Noble, William Stafford

MEME SUITE: tools for motif discovery and searching

Bailey, T. L., Boden, M., Buske, F. A., Frith, M., Grant, C. E., Clementi, L., Ren, J., Li, W. W., & Noble, W. S. (2009) · Nucleic Acids Research

Genomics and Chromatin DynamicsGenomics and Phylogenetic Studies

Cited by 10,648

FIMO: scanning for occurrences of a given motif

Grant, C. E., Bailey, T. L., & Noble, W. S. (2011) · Bioinformatics

Genomics and Chromatin DynamicsGenomics and Phylogenetic Studies

Cited by 4,247

Semi-supervised learning for peptide identification from shotgun proteomics datasets

Käll, L., Canterbury, J. D., Weston, J., Noble, W. S., & MacCoss, M. J. (2007) · Nature Methods

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

Cited by 2,424

Quantifying similarity between motifs

Gupta, S., Stamatoyannopoulos, J. A., Bailey, T. L., & Noble, W. S. (2007) · Genome Biology

Genomics and Chromatin DynamicsGenomics and Phylogenetic Studies

Cited by 2,058

Assessing computational tools for the discovery of transcription factor binding sites

Tompa, M., Li, N., Bailey, T. L., Church, G. M., De Moor, B., Eskin, E., Favorov, A. V., Frith, M. C., Fu, Y., Kent, W. J., et al. (2005) · Nature Biotechnology

Genomics and Chromatin DynamicsGenomics and Phylogenetic Studies

Cited by 1,268

How does multiple testing correction work?

Noble, W. S. (2009) · Nature Biotechnology

Bioinformatics and Genomic NetworksGene expression and cancer classification

Cited by 772

A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens

Gasperini, M., Hill, A. J., McFaline-Figueroa, J. L., Martin, B., Kim, S., Zhang, M. D., Jackson, D., Leith, A., Schreiber, J., Noble, W. S., et al. (2019) · Cell

Genomics and Chromatin DynamicsCRISPR and Genetic Engineering

Cited by 613

Assigning Significance to Peptides Identified by Tandem Mass Spectrometry Using Decoy Databases

Käll, L., Storey, J. D., MacCoss, M. J., & Noble, W. S. (2008) · Journal of Proteome Research

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

Cited by 607

Global mapping of protein-DNA interactions in vivo by digital genomic footprinting

Hesselberth, J. R., Chen, X., Zhang, Z., Sabo, P. J., Sandstrom, R., Reynolds, A. P., Thurman, R. E., Neph, S., Kuehn, M. S., Noble, W. S., et al. (2009) · Nature Methods

Genomics and Chromatin DynamicsGenomics and Phylogenetic Studies

Cited by 559

HiCRep: assessing the reproducibility of Hi-C data using a stratum-adjusted correlation coefficient

Yang, T., Zhang, F., Yardımcı, G. G., Song, F., Hardison, R. C., Noble, W. S., Yue, F., & Li, Q. (2017) · Genome Research

Genomics and Chromatin DynamicsGenomics and Phylogenetic Studies

Cited by 533

Fast and Accurate Protein False Discovery Rates on Large-Scale Proteomics Data Sets with Percolator 3.0

The, M., MacCoss, M. J., Noble, W. S., & Käll, L. (2016) · Journal of the American Society for Mass Spectrometry

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

Cited by 454

Integrative detection and analysis of structural variation in cancer genomes

Dixon, J. R., Xu, J., Dileep, V., Zhan, Y., Song, F., Le, V. T., Yardımcı, G. G., Chakraborty, A., Bann, D. V., Wang, Y., et al. (2018) · Nature Genetics

Genomic variations and chromosomal abnormalitiesCancer Genomics and Diagnostics

Cited by 452

Comparative analysis of metazoan chromatin organization

Ho, J. W. K., Jung, Y. L., Liu, T., Alver, B. H., Lee, S., Ikegami, K., Sohn, K.-A., Minoda, A., Tolstorukov, M. Y., Appert, A., et al. (2014) · Nature

Genomics and Chromatin DynamicsEpigenetics and DNA Methylation

Cited by 390

A critical assessment of Mus musculusgene function prediction using integrated genomic evidence

Peña-Castillo, L., Tasan, M., Myers, C. L., Lee, H., Joshi, T., Zhang, C., Guan, Y., Leone, M., Pagnani, A., Kim, W. K., et al. (2008) · Genome Biology

Bioinformatics and Genomic NetworksGenomics and Phylogenetic Studies

Cited by 248

A statistical approach for inferring the 3D structure of the genome

Varoquaux, N., Ay, F., Noble, W. S., & Vert, J.-P. (2014) · Bioinformatics

Genomics and Chromatin DynamicsProtein Structure and Dynamics

Cited by 246

Massively parallel profiling and predictive modeling of the outcomes of CRISPR/Cas9-mediated double-strand break repair

Chen, W., McKenna, A., Schreiber, J., Haeussler, M., Yin, Y., Agarwal, V., Noble, W. S., & Shendure, J. (2019) · Nucleic Acids Research

CRISPR and Genetic EngineeringDNA Repair Mechanisms

Cited by 216

Chromatin alternates between A and B compartments at kilobase scale for subgenic organization

Harris, H. L., Gu, H., Olshansky, M., Wang, A., Farabella, I., Eliaz, Y., Kalluchi, A., Krishna, A., Jacobs, M., Cauer, G., et al. (2023) · Nature Communications

Genomics and Chromatin DynamicsChromatin Remodeling and Cancer

Cited by 184

Peptide-Centric Proteome Analysis: An Alternative Strategy for the Analysis of Tandem Mass Spectrometry Data

Ting, Y. S., Egertson, J. D., Payne, S. H., Kim, S., MacLean, B., Käll, L., Aebersold, R., Smith, R. D., Noble, W. S., & MacCoss, M. J. (2015) · Molecular & Cellular Proteomics

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

Cited by 175

Massively parallel characterization of transcriptional regulatory elements

Agarwal, V., Inoue, F., Schubach, M., Penzar, D., Martin, B. K., Dash, P. M., Keukeleire, P., Zhang, Z., Sohota, A., Zhao, J., et al. (2025) · Nature

Genomics and Chromatin DynamicsChromatin Remodeling and Cancer

Cited by 146

Fast open modification spectral library searching through approximate nearest neighbor indexing

Bittremieux, W., Meysman, P., Noble, W. S., & Laukens, K. (2018) · Journal of Proteome Research

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

Cited by 85

Joint annotation of chromatin state and chromatin conformation reveals relationships among domain types and identifies domains of cell-type-specific expression

Libbrecht, M. W., Ay, F., Hoffman, M. M., Gilbert, D. M., Bilmes, J. A., & Noble, W. S. (2015) · Genome Research

Genomics and Chromatin DynamicsChromatin Remodeling and Cancer

Cited by 84

Extremely Fast and Accurate Open Modification Spectral Library Searching of High-Resolution Mass Spectra Using Feature Hashing and Graphics Processing Units

Bittremieux, W., Laukens, K., & Noble, W. S. (2019) · Journal of Proteome Research

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

Cited by 49

Image-based, pooled phenotyping reveals multidimensional, disease-specific variant effects

Pendyala, S., Partington, K., Bradley, N., McEwen, A. E., Straub, G., Kim, H.-J., Fayer, S., Holmes, D. L., Sitko, K. A., Garge, R. K., et al. (2026) · Cell

Genomics and Rare DiseasesNuclear Structure and Function

Cited by 10