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Orsolya Lapohos

dblp:436/5743 · DBLP profile ↗
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1ranked-venue papers
1as first author
1since 2021 · last 2026
0000-0001-9409-2484ORCID · reported

Domains — the database's venue-derived domains; a paper can count in several

Applied, interdisciplinary, general and emerging computing · 1 · 1 first-author · 1 since 2021

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Interdisciplinary, comprehensive, and emerging computing
1 paper
Bioinformatics and computational biology · 100%

Topics — the 3 heaviest of 3, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Bioinformatics and computational biology › epigenomics
chromatin accessibility
1.012026
Refining sequence-to-expression modelling with chromatin accessibility · Bioinform. 2026
Bioinformatics and computational biology › gene expression analysis
gene expression prediction
1.012026
Refining sequence-to-expression modelling with chromatin accessibility · Bioinform. 2026
Bioinformatics and computational biology › gene regulation
regulatory genomics
1.012026
Refining sequence-to-expression modelling with chromatin accessibility · Bioinform. 2026

Methods — techniques the papers use, named apart from their topics

fine-tuning · 1.0deep learning · 1.0attribution analysis · 1.0
YearPublicationVenuePosition
2026 Refining sequence-to-expression modelling with chromatin accessibility
abstract
MOTIVATION: Sequence-to-expression models typically do not consider chromatin accessibility, a major factor limiting gene regulation. We hypothesized that supplying accessibility as an input feature would allow a sequence-to-expression model to focus on important open regions of the genome. RESULTS: We found that the performance of such an augmented model was significantly better than that of sequence-only or accessibility-only models with similar architectures. Specifically, its ability to predict the expression of highly variable genes and gene expression in other cell types improved, and higher attribution scores in the input DNA sequences of the augmented model conformed to accessibility, enabling the learning of cell type-specific sequence patterns. Additionally, we show that fine-tuning a pre-trained sequence-only model with both sequence and accessibility can boost performance further and highlight the importance of sequencing depth in sequence-to-expression prediction. AVAILABILITY AND IMPLEMENTATION: Source code is available on GitHub at https://github.com/lapohosorsolya/accessible_seq2exp.
Orsolya Lapohos, Gregory Joseph Fonseca, Amin Emad
Bioinform.1