Author

Shining Ma

Stanford UniversityORCID 0000-0003-4277-1308Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Genomics· 2 Bioinformatics· 1 Genetics· 1

Signature Assays, Organisms & Methods

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Assay:DNA methylation· 3 Organism:human· 3 Approach:statistical model· 3 Assay:ATAC-seq· 2 Assay:bulk RNA-seq· 2 Research Focus:differential expression· 2 Research Focus:gene regulatory network inference· 2 Research Focus:benchmarking· 1

Frequent Co-Authors

Wing Hung WongiD· 4 shared Alexander Eckehart UrbaniD· 2 shared Carolin PurmanniD· 2 shared Joachim Franz HallmayeriD· 2 shared Jonathan Adam BernsteiniD· 2 shared Alexis MitelpunktiD· 1 shared Anima ShresthaiD· 1 shared Anshul Bharat KundajeiD· 1 shared

Activity by Year

2021-2024 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 41 mutual co-author links

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4 shared papersGenomics

Wing Hung WongORCID

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4 papers

Recent·Most cited

GenomicsGenome biologyPeer-reviewedJan 2, 2024

Genetic effects of sequence-conserved enhancer-like elements on human complex traits

Xiang Zhu, Shining Ma, Wing Hung Wong

The paper identifies sequence-conserved enhancer-like elements across tissues and links them to complex traits using GWAS data, finding tissue-specific heritability and novel candidate genes for BMI and schizophrenia.

13 citations

humanDNA methylation

𝕏 PostBluesky

GenomicsbioRxivPreprintOct 14, 2021

Direct induction of human neurons from fibroblasts carrying the neuropsychiatric 22q11.2 microdeletion reveals transcriptome- and epigenome-wide alterations

Carolin Purmann, Cheen Euong Ang, Koji Tanabe…·Alexander Eckehart Urban

This paper develops a method to generate neuronal cells from adult fibroblasts and uses it to study gene expression and epigenetic changes in 22q11.2 deletion syndrome.

DOI 10.1101/2021.10.14.464344

humanATAC-seq

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GeneticsBiological PsychiatryPeer-reviewedMar 1, 2021

Network effects of the neuropsychiatric 15q13.3 microdeletion on the transcriptome and epigenome in human induced neurons

Siming Zhang, Xianglong Zhang, Carolin Purmann…·Alexander Eckehart Urban

This study examines the transcriptome and epigenome effects of the 15q13.3 microdeletion in human induced neurons, identifying gene expression and pathway changes linked to neuropsychiatric disorders.

22 citations

humanbulk RNA-seq

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BioinformaticsbioRxivPreprintFeb 10, 2021

NeuronMotif: Deciphering transcriptional cis-regulatory codes from deep neural networks

Wei Zheng, Kui Hua, Lei Wei…·Xiaowo Wang

NeuronMotif decodes cis-regulatory motifs from DCNNs by analyzing neuron activations, revealing motif combinations and improving model performance.

2 citations

DNA methylationChIP-seq

𝕏 PostBluesky