Theis FJ

Family name	Theis
Given name	Fabian J
Initials	FJ
ORCID	ORCID 0000-0002-2419-1943
Affiliations	Institute of Computational Biology, Helmholtz Zentrum München, Neuherberg, Germany.

13 publications

PubMed DOI Crossref

Spatial single-cell atlas reveals regional variations in healthy and diseased human lung.

Firsova AB, Marco Salas S, Kuemmerle LB, ..., Nawijn MC, Samakovlis C

Nat Commun 16 (1) 9745 [2025-11-05; online 2025-11-05]

PubMed DOI Crossref

Defining and benchmarking open problems in single-cell analysis.

Luecken MD, Gigante S, Burkhardt DB, ..., Theis FJ, Krishnaswamy S

Nat. Biotechnol. 43 (7) 1035-1040 [2025-07-00; online 2025-07-02]

PubMed DOI Crossref

Optimizing Xenium In Situ data utility by quality assessment and best-practice analysis workflows.

Marco Salas S, Kuemmerle LB, Mattsson-Langseth C, ..., Ishaque N, Nilsson M

Nat. Methods 22 (4) 813-823 [2025-04-00; online 2025-03-13]

DOI Crossref

2D, or not 2D? Investigating Vertical Signal Integrity of Tissue Slices

Tiesmeyer S, Müller-Bötticher N, Malt A, ..., Long B, Ishaque N

- - (-) - [2025-01-15; online 2025-01-15]

PubMed DOI Crossref

Probe set selection for targeted spatial transcriptomics.

Kuemmerle LB, Luecken MD, Firsova AB, ..., Samakovlis C, Theis FJ

Nat. Methods 21 (12) 2260-2270 [2024-12-00; online 2024-11-18]

DOI Crossref

A topographic lung cell atlas reveals regional variation in cell-type specific gene programs and identifies healthy and diseased cellular neighborhoods

Samakovlis C, Firsova A, Salas SM, ..., Nilsson M, Nawijn M

- - (-) - [2024-10-07; online 2024-10-07]

PubMed DOI Crossref

Defining and benchmarking open problems in single-cell analysis.

Luecken MD, Gigante S, Burkhardt DB, ..., Theis FJ, Krishnaswamy S

Res Sq - (-) - [2024-04-04; online 2024-04-04]

PubMed DOI Crossref

OME-Zarr: a cloud-optimized bioimaging file format with international community support.

Moore J, Basurto-Lozada D, Besson S, ..., Theis FJ, Swedlow JR

Histochem Cell Biol 160 (3) 223-251 [2023-09-00; online 2023-07-10]

DDLS Fellow Wei Ouyang

PubMed DOI Crossref

OME-Zarr: a cloud-optimized bioimaging file format with international community support.

Moore J, Basurto-Lozada D, Besson S, ..., Theis FJ, Swedlow JR

bioRxiv - (-) - [2023-05-07; online 2023-05-07]

DDLS Fellow Wei Ouyang

DOI Crossref

Optimizing Xenium In Situ data utility by quality assessment and best practice analysis workflows

Salas SM, Czarnewski P, Kuemmerle LB, ..., Ishaque N, Nilsson M

- - (-) - [2023-02-14; online 2023-02-14]

DOI Crossref

Probe set selection for targeted spatial transcriptomics

Kuemmerle LB, Luecken MD, Firsova AB, ..., Samakovlis C, Theis FJ

- - (-) - [2022-08-17; online 2022-08-17]

PubMed DOI Crossref

Publisher Correction: LifeTime and improving European healthcare through cell-based interceptive medicine.

Rajewsky N, Almouzni G, Gorski SA, ..., Voet T, LifeTime Community Working Groups

Nature 592 (7852) E8 [2021-04-00; online 2021-03-19]

PubMed DOI Crossref

LifeTime and improving European healthcare through cell-based interceptive medicine.

Rajewsky N, Almouzni G, Gorski SA, ..., Voet T, LifeTime Community Working Groups

Nature 587 (7834) 377-386 [2020-11-00; online 2020-09-07]