PubRank

Wing-Kin Sung

Author PubWeight™ 271.70‹?›

Top papers

Rank Title Journal Year PubWeight™‹?›
1 Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 2007 75.09
2 Integration of external signaling pathways with the core transcriptional network in embryonic stem cells. Cell 2008 28.29
3 A global map of p53 transcription-factor binding sites in the human genome. Cell 2006 20.65
4 An oestrogen-receptor-alpha-bound human chromatin interactome. Nature 2009 12.16
5 Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation. Cell 2012 8.41
6 Assemblathon 1: a competitive assessment of de novo short read assembly methods. Genome Res 2011 8.38
7 Gene identification signature (GIS) analysis for transcriptome characterization and genome annotation. Nat Methods 2005 7.87
8 Whole-genome mapping of histone H3 Lys4 and 27 trimethylations reveals distinct genomic compartments in human embryonic stem cells. Cell Stem Cell 2007 7.05
9 CTCF-mediated functional chromatin interactome in pluripotent cells. Nat Genet 2011 6.55
10 Global mapping of c-Myc binding sites and target gene networks in human B cells. Proc Natl Acad Sci U S A 2006 5.27
11 Fusion transcripts and transcribed retrotransposed loci discovered through comprehensive transcriptome analysis using Paired-End diTags (PETs). Genome Res 2007 4.99
12 A common BIM deletion polymorphism mediates intrinsic resistance and inferior responses to tyrosine kinase inhibitors in cancer. Nat Med 2012 4.90
13 Multiplex sequencing of paired-end ditags (MS-PET): a strategy for the ultra-high-throughput analysis of transcriptomes and genomes. Nucleic Acids Res 2006 4.51
14 Exploiting indirect neighbours and topological weight to predict protein function from protein-protein interactions. Bioinformatics 2006 3.94
15 Genomic portrait of resectable hepatocellular carcinomas: implications of RB1 and FGF19 aberrations for patient stratification. Hepatology 2014 3.31
16 ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing. Genome Biol 2010 3.24
17 Opera: reconstructing optimal genomic scaffolds with high-throughput paired-end sequences. J Comput Biol 2011 2.85
18 An HMM approach to genome-wide identification of differential histone modification sites from ChIP-seq data. Bioinformatics 2008 2.85
19 Jmjd3 contributes to the control of gene expression in LPS-activated macrophages. EMBO J 2009 2.72
20 A signal-noise model for significance analysis of ChIP-seq with negative control. Bioinformatics 2010 2.66
21 Genome-wide mutational signatures of aristolochic acid and its application as a screening tool. Sci Transl Med 2013 2.07
22 Genome-wide mapping of RELA(p65) binding identifies E2F1 as a transcriptional activator recruited by NF-kappaB upon TLR4 activation. Mol Cell 2007 2.05
23 Association mapping via regularized regression analysis of single-nucleotide-polymorphism haplotypes in variable-sized sliding windows. Am J Hum Genet 2007 2.04
24 Oseltamivir ring prophylaxis for containment of 2009 H1N1 influenza outbreaks. N Engl J Med 2010 1.79
25 Comprehensive long-span paired-end-tag mapping reveals characteristic patterns of structural variations in epithelial cancer genomes. Genome Res 2011 1.67
26 A genomic survey of positive selection in Burkholderia pseudomallei provides insights into the evolution of accidental virulence. PLoS Pathog 2010 1.65
27 Integration of regulatory networks by NKX3-1 promotes androgen-dependent prostate cancer survival. Mol Cell Biol 2011 1.56
28 Cellular reprogramming by the conjoint action of ERα, FOXA1, and GATA3 to a ligand-inducible growth state. Mol Syst Biol 2011 1.55
29 Telomerase directly regulates NF-κB-dependent transcription. Nat Cell Biol 2012 1.53
30 Using indirect protein-protein interactions for protein complex prediction. J Bioinform Comput Biol 2008 1.52
31 Inherent signals in sequencing-based Chromatin-ImmunoPrecipitation control libraries. PLoS One 2009 1.49
32 Lethal-7 is down-regulated by the hepatitis B virus x protein and targets signal transducer and activator of transcription 3. J Hepatol 2010 1.45
33 Whole-genome reconstruction and mutational signatures in gastric cancer. Genome Biol 2012 1.33
34 Comprehensive evaluation of common genetic variation within LRRK2 reveals evidence for association with sporadic Parkinson's disease. Hum Mol Genet 2005 1.30
35 Transcriptional consequences of genomic structural aberrations in breast cancer. Genome Res 2011 1.30
36 Protein subcellular localization prediction for Gram-negative bacteria using amino acid subalphabets and a combination of multiple support vector machines. BMC Bioinformatics 2005 1.28
37 Genomic acquisition of a capsular polysaccharide virulence cluster by non-pathogenic Burkholderia isolates. Genome Biol 2010 1.22
38 Computing a smallest multilabeled phylogenetic tree from rooted triplets. IEEE/ACM Trans Comput Biol Bioinform 2011 1.18
39 Optimization and clinical validation of a pathogen detection microarray. Genome Biol 2007 1.18
40 ChIA-PET analysis of transcriptional chromatin interactions. Methods 2012 1.17
41 Using indirect protein interactions for the prediction of Gene Ontology functions. BMC Bioinformatics 2007 1.13
42 3D chromosome modeling with semi-definite programming and Hi-C data. J Comput Biol 2013 1.13
43 CENTDIST: discovery of co-associated factors by motif distribution. Nucleic Acids Res 2011 1.12
44 BatMeth: improved mapper for bisulfite sequencing reads on DNA methylation. Genome Biol 2012 1.09
45 MotifVoter: a novel ensemble method for fine-grained integration of generic motif finders. Bioinformatics 2008 1.05
46 PE-Assembler: de novo assembler using short paired-end reads. Bioinformatics 2010 1.01
47 An efficient strategy for extensive integration of diverse biological data for protein function prediction. Bioinformatics 2007 0.95
48 Using indirect protein-protein interactions for protein complex predication. Comput Syst Bioinformatics Conf 2007 0.94
49 A correlated motif approach for finding short linear motifs from protein interaction networks. BMC Bioinformatics 2006 0.94
50 Target gene analysis by microarrays and chromatin immunoprecipitation identifies HEY proteins as highly redundant bHLH repressors. PLoS Genet 2012 0.94
51 BatMis: a fast algorithm for k-mismatch mapping. Bioinformatics 2012 0.92
52 Increasing confidence of protein-protein interactomes. Genome Inform 2006 0.91
53 The Brm-HDAC3-Erm repressor complex suppresses dedifferentiation in Drosophila type II neuroblast lineages. Elife 2014 0.90
54 G-PRIMER: greedy algorithm for selecting minimal primer set. Bioinformatics 2004 0.90
55 Identifying differentially expressed genes in time-course microarray experiment without replicate. J Bioinform Comput Biol 2007 0.89
56 Long span DNA paired-end-tag (DNA-PET) sequencing strategy for the interrogation of genomic structural mutations and fusion-point-guided reconstruction of amplicons. PLoS One 2012 0.89
57 Pathogen chip for respiratory tract infections. J Clin Microbiol 2013 0.85
58 Large-scale evolutionary surveillance of the 2009 H1N1 influenza A virus using resequencing arrays. Nucleic Acids Res 2010 0.85
59 Reconstructing recombination network from sequence data: the small parsimony problem. IEEE/ACM Trans Comput Biol Bioinform 2007 0.85
60 Brief overview of bioinformatics activities in Singapore. PLoS Comput Biol 2009 0.84
61 Polynomial-time algorithms for building a consensus MUL-tree. J Comput Biol 2012 0.84
62 SLiM on Diet: finding short linear motifs on domain interaction interfaces in Protein Data Bank. Bioinformatics 2010 0.83
63 Protein structure and fold prediction using Tree-Augmented naïve Bayesian classifier. J Bioinform Comput Biol 2005 0.83
64 Effective algorithms for tag SNP selection. J Bioinform Comput Biol 2005 0.82
65 Computational modeling of oligonucleotide positional densities for human promoter prediction. Artif Intell Med 2005 0.82
66 Identifying differential histone modification sites from ChIP-seq data. Methods Mol Biol 2012 0.82
67 RB-finder: an improved distance-based sliding window method to detect recombination breakpoints. J Comput Biol 2008 0.82
68 Detection of generic spaced motifs using submotif pattern mining. Bioinformatics 2007 0.82
69 Chromatin interaction networks and higher order architectures of eukaryotic genomes. J Cell Biochem 2011 0.81
70 Localized motif discovery in gene regulatory sequences. Bioinformatics 2010 0.81
71 Pem: a general statistical approach for identifying differentially expressed genes in time-course cDNA microarray experiment without replicate. Comput Syst Bioinformatics Conf 2006 0.81
72 Probabilistic prediction of protein-protein interactions from the protein sequences. Comput Biol Med 2005 0.79
73 Computational annotation of transcription factor binding sites in D. Melanogaster developmental genes. Genome Inform 2006 0.78
74 Simultaneously learning DNA motif along with its position and sequence rank preferences through expectation maximization algorithm. J Comput Biol 2013 0.78
75 Next-generation sequencing of apoptotic DNA breakpoints reveals association with actively transcribed genes and gene translocations. PLoS One 2011 0.77
76 Differential transcriptomic analyses revealed genes and signaling pathways involved in iono-osmoregulation and cellular remodeling in the gills of euryhaline Mozambique tilapia, Oreochromis mossambicus. BMC Genomics 2014 0.77
77 Predicting RNA secondary structures with arbitrary pseudoknots by maximizing the number of stacking pairs. J Comput Biol 2003 0.77
78 Adjacent nucleotide dependence in ncRNA and order-1 SCFG for ncRNA identification. PLoS One 2010 0.76
79 International Conference on Genome Informatics (GIW 2013) in Singapore: Introduction to the systems biology contributions. BMC Syst Biol 2013 0.75
80 Algorithms for the Majority Rule (+) Consensus Tree and the Frequency Difference Consensus Tree. IEEE/ACM Trans Comput Biol Bioinform 2016 0.75
81 Structural alignment of RNA with complex pseudoknot structure. J Comput Biol 2011 0.75
82 An O(m log m)-Time Algorithm for Detecting Superbubbles. IEEE/ACM Trans Comput Biol Bioinform 2015 0.75
83 Local gapped subforest alignment and its application in finding RNA structural motifs. J Comput Biol 2006 0.75
84 Adaptive control of hybridization noise in DNA sequencing-by-hybridization. J Bioinform Comput Biol 2005 0.75
85 Constructing phylogenetic supernetworks based on simulated annealing. Mol Phylogenet Evol 2012 0.75
86 Discovering interacting domains and motifs in protein-protein interactions. Methods Mol Biol 2013 0.75
87 D-SLIMMER: domain-SLiM interaction motifs miner for sequence based protein-protein interaction data. J Proteome Res 2011 0.75
88 Inferring phylogenetic relationships avoiding forbidden rooted triplets. J Bioinform Comput Biol 2006 0.75
89 Guest Editorial for the International Conference on Genome Informatics (GIW 2013). IEEE/ACM Trans Comput Biol Bioinform 2015 0.75