Author

Daniel J. Hoeppner

Lieber Institute for Brain DevelopmentORCID 0000-0002-0886-5215Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 1 Developmental Biology· 1 Genomics· 1 Neuroscience· 1

Signature Assays, Organisms & Methods

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Organism:human· 4 Approach:statistical model· 4 Assay:bulk RNA-seq· 3 Research Focus:cell type annotation· 3 Research Focus:benchmarking· 2 Research Focus:differential expression· 2 Approach:experimental assay· 2 Research Focus:gene regulatory network inference· 1

Frequent Co-Authors

Josh G. ChenowethiD· 4 shared Ronald D.G. McKay· 4 shared Suel–Kee KimiD· 4 shared Alan J. CrossiD· 3 shared Carlo ColantuoniiD· 3 shared Daniel R. WeinbergeriD· 3 shared Joo Heon ShiniD· 3 shared Nicholas J. BrandoniD· 3 shared

Activity by Year

2019-2021 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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4 shared papersDevelopmental Biology

Josh G. ChenowethORCID

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4 papers

Recent·Most cited

Expression bias in retinoic acid responsive genes defines variations in neural differentiation of human pluripotent stem cells

Suel–Kee Kim, Seungmae Seo, Genevieve Stein-O’Brien, Amritha Jaishankar, Kazuya Ogawa, Nicola Micali, Victor A Luria, Amir Karger, Yanhong Wang, Thomas M. Hyde, Joel E. Kleinman, Ty C. Voss, Elana Judith Fertig, Joo Heon Shin, Roland W. Bürli, , Ronald D.G. McKay

The paper identifies transcriptomic differences in human pluripotent stem cells that correlate with retinoic acid response and neural fate bias.

bioRxiv · Mar 17, 2021 · PreprintDevelopmental Biology

Variation of human neural stem cells generating organizer states in vitro before committing to cortical excitatory or inhibitory neuronal fates

Nicola Micali, Suel–Kee Kim, Marcelo Diaz-Bustamante, Genevieve Stein-O’Brien, Seungmae Seo, Joo Heon Shin, Brian G. Rash, Shaojie Ma, Yanhong Wang, Nicolas A. Olivares, Jon I. Arellano, Kristen R. Maynard, Elana Judith Fertig, Alan J. Cross, Roland W. Bürli, , Ronald D.G. McKay

The paper models the progression of human neural stem cells in vitro, showing they transition through organizer states before committing to cortical excitatory or inhibitory neuronal fates.

Cell Reports · May 1, 2020Peer-reviewedNeuroscience

Dissecting transcriptomic signatures of neuronal differentiation and maturation using iPSCs

Emily E. Burke, Josh G. Chenoweth, Joo Heon Shin, Leonardo Collado‐Torres, Suel–Kee Kim, Nicola Micali, Yanhong Wang, Carlo Colantuoni, Richard E. Straub, Daniel J. Hoeppner, Huei-Ying Chen, Alana Sellers, Kamel Shibbani, Gregory R. Hamersky, Marcelo Diaz Bustamante, , Andrew E. Jaffe

The paper uses hiPSC transcriptomics to study neuronal differentiation and maturation across multiple conditions and develops a tool to estimate neuronal maturity.

Nature Communications · Jan 23, 2020Peer-reviewedGenomics

A Latent Variable Model for Evaluation of Disparate Ratings of Stem Cell Colonies by Two Experts

Michael W. Halter, Steven P. Lund, Adele P. Peskin, Ya-Shian Li-Baboud, Peter Bajcsy, Oleg Aulov, Daniel J. Hoeppner, Josh G. Chenoweth, Suel–Kee Kim, Ronald D.G. McKay, Anne L. Plant

This paper develops a statistical model to evaluate differences in pluripotency ratings of stem cell colonies by two experts, identifying shared and distinct features used in their assessments.

bioRxiv · Aug 24, 2019 · PreprintBioinformatics