Author

Daniel J. L. MacGowan

Icahn School of Medicine at Mount Sinai

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 1 Genomics· 1 Neuroscience· 1

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 3 Research Focus:differential expression· 3 Research Focus:gene regulatory network inference· 2 Organism:human· 2 Approach:statistical model· 2 Research Focus:clustering· 1 Approach:machine learning (classical)· 1 Organism:mouse· 1

Frequent Co-Authors

Andrea MalaspinaiD· 3 shared Avindra NathiD· 3 shared Brent T. HarrisiD· 3 shared Dale J. LangeiD· 3 shared Darius J. AdamsiD· 3 shared Dhruv SareeniD· 3 shared Efthimios DardiotisiD· 3 shared Eleonora AronicaiD· 3 shared

Activity by Year

2019-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersBioinformatics

Andrea MalaspinaORCID

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3 papers

Recent·Most cited

Exploring transcriptomic and genomic latent variable correction approaches in differential expression analysis.

Yadusayan Appulingam, John Jammal, Aminah Ali, Simon Topp, Hemali P. Phatnani, Justin Kwan, Dhruv Sareen, James R. Broach, Zachary Simmons, Ximena Arcila-Londono, Edward B. Lee, Vivianna M. Van Deerlin, Neil A. Shneider, Ernest Fraenkel, Lyle W. Ostrow, , Oliver Pain

This paper evaluates combining expression-based surrogate variables and genotype-based principal components in differential expression analysis, finding the combined approach improves replicability and biological recall in ALS datasets.

Scientific Reports · Oct 11, 2026Peer-reviewedBioinformatics

Cell environment shapes TDP-43 function: implications in neuronal and muscle disease

Urša Šušnjar, Neva Škrabar, Anna‐Leigh Brown, Yasmine Abbassi, Hemali P. Phatnani, Pietro Fratta, Justin Y. Kwan, Dhruv Sareen, James Riley Broach, Zachary Simmons, Ximena Arcila-Londono, E. B. Lee, Vivianna M. Van Deerlin, Neil A. Shneider, Ernest Fraenkel, , Emanuele Buratti

The paper compares TDP-43's transcriptional and splicing effects in muscle and neuronal cells, showing tissue-specific roles in disease.

Communications Biology · Apr 5, 2022Peer-reviewedNeuroscience

Postmortem Cortex Samples Identify Distinct Molecular Subtypes of ALS: Retrotransposon Activation, Oxidative Stress, and Activated Glia

Oliver H. Tam, Nikolay V. Rozhkov, Regina Shaw, Duyang Kim, Isabel Hubbard, Samantha Fennessey, Nadia Propp, Hemali P. Phatnani, Justin Y. Kwan, Dhruv Sareen, James Riley Broach, Zachary Simmons, Ximena Arcila-Londono, Edward B. Lee, Vivianna M. Van Deerlin, , John Ravits

The paper uses unsupervised machine learning to identify three molecular subtypes in ALS cortex samples, associated with oxidative stress, retrotransposon activation, and glial activation.

Cell Reports · Oct 1, 2019Peer-reviewedGenomics