Author

F. Clark

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

Click to filter author papers

Bioengineering· 1 Bioinformatics· 1 Immunology· 1 Pharmacology & Toxicology· 1 Plant Biology· 1 Scientific Communication & Education· 1

Signature Assays, Organisms & Methods

Click to filter · or open tag

Approach:experimental assay· 2 Organism:human· 2 Assay:proteomics· 2 Research Focus:cell type annotation· 1 Approach:deep learning· 1 Research Focus:development & morphogenesis· 1 Assay:DNA methylation· 1 Research Focus:drug response / drug discovery· 1

Frequent Co-Authors

A. Gil· 1 shared A. H. K. Roeder· 1 shared A. Llaberia· 1 shared A. Meraviglia· 1 shared A. Perruchoud· 1 shared A. Runions· 1 shared B. Lane· 1 shared B. T. George· 1 shared

Activity by Year

2021-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 12 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

1 shared paperImmunology

A. Gil

Mutual co-authors in cluster

Author profile →

6 papers

Recent·Most cited

PyTorch Frustratometer: An Ultra-fast, Parallelized Tool for Proteome-Scale Local Energetic Frustration Analysis

E. J. Draizen, H. Jaafari, C. Bueno, A. Llaberia, F. Clark, E. A. Galpern, F. L. Simonetti, M. I. Freiberger, P. G. Wolynes, D. U. Ferreiro, R. Gonzalo Parra

The paper introduces a PyTorch-based tool for fast proteome-scale local frustration analysis, achieving 70-13,000x speedup over the original FrustratometeR.

bioRxiv · Nov 9, 2026 · PreprintBioinformatics

Growth history leaves a geometric trace in puzzle cells

N. Trozzi, B. Lane, A. Perruchoud, F. Clark, L. Hoermayer, A. Meraviglia, T. Reichgelt, A. H. K. Roeder, D. Kwiatkowska, A. Runions, R. S. Smith, M. Majda

The paper shows that puzzle-shaped cells record tissue growth history through geometric changes, validated in maize and Arabidopsis with mechanical simulations and imaging.

bioRxiv · Oct 1, 2023Plant Biology

A Novel Milli-fluidic Liver Tissue Chip with continuous Recirculation for Predictive pharmacokinetics Applications

S. A. P. Rajan, J. Sherfey, S. Ohri, L. Nichols, J. T. Smith, P. Parekh, E. P. Kadar, F. Clark, B. T. George, L. Gregory, D. Tess, J. R. Gosset, J. Liras, E. Geishecker, R. S. Obach, M. Cirit

This paper develops a milli-fluidic liver tissue chip with continuous recirculation to improve predictive pharmacokinetics by enhancing physiological relevance and long-term culture stability.

bioRxiv · Jul 24, 2023 · PreprintPharmacology & Toxicology

Co-evolution of human influenza A and Epstein Barr virus-specific CD8 ex vivo memory T cell receptor BV repertoires with increasing age

F. Clark, A. Gil, N. Aslan, D. Ghersi, L. K. Selin

This study shows that CD8 memory T cell receptor BV repertoires for influenza A and Epstein-Barr virus co-evolve with age, narrowing in diversity and focusing on common TRBV in older individuals.

bioRxiv · Dec 15, 2022 · PreprintImmunology

A modular intramolecular triplex photo-switching motif that enables rapid and reversible control of aptamer binding activity

T. Trinh, I. A. P. Thompson, F. Clark, J. M. Remington, M. Eisenstein, J. Li, H. T. Soh

This paper designs a DNA-based photoswitch that enables rapid and reversible control of aptamer binding activity through azobenzene isomerization.

bioRxiv · May 22, 2022 · PreprintBioengineering

Increasing Animal Cognition Research in Zoos

E. Garcia-Pelegrin, F. Clark, R. Miller (Harrison)

This paper outlines the benefits and challenges of conducting animal cognition research in zoos and provides examples of how to overcome these challenges through multi-zoo collaboration and innovative testing methods.

bioRxiv · Nov 24, 2021Scientific Communication & Education