Published in Genome Res on November 21, 2013
Genomic and Proteomic Study of Richter Syndrome (CGPSR) (CGPSR) | NCT03619512
Inter- and intra-patient clonal and subclonal heterogeneity of chronic lymphocytic leukaemia: evidences from circulating and lymph nodal compartments. Br J Haematol (2015) 1.41
Comparison of RNA-seq and microarray-based models for clinical endpoint prediction. Genome Biol (2015) 1.10
The RIDL hypothesis: transposable elements as functional domains of long noncoding RNAs. RNA (2014) 1.06
DNA methylation dynamics during B cell maturation underlie a continuum of disease phenotypes in chronic lymphocytic leukemia. Nat Genet (2016) 1.06
Transcriptome sequencing reveals potential mechanism of cryptic 3' splice site selection in SF3B1-mutated cancers. PLoS Comput Biol (2015) 1.05
Sample processing obscures cancer-specific alterations in leukemic transcriptomes. Proc Natl Acad Sci U S A (2014) 1.04
ATM mutation rather than BIRC3 deletion and/or mutation predicts reduced survival in 11q-deleted chronic lymphocytic leukemia: data from the UK LRF CLL4 trial. Haematologica (2014) 1.01
Aberrant RNA splicing in cancer; expression changes and driver mutations of splicing factor genes. Oncogene (2015) 1.00
The pathogenicity of splicing defects: mechanistic insights into pre-mRNA processing inform novel therapeutic approaches. EMBO Rep (2015) 0.99
Evolving understanding of the CLL genome. Semin Hematol (2014) 0.91
Genomic and epigenomic heterogeneity in chronic lymphocytic leukemia. Blood (2015) 0.89
Higher gene expression variability in the more aggressive subtype of chronic lymphocytic leukemia. Genome Med (2015) 0.89
The splicing modulator sudemycin induces a specific antitumor response and cooperates with ibrutinib in chronic lymphocytic leukemia. Oncotarget (2015) 0.88
The impact of SF3B1 mutations in CLL on the DNA-damage response. Leukemia (2014) 0.88
The SF3B1 inhibitor spliceostatin A (SSA) elicits apoptosis in chronic lymphocytic leukaemia cells through downregulation of Mcl-1. Leukemia (2015) 0.85
The miR-124-prolyl hydroxylase P4HA1-MMP1 axis plays a critical role in prostate cancer progression. Oncotarget (2014) 0.84
RPPA-based protein profiling reveals eIF4G overexpression and 4E-BP1 serine 65 phosphorylation as molecular events that correspond with a pro-survival phenotype in chronic lymphocytic leukemia. Oncotarget (2015) 0.83
lncRNA profiling in early-stage chronic lymphocytic leukemia identifies transcriptional fingerprints with relevance in clinical outcome. Blood Cancer J (2016) 0.81
Developing Molecular Signatures for Chronic Lymphocytic Leukemia. PLoS One (2015) 0.80
Leveraging a Multi-Omics Strategy for Prioritizing Personalized Candidate Mutation-Driver Genes: A Proof-of-Concept Study. Sci Rep (2015) 0.80
Large-scale microarray profiling reveals four stages of immune escape in non-Hodgkin lymphomas. Oncoimmunology (2016) 0.79
Cryptic splicing events in the iron transporter ABCB7 and other key target genes in SF3B1-mutant myelodysplastic syndromes. Leukemia (2016) 0.79
Gene expression and splicing alterations analyzed by high throughput RNA sequencing of chronic lymphocytic leukemia specimens. BMC Cancer (2015) 0.79
Characterization of TET and IDH gene expression in chronic lymphocytic leukemia: comparison with normal B cells and prognostic significance. Clin Epigenetics (2016) 0.77
Proteins interaction network and modeling of IGVH mutational status in chronic lymphocytic leukemia. Theor Biol Med Model (2015) 0.77
Exon-centric regulation of ATM expression is population-dependent and amenable to antisense modification by pseudoexon targeting. Sci Rep (2016) 0.77
Transcriptomic Characterization of SF3B1 Mutation Reveals Its Pleiotropic Effects in Chronic Lymphocytic Leukemia. Cancer Cell (2016) 0.77
miRs-138 and -424 control palmitoylation-dependent CD95-mediated cell death by targeting acyl protein thioesterases 1 and 2 in CLL. Blood (2015) 0.76
MicroRNA-101 regulated transcriptional modulator SUB1 plays a role in prostate cancer. Oncogene (2016) 0.76
GeneSCF: a real-time based functional enrichment tool with support for multiple organisms. BMC Bioinformatics (2016) 0.76
Discovery of Cancer Driver Long Noncoding RNAs across 1112 Tumour Genomes: New Candidates and Distinguishing Features. Sci Rep (2017) 0.76
Design of Biomedical Robots for Phenotype Prediction Problems. J Comput Biol (2016) 0.75
Genome-wide association analysis implicates dysregulation of immunity genes in chronic lymphocytic leukaemia. Nat Commun (2017) 0.75
Sample Level Enrichment Analysis of KEGG Pathways Identifies Clinically Relevant Subtypes of Glioblastoma. J Cancer (2016) 0.75
ChimPipe: accurate detection of fusion genes and transcription-induced chimeras from RNA-seq data. BMC Genomics (2017) 0.75
Chronic lymphocytic leukaemia. Nat Rev Dis Prim (2017) 0.75
Genomic and transcriptomic profiling of resistant CEM/ADR-5000 and sensitive CCRF-CEM leukaemia cells for unravelling the full complexity of multi-factorial multidrug resistance. Sci Rep (2016) 0.75
NEK2 serves as a prognostic biomarker for hepatocellular carcinoma. Int J Oncol (2017) 0.75
Clustering of Expression Data in Chronic Lymphocytic Leukemia Reveals New Molecular Subdivisions. PLoS One (2015) 0.75
A ribosome-related signature in peripheral blood CLL B cells is linked to reduced survival following treatment. Cell Death Dis (2016) 0.75
Global DNA methylation profiling reveals new insights into epigenetically deregulated protein coding and long noncoding RNAs in CLL. Clin Epigenetics (2016) 0.75
Molecular etiology of an indolent lymphoproliferative disorder determined by whole-genome sequencing. Cold Spring Harb Mol Case Stud (2016) 0.75
The YPEL5-PPP1CB fusion transcript is detected in different hematological malignancies and in normal samples. Leuk Res Rep (2015) 0.75
Alterations in DNA methylation/demethylation intermediates predict clinical outcome in chronic lymphocytic leukemia. Oncotarget (2017) 0.75
Long non-coding RNAs in B-cell malignancies: a comprehensive overview. Oncotarget (2017) 0.75
The Stromal Microenvironment Modulates Mitochondrial Oxidative Phosphorylation in Chronic Lymphocytic Leukemia Cells. Neoplasia (2017) 0.75
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Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc (2009) 137.99
Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat Methods (2008) 126.81
Alternative isoform regulation in human tissue transcriptomes. Nature (2008) 52.76
GenePattern 2.0. Nat Genet (2006) 29.07
Sparse inverse covariance estimation with the graphical lasso. Biostatistics (2007) 24.38
Repbase Update, a database of eukaryotic repetitive elements. Cytogenet Genome Res (2005) 23.41
Landscape of transcription in human cells. Nature (2012) 20.18
Conservatism of the approximation sigma (O-E)2-E in the logrank test for survival data or tumor incidence data. Biometrics (1973) 18.14
GENCODE: producing a reference annotation for ENCODE. Genome Biol (2006) 15.08
Transcriptome genetics using second generation sequencing in a Caucasian population. Nature (2010) 14.85
A coding-independent function of gene and pseudogene mRNAs regulates tumour biology. Nature (2010) 13.82
Whole-genome sequencing identifies recurrent mutations in chronic lymphocytic leukaemia. Nature (2011) 13.18
Frequent pathway mutations of splicing machinery in myelodysplasia. Nature (2011) 11.44
SF3B1 and other novel cancer genes in chronic lymphocytic leukemia. N Engl J Med (2011) 11.07
Finding community structure in very large networks. Phys Rev E Stat Nonlin Soft Matter Phys (2004) 10.30
The impact of translocations and gene fusions on cancer causation. Nat Rev Cancer (2007) 9.81
Integrative analysis of the melanoma transcriptome. Genome Res (2010) 8.46
Somatic SF3B1 mutation in myelodysplasia with ring sideroblasts. N Engl J Med (2011) 7.89
Exome sequencing identifies recurrent mutations of the splicing factor SF3B1 gene in chronic lymphocytic leukemia. Nat Genet (2011) 6.43
Analysis of gene expression data using BRB-ArrayTools. Cancer Inform (2007) 6.09
The lymph node microenvironment promotes B-cell receptor signaling, NF-kappaB activation, and tumor proliferation in chronic lymphocytic leukemia. Blood (2010) 5.95
Gene expression profiling of B cell chronic lymphocytic leukemia reveals a homogeneous phenotype related to memory B cells. J Exp Med (2001) 5.66
Chimeric transcript discovery by paired-end transcriptome sequencing. Proc Natl Acad Sci U S A (2009) 5.30
Relation of gene expression phenotype to immunoglobulin mutation genotype in B cell chronic lymphocytic leukemia. J Exp Med (2001) 4.83
L1 retrotransposition in human neural progenitor cells. Nature (2009) 4.78
Analysis of the chronic lymphocytic leukemia coding genome: role of NOTCH1 mutational activation. J Exp Med (2011) 4.37
From pathogenesis to treatment of chronic lymphocytic leukaemia. Nat Rev Cancer (2009) 4.15
The GEM mapper: fast, accurate and versatile alignment by filtration. Nat Methods (2012) 3.89
Aberrant overexpression of satellite repeats in pancreatic and other epithelial cancers. Science (2011) 3.77
ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking. Bioinformatics (2010) 3.17
Epigenomic analysis detects widespread gene-body DNA hypomethylation in chronic lymphocytic leukemia. Nat Genet (2012) 3.08
An EMT-driven alternative splicing program occurs in human breast cancer and modulates cellular phenotype. PLoS Genet (2011) 2.99
A human B-cell interactome identifies MYB and FOXM1 as master regulators of proliferation in germinal centers. Mol Syst Biol (2010) 2.92
Gitools: analysis and visualisation of genomic data using interactive heat-maps. PLoS One (2011) 2.74
POT1 mutations cause telomere dysfunction in chronic lymphocytic leukemia. Nat Genet (2013) 2.62
Alternative splicing: an emerging topic in molecular and clinical oncology. Lancet Oncol (2007) 2.46
Reduced fidelity of branch point recognition and alternative splicing induced by the anti-tumor drug spliceostatin A. Genes Dev (2011) 2.45
RNA-seq analysis of prostate cancer in the Chinese population identifies recurrent gene fusions, cancer-associated long noncoding RNAs and aberrant alternative splicings. Cell Res (2012) 2.41
Chronic lymphocytic leukaemia is driven by antigen-independent cell-autonomous signalling. Nature (2012) 2.36
Are clusters found in one dataset present in another dataset? Biostatistics (2006) 2.33
The splicing factor SRSF1 regulates apoptosis and proliferation to promote mammary epithelial cell transformation. Nat Struct Mol Biol (2012) 1.88
The B cell antigen receptor and overexpression of MYC can cooperate in the genesis of B cell lymphomas. PLoS Biol (2008) 1.79
The clinical significance of NOTCH1 and SF3B1 mutations in the UK LRF CLL4 trial. Blood (2012) 1.79
BCR ligation induced by IgM stimulation results in gene expression and functional changes only in IgV H unmutated chronic lymphocytic leukemia (CLL) cells. Blood (2008) 1.78
FCRL2 expression predicts IGHV mutation status and clinical progression in chronic lymphocytic leukemia. Blood (2008) 1.67
Spleen tyrosine kinase is overexpressed and represents a potential therapeutic target in chronic lymphocytic leukemia. Cancer Res (2009) 1.65
BioProfiling.de: analytical web portal for high-throughput cell biology. Nucleic Acids Res (2011) 1.60
Estimation of alternative splicing variability in human populations. Genome Res (2011) 1.27
Alternative splicing of SYK regulates mitosis and cell survival. Nat Struct Mol Biol (2011) 1.17
Subnetwork-based analysis of chronic lymphocytic leukemia identifies pathways that associate with disease progression. Blood (2012) 1.16
Thawing Frozen Robust Multi-array Analysis (fRMA). BMC Bioinformatics (2011) 1.13
Poly(ADP-ribosyl)ation links the chromatin remodeler SMARCA5/SNF2H to RNF168-dependent DNA damage signaling. J Cell Sci (2012) 1.13
Eukaryotic cold shock domain proteins: highly versatile regulators of gene expression. Bioessays (2010) 1.10
RNA binding specificity of Unr, a protein with five cold shock domains. Nucleic Acids Res (1999) 1.08
Molecular and transcriptional characterization of 17p loss in B-cell chronic lymphocytic leukemia. Genes Chromosomes Cancer (2008) 1.03
Recurrent reciprocal RNA chimera involving YPEL5 and PPP1CB in chronic lymphocytic leukemia. Proc Natl Acad Sci U S A (2013) 0.99
A genomic approach to improve prognosis and predict therapeutic response in chronic lymphocytic leukemia. Clin Cancer Res (2009) 0.98
Grape RNA-Seq analysis pipeline environment. Bioinformatics (2013) 0.96
Sample-level enrichment analysis unravels shared stress phenotypes among multiple cancer types. Genome Med (2012) 0.96
Inhibition of proliferation and differentiation and promotion of apoptosis by cyclin L2 in mouse embryonic carcinoma P19 cells. Biochem Biophys Res Commun (2009) 0.83
The lymphatic tissue microenvironments in chronic lymphocytic leukemia: in vitro models and the significance of CD40-CD154 interactions. Blood (2009) 0.82
Expression analysis of genes located in the minimally deleted regions of 13q14 and 11q22-23 in chronic lymphocytic leukemia-unexpected expression pattern of the RHO GTPase activator ARHGAP20. Genes Chromosomes Cancer (2011) 0.78
Initial sequencing and comparative analysis of the mouse genome. Nature (2002) 96.15
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature (2007) 75.09
Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease. Nat Genet (2008) 30.20
Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Nature (2004) 24.40
The use of molecular profiling to predict survival after chemotherapy for diffuse large-B-cell lymphoma. N Engl J Med (2002) 24.07
A genome-wide association study of global gene expression. Nat Genet (2007) 22.98
Signatures of mutational processes in human cancer. Nature (2013) 21.63
Guidelines for the use and interpretation of assays for monitoring autophagy in higher eukaryotes. Autophagy (2007) 20.92
International network of cancer genome projects. Nature (2010) 20.35
Landscape of transcription in human cells. Nature (2012) 20.18
Guidelines for the use and interpretation of assays for monitoring autophagy. Autophagy (2012) 20.08
GENCODE: the reference human genome annotation for The ENCODE Project. Genome Res (2012) 19.19
A susceptibility locus for lung cancer maps to nicotinic acetylcholine receptor subunit genes on 15q25. Nature (2008) 16.10
The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression. Genome Res (2012) 15.41
IntAct: an open source molecular interaction database. Nucleic Acids Res (2004) 15.02
Genome-wide association study identifies variants at CLU and CR1 associated with Alzheimer's disease. Nat Genet (2009) 14.86
Overview of BioCreAtIvE: critical assessment of information extraction for biology. BMC Bioinformatics (2005) 14.50
Whole-genome sequencing identifies recurrent mutations in chronic lymphocytic leukaemia. Nature (2011) 13.18
Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype. Nature (2004) 11.03
Characterization of mammalian selenoproteomes. Science (2003) 9.07
Transcriptome and genome sequencing uncovers functional variation in humans. Nature (2013) 8.89
Novel Crohn disease locus identified by genome-wide association maps to a gene desert on 5p13.1 and modulates expression of PTGER4. PLoS Genet (2007) 8.63
Improving the assessment of the outcome of nonsynonymous SNVs with a consensus deleteriousness score, Condel. Am J Hum Genet (2011) 8.53
CHOP-like chemotherapy plus rituximab versus CHOP-like chemotherapy alone in young patients with good-prognosis diffuse large-B-cell lymphoma: a randomised controlled trial by the MabThera International Trial (MInT) Group. Lancet Oncol (2006) 8.53
Loss of acetylation at Lys16 and trimethylation at Lys20 of histone H4 is a common hallmark of human cancer. Nat Genet (2005) 8.45
The genome sequence of taurine cattle: a window to ruminant biology and evolution. Science (2009) 8.23
ZAP-70 expression as a surrogate for immunoglobulin-variable-region mutations in chronic lymphocytic leukemia. N Engl J Med (2003) 6.82
Exome sequencing identifies recurrent mutations of the splicing factor SF3B1 gene in chronic lymphocytic leukemia. Nat Genet (2011) 6.43
A gene network for navigating the literature. Nat Genet (2004) 6.43
Overview of the protein-protein interaction annotation extraction task of BioCreative II. Genome Biol (2008) 6.38
Evaluation of BioCreAtIvE assessment of task 2. BMC Bioinformatics (2005) 6.02
Lung cancer susceptibility locus at 5p15.33. Nat Genet (2008) 5.99
The genome of a songbird. Nature (2010) 5.90
Genome analysis of the platypus reveals unique signatures of evolution. Nature (2008) 5.74
Strategies for MMP inhibition in cancer: innovations for the post-trial era. Nat Rev Cancer (2002) 5.57
Nucleosome positioning as a determinant of exon recognition. Nat Struct Mol Biol (2009) 5.14
Reductive genome evolution in Buchnera aphidicola. Proc Natl Acad Sci U S A (2003) 4.88
Modelling and simulating generic RNA-Seq experiments with the flux simulator. Nucleic Acids Res (2012) 4.81