Using the principle of entropy maximization to infer genetic interaction networks from gene expression patterns (Q35539757)

8 August 2017

Using the principle of entropy maximization to infer genetic interaction networks from gene expression patterns (English)

1 reference

8 August 2017

4

Amos Maritan

1 reference

8 August 2017

3

Marek Cieplak

1 reference

8 August 2017

2

Jayanth R Banavar

1 reference

8 August 2017

5

Nina V Fedoroff

1 reference

8 August 2017

Timothy R Lezon

1

1 reference

PubMed ID

17138668

8 August 2017

language of work or name

English

0 references

publication date

30 November 2006

1 reference

Proceedings of the National Academy of Sciences of the United States of America

8 August 2017

1 reference

8 August 2017

103

1 reference

8 August 2017

19033-19038

1 reference

8 August 2017

50

1 reference

Nutrient regulates Tor1 nuclear localization and association with rDNA promoter.

8 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

MMI1 (YKL056c, TMA19), the yeast orthologue of the translationally controlled tumor protein (TCTP) has apoptotic functions and interacts with both microtubules and mitochondria

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Metabolic cycle, cell cycle, and the finishing kick to Start

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Weak pairwise correlations imply strongly correlated network states in a neural population

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Characterization of the 26S rRNA-binding domain in Saccharomyces cerevisiae ribosomal stalk phosphoprotein P0.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Uth1p: a yeast mitochondrial protein at the crossroads of stress, degradation and cell death

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Nutritional homeostasis in batch and steady-state culture of yeast

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Inferring cellular networks using probabilistic graphical models

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

A genomewide oscillation in transcription gates DNA replication and cell cycle

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Multi-level response of the yeast genome to glucose

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Chromatin-mediated regulation of nucleolar structure and RNA Pol I localization by TOR

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Nutrient Signaling Through TOR Kinases Controls Gene Expression and Cellular Differentiation in Fungi

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Genetic and biochemical interactions between the Arp2/3 complex, Cmd1p, casein kinase II, and Tub4p in yeast

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Inferring genetic networks and identifying compound mode of action via expression profiling

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Nicotinamide and PNC1 govern lifespan extension by calorie restriction in Saccharomyces cerevisiae

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Reverse engineering gene networks: Integrating genetic perturbations with dynamical modeling

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

The tor pathway regulates gene expression by linking nutrient sensing to histone acetylation

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Functional transcriptomes: comparative analysis of biological pathways and processes in eukaryotes to infer genetic networks among transcripts.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

A comparative review of statistical methods for discovering differentially expressed genes in replicated microarray experiments

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Reverse engineering gene networks using singular value decomposition and robust regression

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Inference of a genetic network by a combined approach of cluster analysis and graphical Gaussian modeling.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Probabilistic Boolean Networks: a rule-based uncertainty model for gene regulatory networks.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Integrated genomic and proteomic analyses of a systematically perturbed metabolic network

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

The TOR kinases link nutrient sensing to cell growth

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Arp2/3 complex and actin dynamics are required for actin-based mitochondrial motility in yeast

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Using Bayesian networks to analyze expression data

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Genetic network inference: from co-expression clustering to reverse engineering

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Mutual information relevance networks: functional genomic clustering using pairwise entropy measurements

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Kinetic analysis of a molecular model of the budding yeast cell cycle

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Cluster analysis and display of genome-wide expression patterns

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

The 14-3-3 proteins positively regulate rapamycin-sensitive signaling

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Reveal, a general reverse engineering algorithm for inference of genetic network architectures.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Exploring the metabolic and genetic control of gene expression on a genomic scale

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

TOR mutations confer rapamycin resistance by preventing interaction with FKBP12-rapamycin.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Constructing biological networks through combined literature mining and microarray analysis: a LMMA approach.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Coordinate regulation of multiple and distinct biosynthetic pathways by TOR and PKA kinases in S. cerevisiae

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Logic of the yeast metabolic cycle: temporal compartmentalization of cellular processes.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

An empirical Bayes approach to inferring large-scale gene association networks.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

Algorithms for identifying Boolean networks and related biological networks based on matrix multiplication and fingerprint function.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1748172

A Mathematical Theory of Communication

26 September 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0609152103

Information Theory and Statistical Mechanics

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0609152103

Information Theory and Statistical Mechanics. II

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0609152103

Information theory explanation of the fluctuation theorem, maximum entropy production and self-organized criticality in non-equilibrium stationary states

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0609152103

Induction and elimination of oscillations in continuous cultures of Saccharomyces cerevisiae

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17138668

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Ssa1p chaperone interacts with the guanine nucleotide exchange factor of ras Cdc25p and controls the cAMP pathway in Saccharomyces cerevisiae

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17138668

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

A potential mechanism of energy-metabolism oscillation in an aerobic chemostat culture of the yeast Saccharomyces cerevisiae

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17138668

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1073/PNAS.0609152103

1 reference

8 August 2017

0 references

1 reference

8 August 2017

1 reference

PubMed ID

17138668