Donaghey, Julie

Improving RNA-Seq expression estimates by correcting for fragment bias

Roberts, A., Trapnell, C., Donaghey, J., Rinn, J. L., & Pachter, L. (2011) · Genome Biology

Genomics and Phylogenetic StudiesGene expression and cancer classification

Cited by 1,725

Charting a dynamic DNA methylation landscape of the human genome

Ziller, M. J., Gu, H., Müller, F., Donaghey, J., Tsai, L. T.-Y., Kohlbacher, O., De Jager, P. L., Rosen, E. D., Bennett, D. A., Bernstein, B. E., et al. (2013) · Nature

Epigenetics and DNA MethylationGenomics and Chromatin Dynamics

Cited by 1,357

Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs

Guttman, M., Garber, M., Levin, J. Z., Donaghey, J., Robinson, J., Adiconis, X., Fan, L., Koziol, M. J., Gnirke, A., Nusbaum, C., et al. (2010) · Nature Biotechnology

Genomics and Phylogenetic StudiesRNA Research and Splicing

Cited by 1,253

Transcriptional and Epigenetic Dynamics during Specification of Human Embryonic Stem Cells

Gifford, C. A., Ziller, M. J., Gu, H., Trapnell, C., Donaghey, J., Tsankov, A., Shalek, A. K., Kelley, D. R., Shishkin, A. A., Issner, R., et al. (2013) · Cell

Pluripotent Stem Cells ResearchEpigenetics and DNA Methylation

Cited by 435

Combinatorial patterning of chromatin regulators uncovered by genome-wide location analysis in human cells

Ram, O., Goren, A., Amit, I., Shoresh, N., Yosef, N., Ernst, J., Kellis, M., Gymrek, M., Issner, R., Coyne, M., et al. (2011) · Cell

Genomics and Chromatin DynamicsChromatin Remodeling and Cancer

Cited by 331

Epigenetic restriction of extraembryonic lineages mirrors the somatic transition to cancer

Smith, Z. D., Shi, J., Gu, H., Donaghey, J., Clement, K., Cacchiarelli, D., Gnirke, A., Michor, F., & Meissner, A. (2017) · Nature

Epigenetics and DNA MethylationGenetic Syndromes and Imprinting

Cited by 201

Circadian Entrainment Triggers Maturation of Human In Vitro Islets

Alvarez-Dominguez, J. R., Donaghey, J., Rasouli, N., Kenty, J. H. R., Helman, A., Charlton, J., Straubhaar, J. R., Meissner, A., & Melton, D. A. (2020) · Cell Stem Cell

Pancreatic function and diabetesPluripotent Stem Cells Research

Cited by 189