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Niklas Schmidinger

dblp:263/8032 · DBLP profile ↗
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1ranked-venue papers
1as first author
1since 2021 · last 2025
—ORCID · none

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

Artificial intelligence and machine learning · 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.

Artificial intelligence
1 paper
Deep learning architectures and training · 67% Language models and text generation · 33%
Interdisciplinary, comprehensive, and emerging computing
1 paper
Bioinformatics and computational biology · 100%

Topics — the 3 heaviest of 4, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Machine learning › Deep learning architectures and training
recurrent neural network
0.912025
Bio-xLSTM: Generative modeling, representation and in-context learning of biological and chemical sequences · ICLR 2025
Machine learning › Deep learning architectures and training › recurrent neural network › LSTM
xLSTM
0.912025
Bio-xLSTM: Generative modeling, representation and in-context learning of biological and chemical sequences · ICLR 2025
Bioinformatics and computational biology › sequence analysis › sequence modeling
biological sequence modeling
0.912025
Bio-xLSTM: Generative modeling, representation and in-context learning of biological and chemical sequences · ICLR 2025

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

xLSTM · 1.7in-context learning · 1.7generative modeling · 1.7
YearPublicationVenuePosition
2025 Bio-xLSTM: Generative modeling, representation and in-context learning of biological and chemical sequences
abstract
Language models for biological and chemical sequences enable crucial applications such as drug discovery, protein engineering, and precision medicine. Currently, these language models are predominantly based on Transformer architectures. While Transformers have yielded impressive results, their quadratic runtime dependency on sequence length complicates their use for long genomic sequences and in-context learning on proteins and chemical sequences. Recently, the recurrent xLSTM architecture has been shown to perform favorably compared to Transformers and modern state-space models (SSMs) in the natural language domain. Similar to SSMs, xLSTMs have linear runtime dependency and allow for constant-memory decoding at inference time, which makes them prime candidates for modeling long-range dependencies in biological and chemical sequences. In this work, we tailor xLSTM towards these domains and we propose a suite of language models called Bio-xLSTM. Extensive experiments in three large domains, genomics, proteins, and chemistry, were performed to assess xLSTM’s ability to model biological and chemical sequences. The results show that Bio-xLSTM is a highly proficient generative model for DNA, protein, and chemical sequences, learns rich representations, and can perform in-context learning for proteins and small molecules.
Niklas Schmidinger, Lisa Schneckenreiter, Philipp Seidl, Johannes Schimunek, Pieter-Jan Hoedt, Johannes Brandstetter, Sohvi Luukkonen, Sepp Hochreiter, Günter Klambauer
ICLR1