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43 matching publication(s)

Publication	Journal	Year	Score	Verdict
LoRA-TV: read depth profile-based clustering of tumor cells in single-cell sequencing. PMID 38877886	Brief Bioinform	2024	90	L1 90/100
Deep transcriptomics reveals cell-specific isoforms of pan-neuronal genes. PMID 40379625	Nat Commun	2025	84	L1 84/100
Identification of succinylation-related genes in bladder cancer: integration of single-cell and transcriptomic data. PMID 42220482	Front Immunol	2026	78	L1 78/100
Intratumoral heterogeneity in microsatellite instability status at single-cell resolution. PMID 41767255	iScience	2026	100	L1 100/100
ConNIS and labeling instability: New statistical methods for improving the detection of essential genes in TraDIS libraries. PMID 41790830	PLoS Comput Biol	2026	83	L1 83/100
Integrative transcriptomic and machine learning framework reveals candidate genes and potential mechanisms of aflatoxin B1 exposure in breast cancer. PMID 41688730	Sci Rep	2026	83	L1 83/100
Chromosome-level genome assembly of agar-producing red seaweed Gracilaria vermiculophylla. PMID 41629338	Sci Data	2026	91	L1 91/100
DMN-seq enriches DNA hypomethylated regions for biomarker discovery using 5-methylcytosine glycosylase. PMID 41673887	Genome Biol	2026	80	L1 80/100
Enhanced microRNA accumulation and gene silencing efficiency through optimized precursor base pairing. PMID 41505763	Plant J	2026	87	L1 87/100
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
Protocol for transcriptomic and epigenomic analysis of JAK inhibitor sensitivity in IFN-γ-primed human macrophages using ATAC-seq and RNA-seq. PMID 41313685	STAR Protoc	2025	85	L1 85/100
Network Controllability Reveals Key Mitigation Points for Tumor-Promoting Signaling in Tumor-Educated Platelets. PMID 41226816	Int J Mol Sci	2025	84	L1 84/100
Allele-specific immune gene quantification and expression analysis in single-cell RNA-seq data. PMID 41229397	NAR Genom Bioinform	2025	75	L1 75/100
DeepRNA-Reg: a deep-learning based approach for comparative analysis of CLIP experiments. PMID 41055236	RNA Biol	2025	100	L1 100/100
Identification of Key Differentially Expressed Genes in Arabidopsis thaliana Under Short- and Long-Term High Light Stress. PMID 40869111	Int J Mol Sci	2025	75	L1 75/100
Metabolic reprogramming and prognostic insights in molecular landscapes driven by glycolysis in ovarian cancer. PMID 40707588	Sci Rep	2025	77	L1 77/100
ChIP-seq Data Processing and Relative and Quantitative Signal Normalization for Saccharomyces cerevisiae. PMID 40364978	Bio Protoc	2025	100	L1 100/100
Integrated bioinformatics analysis screened the key genes and pathways of idiopathic pulmonary fibrosis. PMID 40280949	Sci Rep	2025	93	L1 93/100
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
Mouse-Geneformer: A deep learning model for mouse single-cell transcriptome and its cross-species utility. PMID 40106407	PLoS Genet	2025	95	L1 95/100
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
Revealing the critical state and identifying individualized dynamic network biomarker for type 2 diabetes through advanced analysis methods on individual basis. PMID 39890881	Sci Rep	2025	75	L1 75/100
Multiomic machine learning on lactylation for molecular typing and prognosis of lung adenocarcinoma. PMID 39856156	Sci Rep	2025	83	L1 83/100
Exploration of the shared diagnostic genes and molecular mechanism between obesity and atherosclerosis via bioinformatic analysis. PMID 39825072	Sci Rep	2025	76	L1 76/100
Comprehensive analysis of transcriptomics and radiomics revealed the potential of TEDC2 as a diagnostic marker for lung adenocarcinoma. PMID 39553728	PeerJ	2024	80	L1 80/100
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
Constructing eRNA-mediated gene regulatory networks to explore the genetic basis of muscle and fat-relevant traits in pigs. PMID 38594607	Genet Sel Evol	2024	100	L1 100/100
ResnetAge: A Resnet-Based DNA Methylation Age Prediction Method. PMID 38247911	Bioengineering (Basel)	2023	75	L1 75/100
Exploring microproteins from various model organisms using the mip-mining database. PMID 37919660	BMC Genomics	2023	85	L1 85/100
Identification of a novel lncRNA prognostic signature and analysis of functional lncRNA AC115619.1 in hepatocellular carcinoma. PMID 37614318	Front Pharmacol	2023	87	L1 87/100
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
Screening of core genes prognostic for sepsis and construction of a ceRNA regulatory network. PMID 36855106	BMC Med Genomics	2023	86	L2 86/100
Hierarchical cell-type identifier accurately distinguishes immune-cell subtypes enabling precise profiling of tissue microenvironment with single-cell RNA-seque PMID 36681937	Brief Bioinform	2023	94	L1 94/100
FEM: mining biological meaning from cell level in single-cell RNA sequencing data. PMID 34909283	PeerJ	2021	75	L1 75/100
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
Estimation of peptide elongation times from ribosome profiling spectra. PMID 33885812	Nucleic Acids Res	2021	76	L1 76/100
Evaluating sequence data quality from the Swift Accel-Amplicon CFTR Panel. PMID 31913291	Sci Data	2020	89	L1 89/100
A cross-species approach to identify transcriptional regulators exemplified for Dnajc22 and Hnf4a. PMID 28642491	Sci Rep	2017	76	L1 76/100