System biology
Download
1 / 38

System Biology - PowerPoint PPT Presentation


  • 117 Views
  • Uploaded on

System Biology. Gustavo de Souza IMM, OUS. October 2013. Scrutinizing global changes. Reductionism VS Holism. The study of biology through systematic perturbation, global read-out of the multifaceted and integration of these data to formulate predictive models.

loader
I am the owner, or an agent authorized to act on behalf of the owner, of the copyrighted work described.
capcha
Download Presentation

PowerPoint Slideshow about ' System Biology' - kennan


An Image/Link below is provided (as is) to download presentation

Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author.While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server.


- - - - - - - - - - - - - - - - - - - - - - - - - - E N D - - - - - - - - - - - - - - - - - - - - - - - - - -
Presentation Transcript
System biology

System Biology

Gustavo de SouzaIMM, OUS

October 2013



Reductionism VS Holism

The study of biology through systematic perturbation, global read-out of the multifaceted and integration of thesedata to formulate predictive models

Ideker et al., Annu. Rev. Genomics Hum. Genet. 2:343-72, 2001.



Integrating expression data

Ge H et al., 2003.


Comparing data

Ge H et al., 2003.


Strategy

Ge H et al., 2003.


System Biology in Immunology

Amit I et al., 2011


System Biology in Immunology

Amit I et al., 2011


System Biology in Immunology

Amit I et al., 2011


Obvious Challenges

  • Signal VS Noise

  • Biologically relevant VS random effect

  • Integration of discovery- and hypothesis-driven science

  • Integration of technology – biology - computation




Proteomics capacity as a System Biology tool

Proteomics can reach 86%of Ids predicted by transcriptomics

At the cost of 12 days of analysis


Characterization of 11 cell lines

Geiger T et al., 2012




Proteomics flex its muscle

Mann et al., 2013


Take home message

  • System biology is a post-genomic field that focus in global changes within a system.

  • Depends heavily on computational approaches (measurement, statistical validation, integration of thousands of components)

  • Proteomics is still “under development” compared to Genomics/transcriptomics, but has almost comparable throughput in recent years


Advanced proteomics

Advanced Proteomics

Gustavo de SouzaIMM, OUS

October 2013



Relevance of the Proteome

If a gene is transcripted andits mRNA levels goes up, doesthat necessarily means theprotein level that the mRNAtranslates also goes up?





Super-SILAC

Geiger T et al., 2010


Spike-In SILAC

Geiger T et al., 2013






Take home message

- As a descriptive data, proteomics is almost as throughput as transcriptomics (the catch 22 is: it does require very high level of expertise to perform proteomics at higher standards).

- Proteomics is arguably more appropriate than transcriptomicsto elucidate functional studies.


ad