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Printable Handouts
Navigable Slide Index
- Introduction
- Regulatory genomics and systems biology
- Networks in biology
- Outline: Introduction (structure)
- What is transcription and how is it regulated?
- Transcriptional regulatory network organisation
- Network motifs
- Transcriptional networks are scale-free
- Scale-free networks exhibit robustness
- Summary I - introduction
- Outline: time scale of the evolution of species
- How do transcriptional networks evolve?
- Mechanisms for the creation of new genes
- Duplication of the basic unit
- Gene duplication and network growth
- Evolution of the transcriptional regulatory network
- Affects on local and global network structure
- Duplication models and evolution of network motifs
- Evolution of local network structure
- Duplication and evolution of scale free structure
- Evolution of global network structure
- Summary II - time scale of evolution of species
- Outline: time scale of the life of an organism
- Questions concerning the transcriptional network
- Gene regulatory network and expression data
- Back-tracking method to find active sub-networks
- Specific transcriptional networks
- Temporal dynamics of local structure
- Temporal dynamics of global structure (hubs)
- Topological properties
- Summary III - edge dynamics
- Outline: time scale of the life of molecules
- Transcription factors: distinct dynamic properties
- Hierarchical organisation in networks
- Hierarchical organisation of regulatory proteins
- Regulation of proteins within the framework
- Noise in protein levels in a population of cells
- Noise levels of regulatory proteins
- Implication
- Non-genetic variation (1)
- Non-genetic variation (2)
- Phenotypic variability in fluctuating environments
- Differential cell-fate outcome
- Summary IV - node dynamics
- Conclusions - transcriptional networks
- Transcriptional networks are extremely dynamic
- Acknowledgements
- Regulatory genomics and systems biology group
Topics Covered
- Regulatory genomics and systems biology
- Transcriptional networks
- Network motifs
- Scale-free networks
- How transcriptional networks evolve
- Mechanisms for the creation of new genes
- Gene duplication and network growth
- Evolution of local network structure
- Gene regulatory network and expression data
- Back-tracking method to find active sub-networks -Temporal dynamics of local & global structure
- Topological properties
- Dynamic properties
- Hierarchical organisation in networks & of regulatory proteins
- Noise in protein levels
- Non-genetic variation
- Phenotypic variability in fluctuating environments
- Differential cell-fate outcome
- Node dynamics
Talk Citation
Babu, M.M. (2016, November 1). Structure, evolution and dynamics of gene regulatory networks [Video file]. In The Biomedical & Life Sciences Collection, Henry Stewart Talks. Retrieved November 21, 2024, from https://doi.org/10.69645/UGTB2439.Export Citation (RIS)
Publication History
Financial Disclosures
- Dr. M. Madan Babu has not informed HSTalks of any commercial/financial relationship that it is appropriate to disclose.
Structure, evolution and dynamics of gene regulatory networks
A selection of talks on Cell Biology
Transcript
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0:00
Hi my name is Madan Babu,
and I am a group leader at the MRC Laboratory of Molecular Biology in Cambridge, UK.
What I'll do in the next 45 minutes or so is to
talk to you about a problem that we've been working on for the last few years,
which is to understand the structure,
evolution, and dynamics of transcription networks.
Research over the last several decades has
shown that proteins rarely function in isolation.
Instead, they interact with several components,
in the cell to carry out their function.
Taking your adoptive approach to understand how
biological system function has undoubtedly provided us with the wealth of information.
However, to understand how a complex system such as a cell functions,
one needs to go beyond individual proteins and really investigate the set of
all proteins and their interactions to uncover
general principles that govern these complex biological systems.
There are some systems where this is not possible,
and once that system is a transcriptional regulation network,
and this is going to be the topic of my presentation today.
0:59
Before moving on with my presentation,
I'd like to spend a slide describing the work that we do in my group.
My group is basically interested in understanding how regulation is
achieved in cellular systems at different levels of complexity.
We addressed this problem by investigating
regulatory processes that involve protein-protein,
including protein nucleic acid,
and protein small molecule interactions,
at three distinct levels of complexity.
So, at the molecular level,
we aim to discover novel features of regulatory systems,
such as discovering new domains,
and identify function of uncharacterized proteins.
At the systems level,
we aim to understand how the different regulatory processes
influence each other in order to maintain cellular homeostasis.
And finally at the genomic level,
we aim to understand the interplay between regulation, and genome organization.
In today's presentation, rather than focus on one particular problem,
I'll try and give an overview of
several problems pertaining to transcription and regulatory networks.
The set of all interactions mediated by proteins within a cell,