Johannes Linder

Also affiliated with BELECTRIC (Germany), Calico Life Sciences

Biochemistry, Genetics and Molecular BiologyImmunology and Microbiology

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 100%percentile

0Author DataRank

Indexed papers

0in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Papers

Driven by 14 papers. Top paper: “Parameter-efficient fine-tuning enables scalable transfer of regulatory sequence models to novel contexts”.

Parameter-efficient fine-tuning enables scalable transfer of regulatory sequence models to novel contexts

Genome Biology(2026)10.1186/s13059-026-03935-0

N/A

0.104DataRank · unranked

1 citations

Johannes Linder, Cheryl A. Keller, Han Yuan

A Generative Neural Network for Maximizing Fitness and Diversity of Synthetic DNA and Protein Sequences

Cell Systems(2020)10.1016/j.cels.2020.05.007

N/A

0DataRank · unranked

122 citations

Nicholas Bogard, Alexander B. Rosenberg, Georg Seelig, Johannes Linder

Fast activation maximization for molecular sequence design

BMC Bioinformatics(2021)10.1186/s12859-021-04437-5

N/A

0DataRank · unranked

64 citations

Georg Seelig, Johannes Linder

Deciphering the impact of genetic variation on human polyadenylation using APARENT2

Genome biology(2022)10.1186/s13059-022-02799-4

N/A

0DataRank · unranked

59 citations

Samantha E. Koplik, Anshul Kundaje, Georg Seelig, Johannes Linder

Interpreting neural networks for biological sequences by learning stochastic masks

Nature Machine Intelligence(2022)10.1038/s42256-021-00428-6

N/A

0DataRank · unranked

31 citations

Alyssa La Fleur, Zibo Chen, Ajasja Ljubetič, David Baker, Sreeram Kannan +2 more

Deciphering the Impact of Genetic Variation on Human Polyadenylation

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.05.09.491198

N/A

0DataRank · unranked

1 citations

Anshul Kundaje, Georg Seelig, Johannes Linder

Rewriting regulatory DNA to dissect and reprogram gene expression

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.12.20.572268

N/A

0DataRank · unranked

19 citations

Michael T. Montgomery, H. Spencer Jones, Katherine Guo, Benjamin R. Doughty, Johannes Linder +11 more

CPA-Perturb-seq: Multiplexed single-cell characterization of alternative polyadenylation regulators

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.02.09.527751

N/A

0DataRank · unranked

8 citations

Hans‐Hermann Wessels, Johannes Linder, Saket Choudhary, Austin Hartman, Yuhan Hao +5 more

Optimizing 5’UTRs for mRNA-delivered gene editing using deep learning

Nature Communications(2024)10.1038/s41467-024-49508-2

N/A

0DataRank · unranked

82 citations

Stephen Fedak, Ban Wang, Johannes Linder, Kyle Havens, Michael Certo +2 more

Multiplexed single-cell characterization of alternative polyadenylation regulators

Cell(2024)10.1016/j.cell.2024.06.005

N/A

0DataRank · unranked

48 citations

Hans‐Hermann Wessels, Johannes Linder, Carol Dalgarno, Isabella Mascio, Saket Choudhary +5 more

Predicting RNA-seq coverage from DNA sequence as a unifying model of gene regulation

Nature Genetics(2025)10.1038/s41588-024-02053-6

N/A

0DataRank · unranked

178 citations

Divyanshi Srivastava, Han Yuan, Vikram Agarwal, David R. Kelley, Johannes Linder

Selective State Space Models Outperform Transformers at Predicting RNA-Seq Read Coverage

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.02.13.638190

N/A

0DataRank · unranked

4 citations

Johannes Linder, David R. Kelley, Ian Holmes

Massively parallel assay of human splice variants reveals cis-regulatory drivers of disease-associated and cell type-specific splicing regulation

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.10.12.681955

N/A

0DataRank · unranked

1 citations

Angela M Yu, Madelyn R. Shelby, Guilherme Cordenonsi da Fonseca, Charles M. Roco, Y Zhang +6 more

Predicting dynamic expression patterns in budding yeast with a fungal DNA language model

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.09.19.677475

N/A

0DataRank · unranked

0 citations

Majed Mohamed Magzoub, Emily H. Stoops, Sean R. Hackett, Johannes Linder, David R. Kelley +1 more