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Journal Article (217)
1.
Journal Article
27 (4), 109386 (2024)
Modeling gene expression cascades during cell state transitions. iScience 2.
Journal Article
17, pp. 1 - 20 (2024)
Haplotype-based phylogenetic analysis and population genomics uncover the origin and domestication of sweetpotato. Molecular Plant 3.
Journal Article
FOXO1-mediated lipid metabolism maintains mammalian embryos in dormancy. Nature Cell Biology (2024)
4.
Journal Article
39 (11), btad687 (2023)
CENTRE: a gradient boosting algorithm for Cell-type-specific ENhancer-Target pREdiction. Bioinformatics 5.
Journal Article
26 (9), 107405 (2023)
Fluid shear stress-modulated chromatin accessibility reveals the mechano-dependency of endothelial SMAD1/5-mediated gene transcription. iScience 6.
Journal Article
72 (4), pp. 1023 - 1040 (2023)
Association Plots: visualizing cluster-specific associations in high-dimensional correspondence analysis biplots. Journal of the Royal Statistical Society - Series C: Applied Statistics 7.
Journal Article
39 (6), btad364 (2023)
IsoTools: a flexible workflow for long-read transcriptome sequencing analysis. Bioinformatics 8.
Journal Article
24 (1), 131 (2023)
Hierarchical Interleaved Bloom Filter: enabling ultrafast, approximate sequence queries. Genome Biology: Biology for the Post-Genomic Era 9.
Journal Article
91 (7), pp. 980 - 990 (2023)
Prediction of protein–protein interactions using sequences ofintrinsically disordered regions. Proteins: Structure, Function, and Bioinformatics 10.
Journal Article
150 (17), dev201562 (2023)
Induction of kidney-related gene programs through co-option of SALL1 in mole ovotestes. Development 11.
Journal Article
13, 6470 (2022)
Integration of Hi-C with short and long-read genome sequencing reveals the structure of germline rearranged genomes. Nature Communications 12.
Journal Article
Co-option of the transcription factor SALL1 in mole ovotestis formation. bioRxiv, 514220 (2022)
13.
Journal Article
185 (20), pp. 3689 - 3704 (2022)
Repression and 3D-restructuring resolves regulatory conflicts in evolutionarily rearranged genomes. Cell 14.
Journal Article
54 (7), pp. 1037 - 1050 (2022)
Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements. Nature Genetics 15.
Journal Article
24, pp. 981 - 995 (2022)
Enhanced cortical neural stem cell identity through short SMAD and WNT inhibition in human cerebral organoids facilitates emergence of outer radial glial cells. Nature Cell Biology 16.
Journal Article
434 (11), 167525 (2022)
Visualizing Cluster-specific Genes from Single-cell Transcriptomics Data Using Association Plots. Journal of Molecular Biology 17.
Journal Article
23, 67 (2022)
TADA – a Machine Learning Tool for Functional Annotation based Prioritisation of Putative Pathogenic CNVs. Genome Biology 18.
Journal Article
3, 100414 (2022)
Effect of imputation on gene network reconstruction from single-cell RNA-seq data. Patterns 19.
Journal Article
49 (21), gkab1100, pp. 12178 - 12195 (2021)
Assessing genome-wide dynamic changes in enhancer activity during early mESC differentiation by FAIRE-STARR-seq. Nucleic Acids Research (London) 20.
Journal Article
40, e105862 (2021)
RIF1 and KAP1 differentially regulate the choice of inactive versus active X chromosomes. The EMBO Journal