Nathan Salomonis

Publication Activity (10 Years)

Years Active: 2005-2023
Publications (10 Years): 6

Top Topics

Matrix Factorisation

Top Venues

Briefings Bioinform.

PLoS Comput. Biol.

Publications

Kyle Ferchen, Nathan Salomonis, H. Leighton Grimes
pyInfinityFlow: optimized imputation and analysis of high-dimensional flow cytometry data for millions of cells. Bioinform. 39 (5) (2023)
Kang Jin, Daniel J. Schnell, Guangyuan Li, Nathan Salomonis, V. B. Surya Prasath, Rhonda Szczesniak, Bruce J. Aronow
CellDrift: inferring perturbation responses in temporally sampled single-cell data. Briefings Bioinform. 23 (5) (2022)
Guangyuan Li, Balaji Iyer, V. B. Surya Prasath, Yizhao Ni, Nathan Salomonis
DeepImmuno: deep learning-empowered prediction and generation of immunogenic peptides for T-cell immunity. Briefings Bioinform. 22 (6) (2021)
Derek Reiman, Godhev Kumar Manakkat Vijay, Heping Xu, Andrew Sonin, Dianyu Chen, Nathan Salomonis, Harinder Singh, Aly A. Khan
Pseudocell Tracer - A method for inferring dynamic trajectories using scRNAseq and its application to B cells undergoing immunoglobulin class switch recombination. PLoS Comput. Biol. 17 (5) (2021)
Meenakshi Venkatasubramanian, Kashish Chetal, Daniel J. Schnell, Gowtham Atluri, Nathan Salomonis
Resolving single-cell heterogeneity from hundreds of thousands of cells through sequential hybrid clustering and NMF. Bioinform. 36 (12) (2020)
Andre Olsson, Meenakshi Venkatasubramanian, Viren K. Chaudhri, Bruce J. Aronow, Nathan Salomonis, Harinder Singh, H. Leighton Grimes
Single-cell analysis of mixed-lineage states leading to a binary cell fate choice. Nat. 537 (7622) (2016)
Lilach Soreq, Alessandro Guffanti, Nathan Salomonis, Alon Simchovitz, Zvi Israel, Hagai Bergman, Hermona Soreq
Long Non-Coding RNA and Alternative Splicing Modulations in Parkinson's Leukocytes Identified by RNA Sequencing. PLoS Comput. Biol. 10 (3) (2014)
Zhuohui Gan, Jianwu Wang, Nathan Salomonis, Jennifer C. Stowe, Gabriel G. Haddad, Andrew D. McCulloch, Ilkay Altintas, Alexander C. Zambon
MAAMD: a workflow to standardize meta-analyses and comparison of affymetrix microarray data. BMC Bioinform. 15 (2014)
Inna Dubchak, Matthew Munoz, Alexander Poliakov, Nathan Salomonis, Simon Minovitsky, Rolf Bodmer, Alexander C. Zambon
Whole-Genome rVISTA: a tool to determine enrichment of transcription factor binding sites in gene promoters from transcriptomic data. Bioinform. 29 (16) (2013)
Alexander C. Zambon, Stan Gaj, Isaac Ho, Kristina Hanspers, Karen Vranizan, Chris T. A. Evelo, Bruce R. Conklin, Alexander R. Pico, Nathan Salomonis
GO-Elite: a flexible solution for pathway and ontology over-representation. Bioinform. 28 (16) (2012)
Chao Zhang, Kristina Hanspers, Allan Kuchinsky, Nathan Salomonis, Dong Xu, Alexander R. Pico
Mosaic: making biological sense of complex networks. Bioinform. 28 (14) (2012)
Nathan Salomonis
LineageProfiler: Automated Classification and Visualization of Cell Type Identity for Mammalian Transcriptomes. HISB (2012)
Zhuohui Gan, Jianwu Wang, Nathan Salomonis, Ilkay Altintas, Andrew D. McCulloch, Alexander C. Zambon
MAAMD: A Workflow to Standardize Meta-Analyses of Affymetrix Microarray Data. HISB (2012)
Nathan Salomonis
AltAnalyze - An Optimized Platform for RNA-Seq Splicing and Domain-Level Analyses. HISB (2012)
Dorothea Emig, Nathan Salomonis, Jan Baumbach, Thomas Lengauer, Bruce R. Conklin, Mario Albrecht
AltAnalyze and DomainGraph: analyzing and visualizing exon expression data. Nucleic Acids Res. 38 (Web-Server-Issue) (2010)
Nathan Salomonis, Brandon Nelson, Karen Vranizan, Alexander R. Pico, Kristina Hanspers, Allan Kuchinsky, Linda Ta, Mark Mercola, Bruce R. Conklin
Alternative Splicing in the Differentiation of Human Embryonic Stem Cells into Cardiac Precursors. PLoS Comput. Biol. 5 (11) (2009)
Nathan Salomonis, Kristina Hanspers, Alexander C. Zambon, Karen Vranizan, Steven C. Lawlor, Kam D. Dahlquist, Scott Doniger, Joshua M. Stuart, Bruce R. Conklin, Alexander R. Pico
GenMAPP 2: new features and resources for pathway analysis. BMC Bioinform. 8 (2007)
Melissa S. Cline, John Blume, Simon Cawley, Tyson Clark, Jing-Shan Hu, Gang Lu, Nathan Salomonis, Hui Wang, Alan Williams
ANOSVA: a statistical method for detecting splice variation from expression data. ISMB (Supplement of Bioinformatics) (2005)