved Mediator subunits
24. Mediator of transcriptional regulation
25. Structure of RNA pol II transcription machinery
26. 2-D protein crystallization
27. Obstacles to x-ray structure determination of pol II
28. Data on structure of pol II
29. Location of atoms of pol II
30. Polypeptide chains of pol II
31. Cleft of pol II
32. The nucleic acids in the transcription complex
33. The clamp
34. Structure of transcribing complex
35. Zoom-in on active center
36. Nucleotide addition cycle
37. Bridge helix structure
38. Surface representaion of the entire pol II
39. Upstream end of the DNA-RNA hybrid
40. Fork loops 1, rudder and lid
41. Transcriptions proteins interactions
42. Pol-II - TFIIB complex: N-termianl domain
43. TFIIB finger domain penetrates the cleft
44. B-finger and DNA-RNA hybrid
45. TFIIB stabilizes an initial transcribing complex
46. TFIIB-transcript competition
47. Pol-II-TFIIB complex: C-terminal domain
48. Structure of C-terminal domain of TFIIB
49. TBP structure
50. DNA bending along pol II surface
51. DNA bending in surface representation
52. Complete transcriptional initiation complex
53. Mechanism of initiation of pol II transcription
54. Modular structure of mediator
55. Conclusions

Topics Covered

• Chromatin remodeling for transcription
• The RNA polymerase II transcription machinery
• Mediator of transcriptional regulation
• Atomic structure of RNA polymerase II and of a transcribing complex
• Structural basis of ribonucleotide addition and transcript elongation
• Structure of a complete pre-initiation complex

Links

Series:

• From DNA to Proteins

Categories:

• Cell Biology
• Genetics & Epigenetics

Talk Citation

Publication History

• Published on October 1, 2007
• Archived on April 17, 2016

Financial Disclosures

• Prof. Roger Kornberg has not informed HSTalks of any commercial/financial relationship that it is appropriate to disclose.