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Benjamin T. James

Observed names: Benjamin James, Benjamin T James, Benjamin T James, James, Benjamin, James, Benjamin T., James, Benjamin Thomas
ORCID: 0000-0002-6228-055X
Observed ORCID: 0000-0002-6228-055X
OpenAlex ID: A5063971635
GENCODE: reference annotation for the human and mouse genomes in 2023
2022 · Adam Frankish, Sílvia Carbonell-Sala, et al. · Nucleic Acids Research · 602
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Human microglial state dynamics in Alzheimer’s disease progression
2023 · Na Sun, Matheus B. Victor, et al. · Cell · 448
Regulatory genomic circuitry of human disease loci by integrative epigenomics
2021 · Carles A. Boix, Benjamin T. James, et al. · Nature · 416
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GENCODE 2025: reference gene annotation for human and mouse
2024 · Jonathan M Mudge, Sílvia Carbonell-Sala, et al. · Nucleic Acids Research · 411
Single-cell multiregion dissection of Alzheimer’s disease
2024 · Hansruedi Mathys, Carles A. Boix, et al. · Nature · 317
Benchmarking of alignment-free sequence comparison methods
2019 · Andrzej Zielezinski, Hani Z. Girgis, et al. · Genome biology · 219
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Epigenomic dissection of Alzheimer’s disease pinpoints causal variants and reveals epigenome erosion
2023 · Xushen Xiong, Benjamin T. James, et al. · Cell · 203
An encyclopedia of enhancer-gene regulatory interactions in the human genome
2023 · Andreas R. Gschwind, Kristy S. Mualim, et al. · bioRxiv (Cold Spring Harbor Laboratory) · 119
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MeShClust: an intelligent tool for clustering DNA sequences
2018 · Benjamin T James, Brian B Luczak, et al. · Nucleic Acids Research · 96
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Single-cell multiregion epigenomic rewiring in Alzheimer’s disease progression and cognitive resilience
2025 · Zunpeng Liu, Shanshan Zhang, et al. · Cell · 61
A survey and evaluations of histogram-based statistics in alignment-free sequence comparison
2017 · Brian B Luczak, Benjamin T James, et al. · Briefings in Bioinformatics · 61
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Engineered 3D immuno-glial-neurovascular human miBrain model
2025 · Alice E. Stanton, Adele Bubnys, et al. · Proceedings of the National Academy of Sciences · 44
Gamma entrainment using audiovisual stimuli alleviates chemobrain pathology and cognitive impairment induced by chemotherapy in mice
2024 · TaeHyun Kim, Benjamin T. James, et al. · Science Translational Medicine · 39
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Multitissue H3K27ac profiling of GTEx samples links epigenomic variation to disease
2023 · Lei Hou, Xushen Xiong, et al. · Nature Genetics · 37
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Identity : rapid alignment-free prediction of sequence alignment identity scores using self-supervised general linear models
2021 · Hani Z Girgis, Benjamin T James, et al. · NAR Genomics and Bioinformatics · 19
Look4TRs: a de novo tool for detecting simple tandem repeats using self-supervised hidden Markov models
2019 · Alfredo Velasco, Benjamin T James, et al. · Bioinformatics · 13
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MeShClust 2 : Application of alignment-free identity scores in clustering long DNA sequences
2018 · Benjamin T. James, Hani Z. Girgis · bioRxiv (Cold Spring Harbor Laboratory) · 10
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An encyclopedia of human enhancer–gene regulatory interactions
2026 · Andreas R. Gschwind, Kristy S. Mualim, et al. · Nature · 5
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Cross-species single-cell atlas of the striatum defines cell-type and subregion disease vulnerabilities
2026 · Raleigh M. Linville, Benjamin T. James, et al. · Cell · 3
FASTCAR: Rapid alignment-free prediction of sequence alignment identity scores using self-supervised general linear models
2018 · Benjamin T. James, Brian B. Luczak, et al. · bioRxiv (Cold Spring Harbor Laboratory) · 3
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Author Correction: Regulatory genomic circuitry of human disease loci by integrative epigenomics
2025 · Carles A. Boix, Benjamin T. James, et al. · Nature · 1
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Engineered 3D Immuno-Glial-Neurovascular Human miBrain Model
2024 · Li-Huei Tsai, Alice Stanton, et al. · Research Square · 1
Type 2 Diabetes and Obesity Alter Exercise Training-Induced Transcriptional Adaptations to Subcutaneous White Adipose Tissue
2025 · Roeland J.W. Middelbeek, Jiekun Yang, et al. · bioRxiv (Cold Spring Harbor Laboratory)
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Code for the Xiong, James, Boix et al., Cell 2023 paper
2023 · Xushen Xiong, James, Benjamin T., et al. · Zenodo (CERN European Organization for Nuclear Research)
Additional file 1: of Benchmarking of alignment-free sequence comparison methods
2019 · Zielezinski, Andrzej, Girgis, Hani, et al. · Figshare
Works count: 30
Citation count: 3,117
H-index: 15
I10-index: 17
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