DeepEvo

DeepEvo

<p dir="ltr">The identification of adaptively driven genes underlying human evolutionary traits remains a key challenge in evolutionary genomics. Here we present DeepEvo, an interpretable Siamese neural network that predicts cross-species expression differences from orthologous seque...

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Bibliografische gegevens
Hoofdauteur:	Juntian Qi (22578974) (author)
Gepubliceerd in:	2025
Onderwerpen:	Bioinformatic methods development Genomics and transcriptomics Sequence analysis Human evolution Adaptively driven genes Cis-regulatory elements Siamese neural networks
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liverRegression code.
door: Amy Stephen (22684448)
Gepubliceerd in: (2025)

基于机器学习和网络药理学分析类风湿关节炎中大麻二酚治疗双靶点机制
door: xiaohua fang (22678832)
Gepubliceerd in: (2025)

<b>Supplementary files</b> - G protein-coupled receptor diversity and evolution in the closest living relatives of Metazoa
door: Alain Garcia De Las Bayonas (21095624)
Gepubliceerd in: (2025)

Data Sheet 1_Genome-wide identification and expression profiling of bHLH transcription factors associated with ferulic acid biosynthesis in Angelica sinensis.zip
door: Khadija Tehseen Arshad (22687526)
Gepubliceerd in: (2025)

Table 1_Genome-wide identification and expression profiling of bHLH transcription factors associated with ferulic acid biosynthesis in Angelica sinensis.xlsx
door: Khadija Tehseen Arshad (22687526)
Gepubliceerd in: (2025)

Processed snRNA-seq data from wild-type and <i>Pink1</i>-deficient mouse gut
door: Muhammad Junaid (14524523)
Gepubliceerd in: (2025)

Supplementary Data from Extrachromosomal Amplification of Human Papillomavirus Episomes Is a Mechanism of Cervical Carcinogenesis
door: Nicole M. Rossi (15619062)
Gepubliceerd in: (2025)

Supplementary Figures from Extrachromosomal Amplification of Human Papillomavirus Episomes Is a Mechanism of Cervical Carcinogenesis
door: Nicole M. Rossi (15619062)
Gepubliceerd in: (2025)

Quantitative performance comparison of our method and five multilayer network ranking baselines on the GAC dataset across multiple evaluation metrics.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

Classification performance across the three simulation settings.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

Comparison of Gene Discovery and Performance Evaluation with Baseline Methods.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

Case study on Esophageal Squamous Cell Carcinoma (ESCC).
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

Ablation studies and performance evaluation under varying training conditions.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

classification results on simulated datasets and biomarkers and classification results for GAC dataset.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

Simulation networks and gene expression analysis across disease states.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

Overview of the TransMarker framework for identifying DNBs from single cell time course data.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

Robustness analysis of the entropic regularization parameter in the Gromov–Wasserstein alignment step of TransMarker.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

Robustness of TransMarker concerning the selection and completeness of the prior knowledge network.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

UpSet diagram illustrating the overlap of DNBs selected by our method and top-ranked genes by the 13 baseline centrality-based ranking algorithms.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

Functional enrichment analysis of the 28 DNB genes identified for ESCC.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

Functional enrichment analysis of the DNBs identified for GAC.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

Mean expression levels of biomarker genes across various disease states.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

Gene regulatory networks for different states of GAC post-rewiring.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

UMAP visualizations of extracted CD8<sup> + </sup> T and CD4<sup> + </sup> T cell barcodes, employed for downstream subsequent single-cell trajectory and classification analyses.
door: Fatemeh Keikha (20917848)
Gepubliceerd in: (2025)

GHRAT: Global Heat Risk Assessment Toolbox
door: Xuewen Lei (18138637)
Gepubliceerd in: (2025)

Full list of metrics, indicators, and health-related outcomes used in PAICE rapid literature
door: Rachel Juel (11796266)
Gepubliceerd in: (2025)

Data Sheet 1_Adaptive laboratory evolution enhances cell yield and lipid production of Chlorella sorokiniana under mildly cold conditions.pdf
door: Shu-Yi Lu (22679327)
Gepubliceerd in: (2025)

Structural variants of <i>Fragaria vesca</i>
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Gepubliceerd in: (2025)

Gene expression data of <i>Fragaria vesca</i>
door: Minto Odagiri (22680003)
Gepubliceerd in: (2025)

Supplementary file 1_SLC11A1 protein as a key regulator of iron metabolism, ferroptosis mediator, and putative therapeutic target in nonalcoholic fatty liver disease: an integrated bioinformatics analysis.zip
door: Yang Wang (5921)
Gepubliceerd in: (2025)

Data Sheet 1_MRI-based radiomic clustering identifies a glioblastoma subtype enriched for neural stemness and proliferative programs.csv
door: Zhongyi Zhang (219440)
Gepubliceerd in: (2025)

Data Sheet 2_MRI-based radiomic clustering identifies a glioblastoma subtype enriched for neural stemness and proliferative programs.pdf
door: Zhongyi Zhang (219440)
Gepubliceerd in: (2025)

<b>Minimal repeats identified by machine learning as novel cross-species markers of translation initiation sites</b>
door: Ali Mohammad Ali Maddi (11301486)
Gepubliceerd in: (2025)

Supplementary Data from Landscape of MicroRNA Regulatory Network Architecture and Functional Rerouting in Cancer
door: Xu Hua (14954032)
Gepubliceerd in: (2025)

Supplementary Data from Landscape of MicroRNA Regulatory Network Architecture and Functional Rerouting in Cancer
door: Xu Hua (14954032)
Gepubliceerd in: (2025)

Supplementary Data from Landscape of MicroRNA Regulatory Network Architecture and Functional Rerouting in Cancer
door: Xu Hua (14954032)
Gepubliceerd in: (2025)

Supplementary Data from Landscape of MicroRNA Regulatory Network Architecture and Functional Rerouting in Cancer
door: Xu Hua (14954032)
Gepubliceerd in: (2025)

Supplementary Data from Landscape of MicroRNA Regulatory Network Architecture and Functional Rerouting in Cancer
door: Xu Hua (14954032)
Gepubliceerd in: (2025)

Supplementary Data from Landscape of MicroRNA Regulatory Network Architecture and Functional Rerouting in Cancer
door: Xu Hua (14954032)
Gepubliceerd in: (2025)

Supplementary Data from Landscape of MicroRNA Regulatory Network Architecture and Functional Rerouting in Cancer
door: Xu Hua (14954032)
Gepubliceerd in: (2025)

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