Ideker Lab - UC San Diego
  • Upload

  • Log in

  • Sign up

Search on MyScienceWork
News Publications Members

Publication search

Sort by
  • Relevance
  • Published Date

Integrated genomic and proteomic analyses of a systematically perturbed metabolic network.

Trey Ideker Thorsson, V Ranish, Ja Christmas, R Buhler, J Eng, Jk Bumgarner, R Goodlett, Dr Aebersold, R Hood, L ...

Published in Science

We demonstrate an integrated approach to build, test, and refine a model of a cellular pathway, in which perturbations to critical pathway components are analyzed using DNA microarrays, quantitative proteomics, and databases of known physical interactions. Using this approach, we identify 997 messenger RNAs responding to 20 systematic perturbations...

Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast.

A, Roguev S, Bandyopadhyay M, Zofall K, Zhang T, Fischer Sr, Collins H, Qu M, Shales Ho, Park J, Hayles ...

Published in Science

An epistasis map (E-MAP) was constructed in the fission yeast, Schizosaccharomyces pombe, by systematically measuring the phenotypes associated with pairs of mutations. This high-density, quantitative genetic interaction map focused on various aspects of chromosome function, including transcription regulation and DNA repair/replication. The E-MAP u...

Rewiring of genetic networks in response to DNA damage.

Jaehnig, Ej Bodenmiller, B Kate Licon Copeland, W Shales, M Fiedler, D Dutkowski, J Guénolé, A Van Attikum, H Shokat, Km ...

Published in Science

Although cellular behaviors are dynamic, the networks that govern these behaviors have been mapped primarily as static snapshots. Using an approach called differential epistasis mapping, we have discovered widespread changes in genetic interaction among yeast kinases, phosphatases, and transcription factors as the cell responds to DNA damage. Diffe...

Exome sequencing links corticospinal motor neuron disease to common neurodegenerative disorders.

Novarino, G Fenstermaker, Ag Zaki, Ms Hofree, M Silhavy, Jl Heiberg, Ad Abdellateef, M Rosti, B Scott, E Mansour, L ...

Published in Science

Hereditary spastic paraplegias (HSPs) are neurodegenerative motor neuron diseases characterized by progressive age-dependent loss of corticospinal motor tract function. Although the genetic basis is partly understood, only a fraction of cases can receive a genetic diagnosis, and a global view of HSP is lacking. By using whole-exome sequencing in co...

A systems approach to mapping DNA damage response pathways.

Workman, Ct Mak, Hc Mccuine, S Tagne, Jb Agarwal, M Ozier, O Begley, Tj Samson, Ld Trey Ideker

Published in Science

Failure of cells to respond to DNA damage is a primary event associated with mutagenesis and environmental toxicity. To map the transcriptional network controlling the damage response, we measured genomewide binding locations for 30 damage-related transcription factors (TFs) after exposure of yeast to methyl-methanesulfonate (MMS). The resulting 52...

Powered by Polaris
  • About the Lab
  • Our Research
  • FAQ