Xu Z - Search Results

1

Innovative super-resolution in spatial transcriptomics: a transformer model exploiting histology images and spatial gene expression.

Zhao C, Xu Z, Wang X, Tao S, MacDonald WA, He K, Poholek AC, Chen K, Huang H, Chen W. Zhao C, et al. Among authors: xu z. Brief Bioinform. 2024 Jan 22;25(2):bbae052. doi: 10.1093/bib/bbae052. Brief Bioinform. 2024. PMID: 38436557 Free PMC article.

2

BREM-SC: a bayesian random effects mixture model for joint clustering single cell multi-omics data.

Wang X, Sun Z, Zhang Y, Xu Z, Xin H, Huang H, Duerr RH, Chen K, Ding Y, Chen W. Wang X, et al. Among authors: xu z. Nucleic Acids Res. 2020 Jun 19;48(11):5814-5824. doi: 10.1093/nar/gkaa314. Nucleic Acids Res. 2020. PMID: 32379315 Free PMC article.

3

Expression Quantitative Trait Methylation Analysis Reveals Methylomic Associations With Gene Expression in Childhood Asthma.

Kim S, Forno E, Zhang R, Park HJ, Xu Z, Yan Q, Boutaoui N, Acosta-Pérez E, Canino G, Chen W, Celedón JC. Kim S, et al. Among authors: xu z. Chest. 2020 Nov;158(5):1841-1856. doi: 10.1016/j.chest.2020.05.601. Epub 2020 Jun 20. Chest. 2020. PMID: 32569636 Free PMC article.

4

GMM-Demux: sample demultiplexing, multiplet detection, experiment planning, and novel cell-type verification in single cell sequencing.

Xin H, Lian Q, Jiang Y, Luo J, Wang X, Erb C, Xu Z, Zhang X, Heidrich-O'Hare E, Yan Q, Duerr RH, Chen K, Chen W. Xin H, et al. Among authors: xu z. Genome Biol. 2020 Jul 30;21(1):188. doi: 10.1186/s13059-020-02084-2. Genome Biol. 2020. PMID: 32731885 Free PMC article.

5

Differential gene expression in nasal airway epithelium from overweight or obese youth with asthma.

Xu Z, Forno E, Acosta-Pérez E, Han YY, Rosser F, Manni ML, Canino G, Chen W, Celedón JC. Xu Z, et al. Pediatr Allergy Immunol. 2022 Apr;33(4):e13776. doi: 10.1111/pai.13776. Pediatr Allergy Immunol. 2022. PMID: 35470932 Free PMC article.

6

Comprehensive benchmarking of CITE-seq versus DOGMA-seq single cell multimodal omics.

Xu Z, Heidrich-O'Hare E, Chen W, Duerr RH. Xu Z, et al. Genome Biol. 2022 Jun 23;23(1):135. doi: 10.1186/s13059-022-02698-8. Genome Biol. 2022. PMID: 35739535 Free PMC article.

7

Integrative analysis of spatial transcriptome with single-cell transcriptome and single-cell epigenome in mouse lungs after immunization.

Xu Z, Wang X, Fan L, Wang F, Lin B, Wang J, Trevejo-Nuñez G, Chen W, Chen K. Xu Z, et al. iScience. 2022 Aug 9;25(9):104900. doi: 10.1016/j.isci.2022.104900. eCollection 2022 Sep 16. iScience. 2022. PMID: 36039299 Free PMC article.

8

SECANT: a biology-guided semi-supervised method for clustering, classification, and annotation of single-cell multi-omics.

Wang X, Xu Z, Hu H, Zhou X, Zhang Y, Lafyatis R, Chen K, Huang H, Ding Y, Duerr RH, Chen W. Wang X, et al. Among authors: xu z. PNAS Nexus. 2022 Aug 19;1(4):pgac165. doi: 10.1093/pnasnexus/pgac165. eCollection 2022 Sep. PNAS Nexus. 2022. PMID: 36157595 Free PMC article.

9

Cis- and trans-eQTM analysis reveals novel epigenetic and transcriptomic immune markers of atopic asthma in airway epithelium.

Kim S, Xu Z, Forno E, Qin Y, Park HJ, Yue M, Yan Q, Manni ML, Acosta-Pérez E, Canino G, Chen W, Celedón JC. Kim S, et al. Among authors: xu z. J Allergy Clin Immunol. 2023 Oct;152(4):887-898. doi: 10.1016/j.jaci.2023.05.018. Epub 2023 Jun 2. J Allergy Clin Immunol. 2023. PMID: 37271320 Free PMC article.

10

Nasal epithelial gene expression and total IgE in children and adolescents with asthma.

Xu Z, Forno E, Sun Y, Manni ML, Han YY, Kim S, Yue M, Vonk JM, Kersten ETM, Acosta-Perez E, Canino G, Koppelman GH, Chen W, Celedón JC. Xu Z, et al. J Allergy Clin Immunol. 2024 Jan;153(1):122-131. doi: 10.1016/j.jaci.2023.09.014. Epub 2023 Sep 22. J Allergy Clin Immunol. 2024. PMID: 37742934 Free PMC article.

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