Steemers, Frank J.

The single-cell transcriptional landscape of mammalian organogenesis

Cao, J., Spielmann, M., Qiu, X., Huang, X., Ibrahim, D. M., Hill, A. J., Zhang, F., Mundlos, S., Christiansen, L., Steemers, F. J., et al. (2019) · Nature

Single-cell and spatial transcriptomicsDevelopmental Biology and Gene Regulation

Cited by 4,490

Comprehensive single cell transcriptional profiling of a multicellular organism by combinatorial indexing

Cao, J., Packer, J. S., Ramani, V., Cusanovich, D. A., Huynh, C., Daza, R., Qiu, X., Lee, C., Furlan, S. N., Steemers, F. J., et al. (2017) · Science

Single-cell and spatial transcriptomicsGenomics and Phylogenetic Studies

Cited by 1,402

Multiplex single-cell profiling of chromatin accessibility by combinatorial cellular indexing

Cusanovich, D. A., Daza, R., Adey, A., Pliner, H. A., Christiansen, L., Gunderson, K. L., Steemers, F. J., Trapnell, C., & Shendure, J. (2015) · Science

Single-cell and spatial transcriptomicsGenomics and Chromatin Dynamics

Cited by 1,248

Joint profiling of chromatin accessibility and gene expression in thousands of single cells

Cao, J., Cusanovich, D. A., Ramani, V., Aghamirzaie, D., Pliner, H. A., Hill, A. J., Daza, R. M., McFaline-Figueroa, J. L., Packer, J. S., Christiansen, L., et al. (2018) · Science

Single-cell and spatial transcriptomicsGenomics and Chromatin Dynamics

Cited by 938

Cicero predicts cis-regulatory DNA interactions from single-cell chromatin accessibility data

Pliner, H. A., Packer, J. S., McFaline-Figueroa, J. L., Cusanovich, D. A., Daza, R. M., Aghamirzaie, D., Srivatsan, S., Qiu, X., Jackson, D., Minkina, A., et al. (2018) · Molecular Cell

Genomics and Chromatin DynamicsSingle-cell and spatial transcriptomics

Cited by 789

A human cell atlas of fetal gene expression

Cao, J., O’Day, D. R., Pliner, H. A., Kingsley, P. D., Deng, M., Daza, R. M., Zager, M. A., Aldinger, K. A., Blecher-Gonen, R., Zhang, F., et al. (2020) · Science

Single-cell and spatial transcriptomicsDevelopmental Biology and Gene Regulation

Cited by 764

A Single-Cell Atlas of In Vivo Mammalian Chromatin Accessibility

Cusanovich, D. A., Hill, A. J., Aghamirzaie, D., Daza, R. M., Pliner, H. A., Berletch, J. B., Filippova, G. N., Huang, X., Christiansen, L., DeWitt, W. S., et al. (2018) · Cell

Genomics and Chromatin DynamicsSingle-cell and spatial transcriptomics

Cited by 759

Droplet-based combinatorial indexing for massive-scale single-cell chromatin accessibility

Lareau, C. A., Duarte, F. M., Chew, J. G., Kartha, V. K., Burkett, Z. D., Kohlway, A. S., Pokholok, D., Aryee, M. J., Steemers, F. J., Lebofsky, R., et al. (2019) · Nature Biotechnology

Single-cell and spatial transcriptomicsGenomics and Chromatin Dynamics

Cited by 444

Massively multiplex chemical transcriptomics at single-cell resolution

Srivatsan, S. R., McFaline-Figueroa, J. L., Ramani, V., Saunders, L., Cao, J., Packer, J., Pliner, H. A., Jackson, D. L., Daza, R. M., Christiansen, L., et al. (2020) · Science

Single-cell and spatial transcriptomicsAdvanced Proteomics Techniques and Applications

Cited by 401

The cis-regulatory dynamics of embryonic development at single-cell resolution

Cusanovich, D. A., Reddington, J. P., Garfield, D. A., Daza, R. M., Aghamirzaie, D., Marco-Ferreres, R., Pliner, H. A., Christiansen, L., Qiu, X., Steemers, F. J., et al. (2018) · Nature

Genomics and Chromatin DynamicsSingle-cell and spatial transcriptomics

Cited by 363

Sequencing thousands of single-cell genomes with combinatorial indexing

Vitak, S. A., Torkenczy, K. A., Rosenkrantz, J. L., Fields, A. J., Christiansen, L., Wong, M. H., Carbone, L., Steemers, F. J., & Adey, A. (2017) · Nature Methods

Single-cell and spatial transcriptomicsCancer Genomics and Diagnostics

Cited by 294

Transcriptomic and morphophysiological evidence for a specialized human cortical GABAergic cell type

Boldog, E., Bakken, T. E., Hodge, R. D., Novotny, M., Aevermann, B. D., Baka, J., Bordé, S., Close, J. L., Diez-Fuertes, F., Ding, S.-L., et al. (2018) · Nature Neuroscience

Neuroscience and Neuropharmacology ResearchSingle-cell and spatial transcriptomics

Cited by 291

Highly scalable generation of DNA methylation profiles in single cells

Mulqueen, R. M., Pokholok, D., Norberg, S. J., Torkenczy, K. A., Fields, A. J., Sun, D., Sinnamon, J. R., Shendure, J., Trapnell, C., O'Roak, B. J., et al. (2018) · Nature Biotechnology

Epigenetics and DNA MethylationSingle-cell and spatial transcriptomics

Cited by 289

Haplotype-resolved whole-genome sequencing by contiguity-preserving transposition and combinatorial indexing

Amini, S., Pushkarev, D., Christiansen, L., Kostem, E., Royce, T., Turk, C., Pignatelli, N., Adey, A., Kitzman, J. O., Vijayan, K., et al. (2014) · Nature Genetics

Genomics and Phylogenetic StudiesGenomic variations and chromosomal abnormalities

Cited by 189

Chromatin accessibility dynamics of myogenesis at single cell resolution

Pliner, H. A., Packer, J., McFaline-Figueroa, J. L., Cusanovich, D. A., Daza, R., Srivatsan, S., Qiu, X., Jackson, D., Minkina, A., Adey, A., et al. (2017) · bioRxiv (Cold Spring Harbor Laboratory)

Genomics and Chromatin DynamicsChromatin Remodeling and Cancer

Cited by 16