Multiscale chromatin dynamics and
high entropy in plant iPSC ancestors — Journal of Cell Science
137(20), 2024.
Kinga Rutowicz, Joel Lüthi, Reinoud de Groot, René Holtackers,
Yauhen Yakimovich, Diana M. Pazmiño, Olivier Gandrillon, Lucas Pelkmans,
Célia Baroux.
doi:10.1242/jcs.261703 ·
data
Infectio: a Generic Framework
for Computational Simulation of Virus Transmission between Cells —
mSphere 1(1), 2016.
Artur Yakimovich, Yauhen Yakimovich, Michael Schmid, Jason Mercer,
Ivo F. Sbalzarini, Urs F. Greber. The first two authors contributed equally.
doi:10.1128/mSphere.00078-15
Computer vision for
image-based transcriptomics — Methods 85, 44–53, 2015.
Thomas Stoeger, Nico Battich, Markus D. Herrmann, Yauhen Yakimovich,
Lucas Pelkmans.
doi:10.1016/j.ymeth.2015.05.016
CXOR: A One-Bit Context
Transform over GF(2) and Its Sixteen Update Rules — 2026.
A one-bit context transform over GF(2): previous source bits select a one-bit
table entry and the algorithm emits the prediction residual. The paper
classifies the sixteen possible update rules by invertibility and adaptation
horizon.
doi:10.5281/zenodo.22727918
·
source and reference
implementation
Rarefied Data Compression
Method — 2008, published 2026.
A lossless compression method based on modular encoding for sources with known
alphabet redundancy. It derives limits on the achievable compression ratio and
adds a variant in which the characteristic vector of missing symbols is further
compressed by enumerative encoding. Written while a teaching assistant at the
Belarusian State University of Informatics and Radioelectronics; unpublished
until deposited on Zenodo.
doi:10.5281/zenodo.22729977
·
PDF
Work in progress, put online early. Expect rough edges and revisions.
Making Sense of LLM
Outputs — draft, 2026.
A model-relative framework for semantic invariance in language. It connects
Normalized Information Distance and Normalized Compression Distance to neural
entropy coding, separates entropy compression from semantic compression, and
treats meaning operationally as behavioral invariance under transformation:
a family of semantic utilities, each inducing its own operator and quotient
space, replaces a single universal abstraction hierarchy.
draft (PDF) ·
source
·
reference implementation