Protein Complexes
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Protein Complexes
Identifying protein complexes in PPI networks is very important for understanding the structure and function of fundamental cellular nets.
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The 'weakest link' in the aging proteome

The 'weakest link' in the aging proteome | Protein Complexes | Scoop.it
Proteins are the chief actors in cells, carrying out the duties specified by information encoded in our genes.
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“Drug Deal” Network Analysis with Gephi (Tutorial)

“Drug Deal” Network Analysis with Gephi (Tutorial) | Protein Complexes | Scoop.it

"If you had a big dataset that you prepped into a trimmed nearest neighbors graph, keep in mind that visualizing it in Gephi is just for fun. It’s not necessary for actual insight regardless of what the scads of presentations of tweets-spreading-as-visualized-in-Gephi might tell you (gag me). You just need to do the community detection piece. You can use Gephi for that or the libraries it uses. R and python both have a package called igraph that does this stuff too. Whatever you use, you just need to get community assignments out of your large dataset so that you can run things like the aggregate analysis over them to bubble up intelligence about each group."


Via ukituki, Zayd
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Proteome Science | Abstract | Protein complex detection with semi-supervised learning in protein interaction networks

Protein-protein interactions (PPIs) play fundamental roles in nearly all biological processes. The systematic analysis of PPI networks can enable a great understanding of cellular organization, processes and function.
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Free eBooks Download: Computational Systems Bioinformatics ...

Free eBooks Download: Computational Systems Bioinformatics ... | Protein Complexes | Scoop.it
The contributions span a wide range of topics, including computational genomics and genetics, protein function and computational proteomics, the transcriptome, structural bioinformatics, microarray data analysis, motif ...
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MDMKDD 2013 : The Thirteenth International Workshop on ...

MDMKDD 2013 : The Thirteenth International Workshop on ... | Protein Complexes | Scoop.it
Emerging technology of multimedia data mining for mobile applications. * Emergent semantics analysis and topic detection from inter-related multimedia objects. * Social-based business leveraging multimedia (e.g., social graph mining, social ...
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A Virus That Saves Itself By Preventing Bacterial Suicide | 80beats | Discover Magazine

A Virus That Saves Itself By Preventing Bacterial Suicide | 80beats | Discover Magazine | Protein Complexes | Scoop.it

"Bacteria sometimes commit suicide for the good of the group. When a virus infects a bacterium, the cell kills itself rather than allow the virus to replicate inside it and spread to the surrounding bacteria.
The way this works is that when viruses aren’t around, the bacteria manufacture both a bacterial cyanide pill—a toxin molecule they could use to wipe themselves out if they come under attack—and an antitoxin molecule that keeps the toxin in check. When a virus infects the bacterium, the toxin is released, kills the bacterial cell, and prevents the virus from spreading to other cells. It’s bad for the individual bacterial cell but good for the community—and certainly bad for the infecting virus. Now researchers have found a virus that manipulates this mechanism for its own means, saving itself by keeping its host bacteria from cellular suicide."

 

Clever little things, viruses...B-)


Via Ed Rybicki, Pedro Fernandes
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BMC Genomics | Full text | Computational approaches for detecting protein complexes from protein interaction networks: a survey

Most proteins form macromolecular complexes to perform their biological functions.
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Managing and Mining Graph Data (Advances in Database Systems ...

Managing and Mining Graph Data (Advances in Database Systems ... | Protein Complexes | Scoop.it
Managing and Mining Graph Data is a comprehensive survey book in graph data analytics. It contains extensive surveys on important graph topics such as graph languages, indexing, clustering, data generation, pattern ...
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