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43 matching publication(s)

Publication	Journal	Year	Score	Verdict
Deep transcriptomics reveals cell-specific isoforms of pan-neuronal genes. PMID 40379625	Nat Commun	2025	84	L1 84/100
DMN-seq enriches DNA hypomethylated regions for biomarker discovery using 5-methylcytosine glycosylase. PMID 41673887	Genome Biol	2026	80	L1 80/100
A network-based model of Aspergillus fumigatus elucidates regulators of development and defensive natural products of an opportunistic pathogen. PMID 41505094	Nucleic Acids Res	2026	78	L1 78/100
Widespread mono- and oligoadenylation direct small noncoding RNA maturation versus degradation fates. PMID 41350938	EMBO J	2025	78	L1 78/100
DeepRNA-Reg: a deep-learning based approach for comparative analysis of CLIP experiments. PMID 41055236	RNA Biol	2025	100	L1 100/100
ChIP-seq Data Processing and Relative and Quantitative Signal Normalization for Saccharomyces cerevisiae. PMID 40364978	Bio Protoc	2025	100	L1 100/100
Protocol for assessing regulatory elements in murine heart using an AAV9-based massively parallel reporter assay. PMID 40252222	STAR Protoc	2025	93	L1 93/100
Statistical framework for calling allelic imbalance in high-throughput sequencing data. PMID 39966391	Nat Commun	2025	89	L1 89/100
Multi-INTACT: integrative analysis of the genome, transcriptome, and proteome identifies causal mechanisms of complex traits. PMID 39901160	Genome Biol	2025	86	L1 86/100
Charting and probing the activity of ADARs in human development and cell-fate specification. PMID 39537590	Nat Commun	2024	100	L1 100/100
Protocol for the generation of single-nuclei RNA-seq libraries and quantification of heterogeneous cell types activated during social interaction. PMID 39423127	STAR Protoc	2024	78	L1 78/100
Forseti: a mechanistic and predictive model of the splicing status of scRNA-seq reads. PMID 38940130	Bioinformatics	2024	87	L1 87/100
De novo identification of CD4+ T cell epitopes. PMID 38658646	Nat Methods	2024	83	L1 83/100
DNA binding analysis of rare variants in homeodomains reveals homeodomain specificity-determining residues. PMID 38600112	Nat Commun	2024	93	L1 93/100
Decoding and reconstructing disease relations between dry eye and depression: a multimodal investigation comprising meta-analysis, genetic pathways and Mendelia PMID 38548265	J Adv Res	2024	79	L1 79/100
spotter: a single-nucleotide resolution stochastic simulation model of supercoiling-mediated transcription and translation in prokaryotes. PMID 37602419	Nucleic Acids Res	2023	77	L1 77/100
Systematic Assessment of Small RNA Profiling in Human Extracellular Vesicles. PMID 37444556	Cancers (Basel)	2023	90	L1 90/100
TransOrGAN: An Artificial Intelligence Mapping of Rat Transcriptomic Profiles between Organs, Ages, and Sexes. PMID 37200521	Chem Res Toxicol	2023	84	L1 84/100
Optimisation of the core subset for the APY approximation of genomic relationships. PMID 36418945	Genet Sel Evol	2022	85	L1 85/100
Assessment of genotyping array performance for genome-wide association studies and imputation in African cattle. PMID 36057548	Genet Sel Evol	2022	90	L1 90/100
Transcriptomic-Based Quantification of the Epithelial-Hybrid-Mesenchymal Spectrum across Biological Contexts. PMID 35053177	Biomolecules	2021	100	L1 100/100
Differentially expressed genes reflect disease-induced rather than disease-causing changes in the transcriptome. PMID 34561431	Nat Commun	2021	100	L1 100/100
PredTAD: A machine learning framework that models 3D chromatin organization alterations leading to oncogene dysregulation in breast cancer cell lines. PMID 34093998	Comput Struct Biotechnol J	2021	77	L1 77/100
Similarities and Differences in Gene Expression Networks Between the Breast Cancer Cell Line Michigan Cancer Foundation-7 and Invasive Human Breast Cancer Tissu PMID 34056582	Front Artif Intell	2021	92	L1 92/100
eVITTA: a web-based visualization and inference toolbox for transcriptome analysis. PMID 34019643	Nucleic Acids Res	2021	82	L1 82/100
TSUNAMI: Translational Bioinformatics Tool Suite for Network Analysis and Mining. PMID 33705981	Genomics Proteomics Bioinformatics	2021	79	L1 79/100
Comparing the utility of in vivo transposon mutagenesis approaches in yeast species to infer gene essentiality. PMID 32681306	Curr Genet	2020	81	L1 81/100
Prediction of Antimicrobial Resistance in Gram-Negative Bacteria From Whole-Genome Sequencing Data. PMID 32528441	Front Microbiol	2020	100	L1 100/100
Integrated omics in Drosophila uncover a circadian kinome. PMID 32483184	Nat Commun	2020	98	L1 98/100
A reference profile-free deconvolution method to infer cancer cell-intrinsic subtypes and tumor-type-specific stromal profiles. PMID 32111252	Genome Med	2020	91	L1 91/100
Evaluating sequence data quality from the Swift Accel-Amplicon CFTR Panel. PMID 31913291	Sci Data	2020	89	L1 89/100
Computational modeling demonstrates that glioblastoma cells can survive spatial environmental challenges through exploratory adaptation. PMID 31836713	Nat Commun	2019	100	L1 100/100
Spatially clustered loci with multiple enhancers are frequent targets of HIV-1 integration. PMID 31492853	Nat Commun	2019	77	L1 77/100
Eye in a Disk: eyeIntegration Human Pan-Eye and Body Transcriptome Database Version 1.0. PMID 31343654	Invest Ophthalmol Vis Sci	2019	94	L1 94/100
pwrEWAS: a user-friendly tool for comprehensive power estimation for epigenome wide association studies (EWAS). PMID 31035919	BMC Bioinformatics	2019	88	L1 88/100
Sequencing of human genomes with nanopore technology. PMID 31015479	Nat Commun	2019	75	L1 75/100
PanglaoDB: a web server for exploration of mouse and human single-cell RNA sequencing data. PMID 30951143	Database (Oxford)	2019	80	L1 80/100
miRge 2.0 for comprehensive analysis of microRNA sequencing data. PMID 30153801	BMC Bioinformatics	2018	89	L1 89/100
Genome-wide prediction of DNase I hypersensitivity using gene expression. PMID 29051481	Nat Commun	2017	79	L1 79/100
Distributed biotin-streptavidin transcription roadblocks for mapping cotranscriptional RNA folding. PMID 28398514	Nucleic Acids Res	2017	77	L1 77/100
AuPairWise: A Method to Estimate RNA-Seq Replicability through Co-expression. PMID 27082953	PLoS Comput Biol	2016	88	L1 88/100
Cell Specific eQTL Analysis without Sorting Cells. PMID 25955312	PLoS Genet	2015	90	L1 90/100
Ribosome A and P sites revealed by length analysis of ribosome profiling data. PMID 25805170	Nucleic Acids Res	2015	81	L1 81/100