Gene clustering based on clusterwide mutual information.

Transcriptional profiling reveals developmental relationship and distinct biological functions of CD16+ and CD16- monocyte subsets. BMC Genomics (2009) 1.86

Inference of disease-related molecular logic from systems-based microarray analysis. PLoS Comput Biol (2006) 1.33

Gene regulatory network reconstruction using conditional mutual information. EURASIP J Bioinform Syst Biol (2008) 1.30

Genome-wide analysis of a Wnt1-regulated transcriptional network implicates neurodegenerative pathways. Sci Signal (2011) 1.03

Reverse engineering sparse gene regulatory networks using cubature kalman filter and compressed sensing. Adv Bioinformatics (2013) 0.87

A modulator based regulatory network for ERα signaling pathway. BMC Genomics (2012) 0.81

Genetic association studies: an information content perspective. Curr Genomics (2012) 0.81

Constraint-based analysis of gene interactions using restricted boolean networks and time-series data. BMC Proc (2011) 0.81

Gene regulatory networks inference using a multi-GPU exhaustive search algorithm. BMC Bioinformatics (2013) 0.81

A combined approach for the enhancement and segmentation of mammograms using modified fuzzy C-means method in wavelet domain. J Med Phys (2014) 0.79

Clustering of gene expression data and end-point measurements by simulated annealing. J Bioinform Comput Biol (2009) 0.76

Spectral preprocessing for clustering time-series gene expressions. EURASIP J Bioinform Syst Biol (2009) 0.76

A Bayesian Alternative to Mutual Information for the Hierarchical Clustering of Dependent Random Variables. PLoS One (2015) 0.75

Parallel mutual information estimation for inferring gene regulatory networks on GPUs. BMC Res Notes (2011) 0.75

Receptor interacting protein kinase-3 determines cellular necrotic response to TNF-alpha. Cell (2009) 11.36

R2D2, a bridge between the initiation and effector steps of the Drosophila RNAi pathway. Science (2003) 9.53

The BioGRID Interaction Database: 2011 update. Nucleic Acids Res (2010) 8.46

Probabilistic Boolean Networks: a rule-based uncertainty model for gene regulatory networks. Bioinformatics (2002) 6.90

Mule/ARF-BP1, a BH3-only E3 ubiquitin ligase, catalyzes the polyubiquitination of Mcl-1 and regulates apoptosis. Cell (2005) 6.86

TNF-alpha induces two distinct caspase-8 activation pathways. Cell (2008) 6.81

Mixed lineage kinase domain-like protein mediates necrosis signaling downstream of RIP3 kinase. Cell (2012) 6.56

Argonaute2 cleaves the anti-guide strand of siRNA during RISC activation. Cell (2005) 6.47

Elimination of Mcl-1 is required for the initiation of apoptosis following ultraviolet irradiation. Genes Dev (2003) 6.17

Cytochrome C-mediated apoptosis. Annu Rev Biochem (2004) 5.38

Specific ablation of the apoptotic functions of cytochrome C reveals a differential requirement for cytochrome C and Apaf-1 in apoptosis. Cell (2005) 5.37

WormBase: a comprehensive resource for nematode research. Nucleic Acids Res (2009) 5.20

Is cross-validation valid for small-sample microarray classification? Bioinformatics (2004) 5.19

Autocrine TNFalpha signaling renders human cancer cells susceptible to Smac-mimetic-induced apoptosis. Cancer Cell (2007) 5.09

Jaundice Constrain or Indication? Response. Radiology (2017) 5.07

A small molecule Smac mimic potentiates TRAIL- and TNFalpha-mediated cell death. Science (2004) 4.95

The mitochondrial phosphatase PGAM5 functions at the convergence point of multiple necrotic death pathways. Cell (2012) 4.37

Early origin and recent expansion of Plasmodium falciparum. Science (2003) 4.07

WormBase: new content and better access. Nucleic Acids Res (2006) 4.01

WormBase 2012: more genomes, more data, new website. Nucleic Acids Res (2011) 3.87

WormBase 2007. Nucleic Acids Res (2007) 3.69

Biochemical identification of Argonaute 2 as the sole protein required for RNA-induced silencing complex activity. Proc Natl Acad Sci U S A (2004) 3.63

Distinctive roles of PHAP proteins and prothymosin-alpha in a death regulatory pathway. Science (2003) 3.59

Degradation of Mcl-1 by beta-TrCP mediates glycogen synthase kinase 3-induced tumor suppression and chemosensitization. Mol Cell Biol (2007) 3.23

Gene selection: a Bayesian variable selection approach. Bioinformatics (2003) 3.14

Three-dimensional structure of the apoptosome: implications for assembly, procaspase-9 binding, and activation. Mol Cell (2002) 3.06

The ER UDPase ENTPD5 promotes protein N-glycosylation, the Warburg effect, and proliferation in the PTEN pathway. Cell (2010) 2.97

Indirect emissions from biofuels: how important? Science (2009) 2.71

Toll-like receptors activate programmed necrosis in macrophages through a receptor-interacting kinase-3-mediated pathway. Proc Natl Acad Sci U S A (2011) 2.64

Dietary flavonoids: effects on xenobiotic and carcinogen metabolism. Toxicol In Vitro (2005) 2.60

Small-sample precision of ROC-related estimates. Bioinformatics (2010) 2.56

Copy number and targeted mutational analysis reveals novel somatic events in metastatic prostate tumors. Genome Res (2010) 2.41

WormBase 2014: new views of curated biology. Nucleic Acids Res (2013) 2.39

Optimal number of features as a function of sample size for various classification rules. Bioinformatics (2004) 2.37

The role of oxygen during fracture healing. Bone (2012) 2.21

Ratio statistics of gene expression levels and applications to microarray data analysis. Bioinformatics (2002) 2.19

Formation of apoptosome is initiated by cytochrome c-induced dATP hydrolysis and subsequent nucleotide exchange on Apaf-1. Proc Natl Acad Sci U S A (2005) 2.18

Nutrient starvation elicits an acute autophagic response mediated by Ulk1 dephosphorylation and its subsequent dissociation from AMPK. Proc Natl Acad Sci U S A (2011) 2.06

Gene perturbation and intervention in probabilistic Boolean networks. Bioinformatics (2002) 1.98

Cytochrome P450 2E1 contributes to ethanol-induced fatty liver in mice. Hepatology (2008) 1.90

The role of certain Post classes in Boolean network models of genetic networks. Proc Natl Acad Sci U S A (2003) 1.89

SNiPer-HD: improved genotype calling accuracy by an expectation-maximization algorithm for high-density SNP arrays. Bioinformatics (2006) 1.88

Inferring gene regulatory networks from time series data using the minimum description length principle. Bioinformatics (2006) 1.85

G-SQZ: compact encoding of genomic sequence and quality data. Bioinformatics (2010) 1.79

Generating Boolean networks with a prescribed attractor structure. Bioinformatics (2005) 1.78

HIV/STD prevalence among men who have sex with men in Chengdu, China and associated risk factors for HIV infection. J Acquir Immune Defic Syndr (2010) 1.76

Cytokines in alcoholic liver disease. Arch Toxicol (2012) 1.74

Unraveling gene-gene interactions regulated by ligands of the aryl hydrocarbon receptor. Environ Health Perspect (2004) 1.70

Silica encapsulation of n-octadecane via sol-gel process: a novel microencapsulated phase-change material with enhanced thermal conductivity and performance. J Colloid Interface Sci (2009) 1.67

Generation and characterization of Smac/DIABLO-deficient mice. Mol Cell Biol (2002) 1.61

Strong feature sets from small samples. J Comput Biol (2002) 1.57

A Bayesian connectivity-based approach to constructing probabilistic gene regulatory networks. Bioinformatics (2004) 1.57

Decorrelation of the true and estimated classifier errors in high-dimensional settings. EURASIP J Bioinform Syst Biol (2007) 1.54

A structure of the human apoptosome at 12.8 A resolution provides insights into this cell death platform. Structure (2005) 1.53

Chemopreventive n-3 polyunsaturated fatty acids reprogram genetic signatures during colon cancer initiation and progression in the rat. Cancer Res (2004) 1.52

RNAi microarray analysis in cultured mammalian cells. Genome Res (2003) 1.51

Autophagy occurs upstream or parallel to the apoptosome during histolytic cell death. Development (2006) 1.50

Growing genetic regulatory networks from seed genes. Bioinformatics (2004) 1.49

Intervention in context-sensitive probabilistic Boolean networks. Bioinformatics (2004) 1.48

Inferring connectivity of genetic regulatory networks using information-theoretic criteria. IEEE/ACM Trans Comput Biol Bioinform (2008) 1.47

Chronic alcohol-induced liver injury and oxidant stress are decreased in cytochrome P4502E1 knockout mice and restored in humanized cytochrome P4502E1 knock-in mice. Free Radic Biol Med (2010) 1.47

Efficient experimental design for uncertainty reduction in gene regulatory networks. BMC Bioinformatics (2015) 1.45

PHAPI, CAS, and Hsp70 promote apoptosome formation by preventing Apaf-1 aggregation and enhancing nucleotide exchange on Apaf-1. Mol Cell (2008) 1.44

A motif-based analysis of glycan array data to determine the specificities of glycan-binding proteins. Glycobiology (2009) 1.44

Three-dimensional structure of a double apoptosome formed by the Drosophila Apaf-1 related killer. J Mol Biol (2005) 1.43

Overcoming cancer cell resistance to Smac mimetic induced apoptosis by modulating cIAP-2 expression. Proc Natl Acad Sci U S A (2010) 1.42

Structure of an apoptosome-procaspase-9 CARD complex. Structure (2010) 1.42

Reporting bias when using real data sets to analyze classification performance. Bioinformatics (2009) 1.41

Interaction with Tap42 is required for the essential function of Sit4 and type 2A phosphatases. Mol Biol Cell (2003) 1.41

Osteopontin, an oxidant stress sensitive cytokine, up-regulates collagen-I via integrin α(V)β(3) engagement and PI3K/pAkt/NFκB signaling. Hepatology (2012) 1.40

The difference in superior adjacent segment pathology after lumbar posterolateral fusion by using 2 different pedicle screw insertion techniques in 9-year minimum follow-up. Spine (Phila Pa 1976) (2014) 1.40

The interaction of four genes in the inflammation pathway significantly predicts prostate cancer risk. Cancer Epidemiol Biomarkers Prev (2005) 1.39

Steady-state analysis of genetic regulatory networks modelled by probabilistic boolean networks. Comp Funct Genomics (2003) 1.39

What should be expected from feature selection in small-sample settings. Bioinformatics (2006) 1.38

Intervention in gene regulatory networks via greedy control policies based on long-run behavior. BMC Syst Biol (2009) 1.38

Confidence intervals for the true classification error conditioned on the estimated error. Technol Cancer Res Treat (2006) 1.37

Identification of diagnostic subnetwork markers for cancer in human protein-protein interaction network. BMC Bioinformatics (2010) 1.36

Identification of combination gene sets for glioma classification. Mol Cancer Ther (2002) 1.35

MERTK receptor tyrosine kinase is a therapeutic target in melanoma. J Clin Invest (2013) 1.34

Accurate and reliable cancer classification based on probabilistic inference of pathway activity. PLoS One (2009) 1.33

Inference of a probabilistic Boolean network from a single observed temporal sequence. EURASIP J Bioinform Syst Biol (2007) 1.32

Intervention in gene regulatory networks via a stationary mean-first-passage-time control policy. IEEE Trans Biomed Eng (2008) 1.32

From biological pathways to regulatory networks. Mol Biosyst (2010) 1.32

Is cross-validation better than resubstitution for ranking genes? Bioinformatics (2004) 1.30

Gene regulatory network reconstruction using conditional mutual information. EURASIP J Bioinform Syst Biol (2008) 1.30

Superior feature-set ranking for small samples using bolstered error estimation. Bioinformatics (2004) 1.28

Simulation of cDNA microarrays via a parameterized random signal model. J Biomed Opt (2002) 1.28

Missing-value estimation using linear and non-linear regression with Bayesian gene selection. Bioinformatics (2003) 1.27

Automatic categorization of diverse experimental information in the bioscience literature. BMC Bioinformatics (2012) 1.27

Multiple roles for CCR2 during fracture healing. Dis Model Mech (2010) 1.26

External control in Markovian genetic regulatory networks: the imperfect information case. Bioinformatics (2004) 1.26

The impact of function perturbations in Boolean networks. Bioinformatics (2007) 1.24

Genetic test bed for feature selection. Bioinformatics (2006) 1.24

A CoD-based reduction algorithm for designing stationary control policies on Boolean networks. Bioinformatics (2010) 1.23