Salomonis, Nathan

Single-cell analysis of mixed-lineage states leading to a binary cell fate choice

Olsson, A., Venkatasubramanian, M., Chaudhri, V. K., Aronow, B. J., Salomonis, N., Singh, H., & Grimes, H. L. (2016) · Nature

Single-cell and spatial transcriptomicsGene Regulatory Network Analysis

Cited by 476

Granulocyte-Monocyte Progenitors and Monocyte-Dendritic Cell Progenitors Independently Produce Functionally Distinct Monocytes

Yáñez, A., Coetzee, S. G., Olsson, A., Muench, D. E., Berman, B. P., Hazelett, D. J., Salomonis, N., Grimes, H. L., & Goodridge, H. S. (2017) · Immunity

Immune cells in cancerImmunotherapy and Immune Responses

Cited by 470

The Human Cell Atlas bone marrow single-cell interactive web portal

Hay, S. B., Ferchen, K., Chetal, K., Grimes, H. L., & Salomonis, N. (2018) · Experimental Hematology

Single-cell and spatial transcriptomicsHematopoietic Stem Cell Transplantation

Cited by 256

Time- and exercise-dependent gene regulation in human skeletal muscle

Zambon, A. C., McDearmon, E. L., Salomonis, N., Vranizan, K. M., Johansen, K. L., Adey, D., Takahashi, J. S., Schambelan, M., & Conklin, B. R. (2003) · Genome Biology

Circadian rhythm and melatoninMuscle Physiology and Disorders

Cited by 254

DoubletDecon: Deconvoluting Doublets from Single-Cell RNA-Sequencing Data

DePasquale, E. A. K., Schnell, D. J., Van Camp, P.-J., Valiente-Alandí, Í., Blaxall, B. C., Grimes, H. L., Singh, H., & Salomonis, N. (2019) · Cell Reports

Single-cell and spatial transcriptomicsGenomics and Phylogenetic Studies

Cited by 207

Defining human cardiac transcription factor hierarchies using integrated single-cell heterogeneity analysis

Churko, J. M., Garg, P., Treutlein, B., Venkatasubramanian, M., Wu, H., Lee, J., Wessells, Q. N., Chen, S.-Y., Chen, W.-Y., Chetal, K., et al. (2018) · Nature Communications

Pluripotent Stem Cells ResearchSingle-cell and spatial transcriptomics

Cited by 207

DeepImmuno: deep learning-empowered prediction and generation of immunogenic peptides for T-cell immunity

Li, G., Iyer, B., Prasath, V. B. S., Ni, Y., & Salomonis, N. (2021) · Briefings in Bioinformatics

vaccines and immunoinformatics approachesImmunotherapy and Immune Responses

Cited by 168

Mouse models of neutropenia reveal progenitor-stage-specific defects

Muench, D. E., Olsson, A., Ferchen, K., Pham, G., Serafin, R. A., Chutipongtanate, S., Dwivedi, P., Song, B., Hay, S., Chetal, K., et al. (2020) · Nature

Blood disorders and treatmentsImmunodeficiency and Autoimmune Disorders

Cited by 115

Molecular, phenotypic, and sample-associated data to describe pluripotent stem cell lines and derivatives

Daily, K., Ho Sui, S. J., Schriml, L. M., Dexheimer, P. J., Salomonis, N., Schroll, R., Bush, S., Keddache, M., Mayhew, C., Lotia, S., et al. (2017) · Scientific Data

Pluripotent Stem Cells ResearchDevelopmental Biology and Gene Regulation

Cited by 81

cellHarmony: cell-level matching and holistic comparison of single-cell transcriptomes

DePasquale, E. A. K., Schnell, D., Dexheimer, P., Ferchen, K., Hay, S., Chetal, K., Valiente-Alandí, Í., Blaxall, B. C., Grimes, H. L., & Salomonis, N. (2019) · Nucleic Acids Research

Single-cell and spatial transcriptomicsGene expression and cancer classification

Cited by 67

LungMAP Portal Ecosystem: Systems-level Exploration of the Lung

Gaddis, N., Fortriede, J., Guo, M., Bardes, E. E., Kouril, M., Tabar, S., Burns, K., Ardini-Poleske, M. E., Loos, S., Schnell, D., et al. (2024) · American Journal of Respiratory Cell and Molecular Biology

Single-cell and spatial transcriptomicsBioinformatics and Genomic Networks

Cited by 62

Widespread variation in molecular interactions and regulatory properties among transcription factor isoforms

Lambourne, L., Mattioli, K., Santoso, C., Sheynkman, G., Inukai, S., Kaundal, B., Berenson, A., Spirohn-Fitzgerald, K., Bhattacharjee, A., Rothman, E., et al. (2025) · Molecular Cell

Genomics and Chromatin DynamicsGene Regulatory Network Analysis

Cited by 42

CellDrift: inferring perturbation responses in temporally sampled single-cell data

Jin, K., Schnell, D., Li, G., Salomonis, N., Prasath, V. B. S., Szczesniak, R., & Aronow, B. J. (2022) · Briefings in Bioinformatics

Single-cell and spatial transcriptomicsGene expression and cancer classification

Cited by 11