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cleverMachine and cleverClassifier models available to the community.


CM

CC

Description

Alpha-helix vs. beta-sheet (Bernstein) by Petr Klus
link - Alpha-helix vs. beta-sheet model/training

run classifier

- link Alpha-helix rich proteins vs. alphabeta model
- link Beta sheet rich proteins vs. alphabeta model
mRNA-binding interactome in H. sapiens (Castello) by Petr Klus
link - mRNA-binding interactome in H. sapiens (Castello) training/model

run classifier

- link mRNA binding proteins (Baltz) vs. mRNA binding proteins (Castello)
- link proteins not binding mRNA (Shazman) vs. mRNA binding proteins (Castello)
Structurally disordered proteins by Petr Klus
link - Structurally disordered proteins training/model (Sickmeier)

run classifier

- link Prions vs. disorder model (Alberti)
- link Structured proteins vs. disorder model (Tartaglia)
E. coli solubility by Petr Klus
link - E. coli solubility model/training (Niwa)

run classifier

- link Independently folding proteins (Tartaglia) vs. solubility model
- link Chaperone-dependent proteins vs. solubility model
Chaperone-dependent proteins by Petr Klus
link - Chaperone-dependent proteins model/training (Kerner)

run classifier

- link DnaK/GroEL dependent proteins vs. chaperone model
- link Independently folding proteins (Tartaglia) vs. chaperone model
E. Coli and H. Sapiens full proteome analysis by Petr Klus
link - E. Coli and H. Sapiens full proteome analysis



multiCleverMachine models available to the community.


multiCM

Description

link Physico-chemical properties of proteins involved in cancer and central-nervous-system diseases

run classifier

link S. cerevisiae chaperone substrates

run classifier

link Low solubility and high solubility proteins in H. sapiens, M. musculus and S. cerevisiae

run classifier

link Analysis of daf-2 insoluble fractions in C. elegans

run classifier

link Analysis of hsf-1 insoluble fractions in C. elegans

run classifier



The authors listed are usually the CM/CC users - they may not be the authors of the submitted datasets. Please contact the respective authors for more details.



cleverSuite performances at a glance

For more information, please see the full cleverSuite paper.

References

  • Baltz, A.G. et al. (2012) The mRNA-Bound Proteome and Its Global Occupancy Profile on Protein-Coding Transcripts. Molecular Cell, 46, 674–690.

  • Castello, A. et al. (2012) Insights into RNA Biology from an Atlas of Mammalian mRNA-Binding Proteins. Cell, 149, 1393–1406

  • Shazman,S. and Mandel-Gutfreund,Y. (2008) Classifying RNA-Binding Proteins Based on Electrostatic Properties. PLoS Comput Biol, 4, e1000146.

  • Bernstein,F.C. et al. (1977) The Protein Data Bank: a computer-based archival file for macromolecular structures. J. Mol. Biol., 112, 535–542

  • Sickmeier,M. et al. (2007) DisProt: the database of disordered proteins. Nucleic Acids Res., 35, D786–D793.

  • Alberti,S. et al. (2009) A systematic survey identifies prions and illuminates sequence features of prionogenic proteins. Cell, 137, 146–158.

  • Tartaglia,G.G. and Vendruscolo,M. (2010) Proteome-level interplay between folding and aggregation propensities of proteins. J. Mol. Biol., 402, 919–928.

  • Niwa,T. et al. (2009) Bimodal protein solubility distribution revealed by an aggregation analysis of the entire ensemble of Escherichia coli proteins. Proc. Natl Acad. Sci. USA, 106, 4201–4206.

  • Kerner,M.J. et al. (2005) Proteome-wide analysis of chaperonin-dependent protein folding in Escherichia coli. Cell, 122, 209–20.