Molecular Biology

Discover the top 1% of molecular biology preprints on bioRxiv, ranked by QED Score for originality and validity. This collection highlights new research on gene expression, transcription, RNA biology, DNA replication and repair, and protein regulation, with a breakdown of each paper's key claims and evidence.

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How the QED Score works

QED Score is a validated AI-based quality metric that evaluates life science papers on two dimensions: originality and validity. Each manuscript is anonymized, broken down into its claims and supporting evidence, and examined by specialized AI agents for statistical rigor, consistency across figures, and fit with the existing literature. Scores are percentile ranks, so they're comparable across fields. In blinded tests, expert professors sided with QED Score over journal rank in 75% of decisive cases.

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Physiology

Animal Behavior and Cognition

Plant Biology

Developmental Biology

Molecular Biology

Triplex formation drives noncontiguous VIPR RNA-guided DNA recognition

Diverse bacterial pattern recognition receptors sense the core phage proteome

Cryo-EM as latent structural landscape microscopy

A Noncontiguous Code for RNA-Guided DNA Recognition Preceded CRISPR

Transcription directs Holliday junction branch migration

Quinone reductase 2 reads H3 serotonylation to support neuronal maturation

Pseudouridine selects RNAs for extracellular transport

Mechanistic insight into the phosphorylation of ERK by MEK

In situ cryo-ET of mammalian embryos reveals cytoplasmic lattices contain ubiquitin-charged E2-E3 ligase assemblies

Extended nuclear glycosylation regulates RNA processing

Exapted CRISPR-Cas12f homologs drive RNA-guided transcription

BioReason-Pro: Advancing Protein Function Prediction with Multimodal Biological Reasoning

Single-Cell and Spatial Methods for Multimodal Functional Glycan Profiling in Tissues

Cohesin acts as a transcriptional gatekeeper by restraining pause–release to promote processive elongation

A Naïve RNA Sampling Core Enables Adaptive piRNA Specificity Against Transposable Elements

mRNA 3′UTRs chaperone intrinsically disordered regions to control protein activity

Microhomology-mediated end joining acts directly on replication forks to repair single-ended double strand breaks

In vivo kinetics of protein degradation by individual proteasomes

Hidden stop codons orchestrate mRNA fate by ambushing ribosomal frameshifting associated with codon usage

Tiarins, a diverse family of natural Trojan-horse aminoacyl-tRNA synthetase inhibitors discovered by genome mining

An intron-based timer for circadian rhythms

Decoding Condensate Composition Reveals Tunable Interactomes and Functions of Disordered Proteins

Generative Design of Cell Type-Specific RNA Splicing Elements for Programmable Gene Regulation

Orthosteric Molecular Glue Inhibits COP9 Signalosome with Substrate-Dependent Potency

RNA reinforces condensate nucleation on chromatin to amplify oncogenic transcription

Reductive death is averted by an ancient metabolic switch

Uncovering the molecular basis of kinase activity and substrate recognition with phospho-PCA

Yuanyang allele pairs enable engineered obligate co-inheritance for population replacement and suppression

A SWI/SNF-specific Ig-like domain, SWIFT, is a transcription factor binding platform

Activator–promoter compatibility in mammals: a CpG-Island-specific co-activator directly bridges transcription factors to TFIID

Functional diversification of the cephalopod proteome by RNA-editing

RNA decay via the nuclear exosome is essential for Piwi-mediated transposon silencing

Tiarins, a diverse family of natural Trojan-horse aminoacyl-tRNA synthetase inhibitors discovered by genome mining

Hidden stop codons orchestrate mRNA fate by ambushing ribosomal frameshifting associated with codon usage

In vivo kinetics of protein degradation by individual proteasomes

Microhomology-mediated end joining acts directly on replication forks to repair single-ended double strand breaks

mRNA 3′UTRs chaperone intrinsically disordered regions to control protein activity

A Naïve RNA Sampling Core Enables Adaptive piRNA Specificity Against Transposable Elements

Cohesin acts as a transcriptional gatekeeper by restraining pause–release to promote processive elongation

Single-Cell and Spatial Methods for Multimodal Functional Glycan Profiling in Tissues

Hidden stop codons orchestrate mRNA fate by ambushing ribosomal frameshifting associated with codon usage

High-resolution spatial mapping of cell state and lineage dynamics in vivo with PEtracer

Inducible formation of fusion transcripts upregulates haploinsufficient CHD2 gene expression

In situ cryo-ET of mammalian embryos reveals cytoplasmic lattices contain ubiquitin-charged E2-E3 ligase assemblies

In-situ structures of the Legionella Dot/Icm T4SS identify the DotA-IcmX complex as the gatekeeper for effector translocation

In vivo kinetics of protein degradation by individual proteasomes

Mechanistic insight into the phosphorylation of ERK by MEK

Mechanosensitive Endothelial METTL7A Regulates Internal m7G mRNA Methylation and Protects Against Atherosclerosis

Microhomology-mediated end joining acts directly on replication forks to repair single-ended double strand breaks

Molecular basis of polyadenylated RNA fate determination in the nucleus

Molecular surface mimicry enables CRBN to target G3BP2 for degradation

mRNA 3′UTRs chaperone intrinsically disordered regions to control protein activity

Nuclear polysaccharides maintain H3K9me3-heterochromatin and genomic stability

Orthosteric Molecular Glue Inhibits COP9 Signalosome with Substrate-Dependent Potency

Oxidative stress sensing by the translation elongation machinery promotes production of detoxifying selenoproteins

PDS5 proteins control genome architecture by limiting the lifetime of cohesin-NIPBL complexes

Pseudouridine selects RNAs for extracellular transport

Quinone reductase 2 reads H3 serotonylation to support neuronal maturation

Reductive death is averted by an ancient metabolic switch

RNA decay via the nuclear exosome is essential for Piwi-mediated transposon silencing

How the QED Score works

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