Heatmaps of the gene mutation distributions in oncogene‐signaling blocks for six representative cancer types. Heatmaps of the gene mutation distributions.

Slides:



Advertisements
Similar presentations
GFP‐Sed5p localization defect in sgt2Δ.
Advertisements

DNase‐HS sites are main independent determinants of DNA replication timing Simulations based on genome sequence features (GC content, CpG islands), or.
Principles of using neural networks for predicting molecular traits from DNA sequence Principles of using neural networks for predicting molecular traits.
Summary of clinical and metabolic characteristics.
Statistical analysis of the influence of network regulators on topology clusters in the oleate network. Statistical analysis of the influence of network.
Network topology reflects target gene expression profile and function.
Inferred dynamic model of transcriptional regulatory network.
Hnf4g importance in human colon cancer organoids and regulation of the Hnf4a locus Hnf4g importance in human colon cancer organoids and regulation of the.
(A) Graph depicting interaction between the five regulatory motifs measured by synergy and cooccurrence. (A) Graph depicting interaction between the five.
Sensitivity of RNA‐seq.
Analysis of in silico flux changes along the exponential growth phase: (A) In silico flux changes from 24 to 36 h, from 36 to 48 h, and from 48 to 60 h.
Motif detectability corresponds to the phylogenetic profile of the cognate transcription factor. Motif detectability corresponds to the phylogenetic profile.
Activity flow of the mTOR signaling network.
Epistatic interactions and gene expression variation.
Predicted and measured double‐ring formation.
Functional analysis of duplicate pair CIK1–VIK1 (A) Genetic interaction profile similarity. Functional analysis of duplicate pair CIK1–VIK1 (A) Genetic.
Proteins with hotspot mutations are often in the interaction networks with known cancer driver proteins Proteins with hotspot mutations are often in the.
Tumorigenic attributes of FUT9
Identification of progenitor states in human cord blood hematopoiesis
Mononucleotide models describe sequence‐to‐shape relationships well
Topological overlap matrix (TOM) plots of weighted, gene coexpression networks constructed from one mouse studies (A–F) and four human studies including.
Clustering of CD34+ single cells
Structure of in‐frame deletions.
Comparative analysis of RNA and protein profiles.
HIS-24 regulates expression of infection-inducible genes.
Correlating protein to mRNA and proteins per mRNA ratios
Coupling immunophenotypes to Drop‐seq data
Network derived from large‐scale fractionation predicts 48 protein complexes and communities Network derived from large‐scale fractionation predicts 48.
Hierarchical structure in the yeast transcription regulatory network.
Modules with causal links to ALS are associated with inflammation and enriched with TDP‐43 protein–protein interactions (PPIs)‏ Modules with causal links.
Phosphosite mutations in TP53 correlate with increased patient survival. Phosphosite mutations in TP53 correlate with increased patient survival. (A) ActiveDriver.
Heat maps showing global relative growth phenotype and comparison between measured and predicted values. Heat maps showing global relative growth phenotype.
Networks of ERK substrates.
The transcript profiles in the three human cell lines based on RNA sequencing (RNA‐seq). The transcript profiles in the three human cell lines based on.
Feature‐based COG enrichment analysis
Visualization of a global auxin‐response gradient in the root meristem
Prediction of novel cell cycle inhibitors based on CODIM1.
Properties of proteins and residues with frequent hotspot mutations
Collective shifts of abundance for nuclear and extracellular proteins in colorectal cancer Collective shifts of abundance for nuclear and extracellular.
Characterization of Factor 5 (oxidative stress response factor) in the CLL data Characterization of Factor 5 (oxidative stress response factor) in the.
Analysis of the phosphomimetic ProP‐PD selection results
Francis Crick's central dogma of biology revolves around the transcription of mRNA from DNA, the translation of proteins from mRNA, and the degradation.
Allele‐specific expression at single‐cell resolution
Rational subpopulation manipulation can change TIL anti‐tumor reactivity and is accompanied by a shift in subpopulation signature. Rational subpopulation.
Two‐way unsupervised uncentered unnormalized hierarchical clustering using a Pearson's correlation of the phenotypic profiles of 4281 nonessential genes.
Transcriptomic and epigenetic changes associated with Factor 1 in the scMT data Transcriptomic and epigenetic changes associated with Factor 1 in the scMT.
Static properties of transcription factors (TFs) within the hierarchical framework. Static properties of transcription factors (TFs) within the hierarchical.
Comparison of proteomics and RNA‐Seq data.
Categorizing cell type‐specific auxin responses.
Submodules of the light yellow module define distinct interneuron classes with common developmental origins. Submodules of the light yellow module define.
Simulation showing that the cell length variability of the entire population can mask abnormal cell length variability at a specific cell cycle period.
An integrated NHR network.
Design and optimization of the computational model.
Subnetworks enriched for the hallmarks of cancer.
Network modules correspond to known and novel functional distinctions between neuronal subtypes. Network modules correspond to known and novel functional.
Example transcript and protein patterns.
When grown with biofuel, strains with beneficial pumps dominate the culture. When grown with biofuel, strains with beneficial pumps dominate the culture.
Noise in hoxb1a/krox20 expression leads to boundary sharpening.
Melting behavior of protein complexes
Functional metabolic rearrangements in chloramphenicol‐resistant populations Functional metabolic rearrangements in chloramphenicol‐resistant populations.
The relationship between the genes in mice and human samples
The Mucinous Lung Tumor Signature is highly enriched in colorectal, stomach, pancreatic, lung (adenocarcinoma; LUAD), and breast cancers The Mucinous Lung.
Many of the diseases associated with high coevolution scores share genetic components. Many of the diseases associated with high coevolution scores share.
Intestinal differentiation is coupled with global rewiring of gene expression Intestinal differentiation is coupled with global rewiring of gene expression.
Fraction of flux entering the PEP‐glyoxylate cycle as a function of hexose uptake rate in batch (A) and chemostat (B) cultures. Fraction of flux entering.
Heat map of genes for which CR significantly altered expression versus AL. Cluster analysis of genes significantly changed by the CR intervention compared.
Transcripts enriched and depleted in NB TICs compared with SKPs and other tumor tissues. Transcripts enriched and depleted in NB TICs compared with SKPs.
Two-way, unsupervised hierarchical clustering representing the 60 tumor cell lines (vertical axis) and the analyzed total, phospho- and cleaved proteins.
Clustering analysis of DTC-associated genes.
Molecular definitions of lung adenocarcinoma subtypes.
Presentation transcript:

Heatmaps of the gene mutation distributions in oncogene‐signaling blocks for six representative cancer types. Heatmaps of the gene mutation distributions in oncogene‐signaling blocks for six representative cancer types. Heatmaps for (A) blood, (B) breast, (C) central nervous system, (D) lung, (E) pancreas and (F) skin tumors were built using tumor samples of these cancer types, respectively. Rows represent samples, whereas columns represent oncogene‐signaling blocks. Blocks with gene mutations are marked in yellow; however, when one sample contains statistically significant co‐occurring mutated gene pairs (see Supplementary Table 7), the blocks are marked in red. Qinghua Cui et al. Mol Syst Biol 2007;3:152 © as stated in the article, figure or figure legend