Author

I. Kendiukhov

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Open access Sep 2026

Disagreement-Informed Arbitration for Gene Regulatory Network Inference: A Score-Level Meta-Classifier and a Diagnostic Typology of Inter-Method Conflict.

Gene regulatory network inference methods routinely disagree about individual edges, and practitioners resolve those conflicts by choosing one method or averaging them all. We ask whether the conflict can instead be arbitrated per edge. A gradient-boosted classifier is trained on the raw scores that ten inference metho...

I. Kendiukhov · Bio Systems · 0 citations

Open access Jul 2026

Residual-stream geometry of single-cell foundation models carries incremental gene-regulatory signal across tissues

Single-cell foundation models such as scGPT and Geneformer learn rich representations of gene expression programs, but whether these representations encode gene regulatory relationships beyond expression-level confounds remains unclear. Attention patterns in these models have been shown to capture co-expression rather...

I. Kendiukhov · BMC Bioinformatics · 0 citations

Review Aug 2026

A survey detection channel overrides the pixels in an astronomical foundation model, and biases tomographic mean redshifts

AION-1, a 39-modality transformer trained on more than 200 million objects, is audit, using causal interventions on its inputs, and two further limits lie in the tokeniser: its image codec resolves 28 effective states on source patches against 934 for the spectrum codec, and the redshift readout is quantisation-limited...

I. Kendiukhov · 0 citations