Citation Impact
Citing Papers
Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling
2009 StandoutScience
Protein characterization of Saccharomyces cerevisiae RNA polymerase II after in vivo cross-linking
2007 StandoutNobel
High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing
2007
Breaking the Code of DNA Binding Specificity of TAL-Type III Effectors
2009 StandoutScience
Toggle involving cis -interfering noncoding RNAs controls variegated gene expression in yeast
2009
Loss of cryptochrome reduces cancer risk in p53 mutant mice
2009 StandoutNobel
A Bacterial Effector Acts as a Plant Transcription Factor and Induces a Cell Size Regulator
2007 Science
Oncogenic activation of the Notch1 gene by deletion of its promoter in Ikaros-deficient T-ALL
2010 StandoutNobel
How to solve classification and regression problems on high-dimensional data with a supervised extension of slow feature analysis
2013
Radiation-induced deletions in the 5' end region of Notch1 lead to the formation of truncated proteins and are involved in the development of mouse thymic lymphomas
2003
Differential expression analysis for sequence count data
2010 Standout
RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
2011 Standout
Reconsidering Movement of Eukaryotic mRNAs between Polysomes and P Bodies
2011 StandoutNobel
An integrated encyclopedia of DNA elements in the human genome
2012 StandoutNature
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
2009 Standout
lincRNAs: Genomics, Evolution, and Mechanisms
2013 Standout
The General Transcription Machinery and General Cofactors
2006
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
2012 Standout
The role of enhancers as centres for general transcription factor recruitment
2005
Modular regulatory principles of large non-coding RNAs
2012 StandoutNature
Triplex-forming oligonucleotide target sequences in the human genome
2004
Functional Overlap between eIF4G Isoforms in Saccharomyces cerevisiae
2010 StandoutNobel
Quantification of the yeast transcriptome by single-molecule sequencing
2009
The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools
2011 Standout
Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals
2009 StandoutNature
Selective Transport of α-Mannosidase by Autophagic Pathways
2010 StandoutNobel
Identification of a ubiquitously active promoter of the murine activation-induced cytidine deaminase (AICDA) gene
2005
Regulation of Translation Initiation in Eukaryotes: Mechanisms and Biological Targets
2009 Standout
An RNA-Sequencing Transcriptome and Splicing Database of Glia, Neurons, and Vascular Cells of the Cerebral Cortex
2014 Standout
Clk post-transcriptional control denoises circadian transcription both temporally and spatially
2015 StandoutNobel
Mammalian RNA polymerase II core promoters: insights from genome-wide studies
2007
Large-scale identification and characterization of human genes that activate NF-κB and MAPK signaling pathways
2003
Global functional profiling of gene expression☆☆This work was funded in part by a Sun Microsystems grant awarded to S.D., NIH Grant HD36512 to S.A.K., a Wayne State University SOM Dean’s Post-Doctoral Fellowship, and an NICHD Contraception and Infertility Loan to G.C.O. Support from the WSU MCBI mode is gratefully appreciated.
2003
Cardif is an adaptor protein in the RIG-I antiviral pathway and is targeted by hepatitis C virus
2005 StandoutNature
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
2010 Standout
Lap3 is a selective target of autophagy in yeast, Saccharomyces cerevisiae
2008 StandoutNobel
Comprehensive Analysis of mRNA Methylation Reveals Enrichment in 3′ UTRs and near Stop Codons
2012 Standout
Alternative Ways to Think about Cellular Internal Ribosome Entry
2010
Systems Biology of Mammalian Circadian Clocks
2007
Computational analysis of core promoters in the Drosophila genome
2002
The Role of Chromatin during Transcription
2007 Standout
5′ UTR m6A Promotes Cap-Independent Translation
2015 Standout
Mesodermally expressed Drosophila microRNA-1 is regulated by Twist and is required in muscles during larval growth
2005 StandoutNobel
B cell–specific and stimulation-responsive enhancers derepress Aicda by overcoming the effects of silencers
2009 StandoutNobel
The Noncoding RNA Revolution—Trashing Old Rules to Forge New Ones
2014 Standout
RNA-Seq: a revolutionary tool for transcriptomics
2008 Standout
SWnet: a deep learning model for drug response prediction from cancer genomic signatures and compound chemical structures
2021
Identification and Characterization of MAVS, a Mitochondrial Antiviral Signaling Protein that Activates NF-κB and IRF3
2005 Standout
Widespread transcription at neuronal activity-regulated enhancers
2010 StandoutNature
Dynamics and diversity in autophagy mechanisms: lessons from yeast
2009 StandoutNobel
In Vivo Analysis of Aicda Gene Regulation: A Critical Balance between Upstream Enhancers and Intronic Silencers Governs Appropriate Expression
2013 StandoutNobel
AceView: a comprehensive cDNA-supported gene and transcripts annotation
2006
Evolution and Functions of Long Noncoding RNAs
2009 Standout
Stepwise chromatin remodelling by a cascade of transcription initiation of non-coding RNAs
2008 Nature
Mapping and quantifying mammalian transcriptomes by RNA-Seq
2008 Standout
Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome
2007 Standout
Long non-coding RNAs: insights into functions
2009 Standout
Deep learning in neural networks: An overview
2014 Standout
Transcriptional noise and the fidelity of initiation by RNA polymerase II
2007
Sequencing technologies — the next generation
2009 Standout
Antisense artifacts in transcriptome microarray experiments are resolved by actinomycin D
2007
Genome Regulation by Long Noncoding RNAs
2012 Standout
The Transcriptional Landscape of the Yeast Genome Defined by RNA Sequencing
2008 StandoutScience
Cap analysis gene expression for high-throughput analysis of transcriptional starting point and identification of promoter usage
2003
Immunologic and clinical effects of antibody blockade of cytotoxic T lymphocyte-associated antigen 4 in previously vaccinated cancer patients
2008 StandoutNobel
Hunting Viral Receptors Using Haploid Cells
2015
PubChem 2023 update
2022 Standout
Coordinated reduction of genes of oxidative metabolism in humans with insulin resistance and diabetes: Potential role ofPGC1andNRF1
2003 Standout
A Targeted Bypass Screen Identifies Ynl187p, Prp42p, Snu71p, and Cbp80p for Stable U1 snRNP/Pre-mRNA Interaction
2009 StandoutNobel
Systems Biology of Mammalian Circadian Clocks
2010
Autoantibodies frequently detected in patients with aplastic anemia
2003
The RNA Polymerase II Core Promoter
2003
Ab initio construction of a eukaryotic transcriptome by massively parallel mRNA sequencing
2009
De Novo Origination of a New Protein-Coding Gene in Saccharomyces cerevisiae
2008
E3 ubiquitin ligase Mindbomb 1 facilitates nuclear delivery of adenovirus genomes
2020 StandoutNobel
Cap-Independent Translation Is Required for Starvation-Induced Differentiation in Yeast
2007 StandoutScienceNobel
Works of Jun Sese being referenced
A large-scale full-length cDNA analysis to explore the budding yeast transcriptome
2006
Simulation and estimation of gene number in a biological pathway using almost complete saturation mutagenesis screening of haploid mouse cells
2014
Identification and Characterization of the Potential Promoter Regions of 1031 Kinds of Human Genes
2001
BodyMap incorporated PCR-based expression profiling data and a gene ranking system
2001
Compound–protein interaction prediction with end-to-end learning of neural networks for graphs and sequences
2018
Semi-supervised local Fisher discriminant analysis for dimensionality reduction
2009
Diverse transcriptional initiation revealed by fine, large‐scale mapping of mRNA start sites
2001
Identification and Characterization of the Potential Promoter Regions of 1031 Kinds of Human Genes
2001
Gene expression profile in human leukocytes
2003