Meyer, Clifford A.

Model-based Analysis of ChIP-Seq (MACS)

Zhang, Y., Liu, T., Meyer, C. A., Eeckhoute, J., Johnson, D. S., Bernstein, B. E., Nusbaum, C., Myers, R. M., Brown, M., Li, W., et al. (2008) · Genome Biology

Genomics and Chromatin DynamicsGenomics and Phylogenetic Studies

Cited by 18,386

Expanded encyclopaedias of DNA elements in the human and mouse genomes

The ENCODE Project Consortium, Abascal, F., Acosta, R., Addleman, N. J., Adrian, J., Afzal, V., Ai, R., Aken, B., Akiyama, J. A., Jammal, O. A., et al. (2020) · Nature

Genomics and Chromatin DynamicsEpigenetics and DNA Methylation

Cited by 2,378

Chromosome-wide mapping of estrogen receptor binding reveals long-range regulation requiring the forkhead protein FoxA1

Carroll, J. S., Liu, X. S., Brodsky, A. S., Li, W., Meyer, C. A., Szary, A. J., Eeckhoute, J., Shao, W., Hestermann, E. V., Geistlinger, T. R., et al. (2005) · Cell

Estrogen and related hormone effectsGenomics and Chromatin Dynamics

Cited by 1,384

FoxA1 Translates Epigenetic Signatures into Enhancer-Driven Lineage-Specific Transcription

Lupien, M., Eeckhoute, J., Meyer, C. A., Wang, Q., Zhang, Y., Li, W., Carroll, J. S., Liu, X. S., & Brown, M. (2008) · Cell

Genomics and Chromatin DynamicsEpigenetics and DNA Methylation

Cited by 983

Response and resistance to BET bromodomain inhibitors in triple-negative breast cancer

Shu, S., Lin, C. Y., He, H. H., Witwicki, R. M., Tabassum, D. P., Roberts, J. M., Janiszewska, M., Jin Huh, S., Liang, Y., Ryan, J., et al. (2016) · Nature

Protein Degradation and InhibitorsChromatin Remodeling and Cancer

Cited by 632

Sequence determinants of improved CRISPR sgRNA design

Xu, H., Xiao, T., Chen, C.-H., Li, W., Meyer, C. A., Wu, Q., Wu, D., Cong, L., Zhang, F., Liu, J. S., et al. (2015) · Genome Research

CRISPR and Genetic EngineeringRNA regulation and disease

Cited by 625

Target analysis by integration of transcriptome and ChIP-seq data with BETA

Wang, S., Sun, H., Ma, J., Zang, C., Wang, C., Wang, J., Tang, Q., Meyer, C. A., Zhang, Y., & Liu, X. S. (2013) · Nature Protocols

Genomics and Chromatin DynamicsBioinformatics and Genomic Networks

Cited by 544

Transcriptional role of cyclin D1 in development revealed by a genetic-proteomic screen

Bienvenu, F., Jirawatnotai, S., Elias, J. E., Meyer, C. A., Mizeracka, K., Marson, A., Frampton, G. M., Cole, M. F., Odom, D. T., Odajima, J., et al. (2010) · Nature

Cancer-related Molecular PathwaysDevelopmental Biology and Gene Regulation

Cited by 276

Therapeutically Increasing MHC-I Expression Potentiates Immune Checkpoint Blockade

Gu, S. S., Zhang, W., Wang, X., Jiang, P., Traugh, N., Li, Z., Meyer, C., Stewig, B., Xie, Y., Bu, X., et al. (2021) · Cancer Discovery

Cancer Immunotherapy and BiomarkersImmunotherapy and Immune Responses

Cited by 273

Refined DNase-seq protocol and data analysis reveals intrinsic bias in transcription factor footprint identification

He, H. H., Meyer, C. A., Hu, S. S., Chen, M.-W., Zang, C., Liu, Y., Rao, P. K., Fei, T., Xu, H., Long, H., et al. (2014) · Nature Methods

Genomics and Chromatin DynamicsGenomics and Phylogenetic Studies

Cited by 218

Elucidation of the ELK1 target gene network reveals a role in the coordinate regulation of core components of the gene regulation machinery

Boros, J., Donaldson, I. J., O'Donnell, A., Odrowaz, Z. A., Zeef, L., Lupien, M., Meyer, C. A., Liu, X. S., Brown, M., & Sharrocks, A. D. (2009) · Genome Research

Genomics and Chromatin DynamicsChromatin Remodeling and Cancer

Cited by 127

Cell-type selective chromatin remodeling defines the active subset of FOXA1-bound enhancers

Eeckhoute, J., Lupien, M., Meyer, C. A., Verzi, M. P., Shivdasani, R. A., Liu, X. S., & Brown, M. (2009) · Genome Research

Genomics and Chromatin DynamicsChromatin Remodeling and Cancer

Cited by 106

Genomic mapping of RNA polymerase II reveals sites of co-transcriptional regulation in human cells

Brodsky, A. S., Meyer, C. A., Swinburne, I. A., Hall, G., Keenan, B. J., Liu, X. S., Fox, E. A., & Silver, P. A. (2005) · Genome Biology

Genomics and Chromatin DynamicsRNA Research and Splicing

Cited by 94

Determinants of transcription factor regulatory range

Chen, C.-H., Zheng, R., Tokheim, C., Dong, X., Fan, J., Wan, C., Tang, Q., Brown, M., Liu, J. S., Meyer, C. A., et al. (2020) · Nature Communications

Genomics and Chromatin DynamicsGene Regulatory Network Analysis

Cited by 85

MIRA: joint regulatory modeling of multimodal expression and chromatin accessibility in single cells

Lynch, A. W., Theodoris, C. V., Long, H. W., Brown, M., Liu, X. S., & Meyer, C. A. (2022) · Nature Methods

Single-cell and spatial transcriptomicsGenomics and Chromatin Dynamics

Cited by 80