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35 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
Population structure analysis of Salmonella serovar Muenchen to redefine geno-serotyping using genome indexing approaches. ⚑ PMID 41743541	Front Microbiol	2026	54	L1 54/100 ⚑
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
Manual curation for improved genome annotation of the functionally extinct northern white rhinoceros (Ceratotherium simum cottoni). PMID 41490125	PLoS One	2026	69	L1 69/100
Widespread mono- and oligoadenylation direct small noncoding RNA maturation versus degradation fates. PMID 41350938	EMBO J	2025	78	L1 78/100
MUTACLASH: identifying functional small RNA target sites using crosslinking-induced mutations. PMID 41330639	RNA	2026	30	L1 30/100
DeepRNA-Reg: a deep-learning based approach for comparative analysis of CLIP experiments. PMID 41055236	RNA Biol	2025	100	L1 100/100
Generative and integrative modeling for transcriptomics with formalin fixed paraffin embedded material. PMID 41029822	J Transl Med	2025	67	L1 67/100
Interpretable and integrative analysis of single-cell multiomics with scMKL. PMID 40770488	Commun Biol	2025	65	L1 65/100
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
Dynamic Gene Attention Focus (DyGAF): Enhancing Biomarker Identification Through Dual-Model Attention Networks. ⚑ PMID 40160891	Bioinform Biol Insights	2025	44	L1 44/100 ⚑
Data-driven projections of candidate enhancer-activating SNPs in immune regulation. PMID 40011812	BMC Genomics	2025	57	L1 57/100
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
The Multi-State Epigenetic Pacemaker enables the identification of combinations of factors that influence DNA methylation. PMID 39549198	Geroscience	2024	54	L1 54/100
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
Partial correlation network analysis identifies coordinated gene expression within a regional cluster of COPD genome-wide association signals. ⚑ PMID 39418301	PLoS Comput Biol	2024	23	L1 23/100 ⚑
Forseti: a mechanistic and predictive model of the splicing status of scRNA-seq reads. PMID 38940130	Bioinformatics	2024	87	L1 87/100
DeepGSEA: explainable deep gene set enrichment analysis for single-cell transcriptomic data. PMID 38950178	Bioinformatics	2024	40	L1 40/100
Gbdmr: identifying differentially methylated CpG regions in the human genome via generalized beta regressions. ⚑ PMID 38443825	BMC Bioinformatics	2024	62	L1 62/100 ⚑
Design of a targeted blood transcriptional panel for monitoring immunological changes accompanying pregnancy. PMID 38352867	Front Immunol	2024	73	L1 73/100
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
Detecting aberrant DNA methylation in Illumina DNA methylation arrays: a toolbox and recommendations for its use. PMID 37218167	Epigenetics	2023	73	L2 73/100
VIGET: A web portal for study of vaccine-induced host responses based on Reactome pathways and ImmPort data. PMID 37180100	Front Immunol	2023	64	L1 64/100
Artificial intelligence-guided discovery of gastric cancer continuum. PMID 36692601	Gastric Cancer	2023	71	L1 71/100
An individualized causal framework for learning intercellular communication networks that define microenvironments of individual tumors. PMID 36548438	PLoS Comput Biol	2022	67	L1 67/100
Preparation of mouse pancreatic tumor for single-cell RNA sequencing and analysis of the data. PMID 34927097	STAR Protoc	2021	50	L1 50/100
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
Estimating and Correcting for Off-Target Cellular Contamination in Brain Cell Type Specific RNA-Seq Data. PMID 33746712	Front Mol Neurosci	2021	50	L1 50/100
Evaluating sequence data quality from the Swift Accel-Amplicon CFTR Panel. PMID 31913291	Sci Data	2020	89	L1 89/100
Viewing RNA-seq data on the entire human genome. PMID 28979763	F1000Res	2017	50	L1 50/100