Wei Ouyang

JSON
CSV
XLSX
TXT

Primary: Shown in the list of current labels.

Year 2025

PubMed DOI Crossref
Image based subcellular mapping of the protein landscape of SARS-CoV-2 infected cells for target-centric drug repurposing.
Tampere M, H Le T, Asp E, ..., Östling P, Stadler C
Biomed. Pharmacother. 191 (-) 118447 [2025-10-00; online 2025-08-16]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
U-FISH: a fluorescent spot detector for imaging-based spatial-omics analysis and AI-assisted FISH diagnosis.
Xu W, Cai H, Zhang Q, ..., Ouyang W, Cao G
Genome Biol. 26 (1) 261 [2025-09-01; online 2025-09-01]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
Cell shapes decode molecular phenotypes in image-based spatial proteomics.
Le T, Leineweber WD, Viana MP, ..., Rafelski SM, Lundberg E
bioRxiv - (-) - [2025-05-16; online 2025-05-16]
DDLS Fellow Wei Ouyang

Year 2024

PubMed DOI Crossref
Bridging the gap: Integrating cutting-edge techniques into biological imaging with deepImageJ.
Fuster-Barceló C, García-López-de-Haro C, Gómez-de-Mariscal E, ..., Sage D, Muñoz-Barrutia A
Biol Imaging 4 (-) e14 [2024-11-22; online 2024-11-22]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
ESPressoscope: A small and powerful approach for in situ microscopy.
Li E, Saggiomo V, Ouyang W, Prakash M, Diederich B
PLoS ONE 19 (10) e0306654 [2024-10-16; online 2024-10-16]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
BioImage.IO Chatbot: a community-driven AI assistant for integrative computational bioimaging.
Lei W, Fuster-Barceló C, Reder G, Muñoz-Barrutia A, Ouyang W
Nat. Methods 21 (8) 1368-1370 [2024-08-00; online 2024-08-10]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
DL4MicEverywhere: deep learning for microscopy made flexible, shareable and reproducible.
Hidalgo-Cenalmor I, Pylvänäinen JW, G Ferreira M, ..., Henriques R, Gómez-de-Mariscal E
Nat. Methods 21 (6) 925-927 [2024-06-00; online 2024-05-18]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
Macromolecular condensation organizes nucleolar sub-phases to set up a pH gradient.
King MR, Ruff KM, Lin AZ, ..., Vahey MD, Pappu RV
Cell 187 (8) 1889-1906.e24 [2024-04-11; online 2024-03-18]
DDLS Fellow Wei Ouyang
DOI Crossref
U-FISH: a universal deep learning approach for accurate FISH spot detection across diverse datasets
Xu W, Cai H, Zhang Q, ..., Ouyang W, Cao G
- - (-) - [2024-03-11; online 2024-03-11]
DDLS Fellow Wei Ouyang
DOI Crossref
ESPressoscope: a small and powerful platform for in situ microscopy
Li E, Saggiomo V, Ouyang W, Prakash M, Diederich B
- - (-) - [2024-01-31; online 2024-01-31]
DDLS Fellow Wei Ouyang
DOI Crossref
Bridging the Gap: Integrating Cutting-edge Techniques into Biological Imaging with deepImageJ
Fuster-Barceló C, García López de Haro C, Gómez-de-Mariscal E, ..., Sage D, Muñoz-Barrutia A
- - (-) - [2024-01-15; online 2024-01-15]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
JDLL: a library to run deep learning models on Java bioimage informatics platforms.
García López de Haro C, Dallongeville S, Musset T, ..., Tinevez JY, Olivo-Marin JC
Nat. Methods 21 (1) 7-8 [2024-01-00; online 2024-01-09]
DDLS Fellow Wei Ouyang

Year 2023

PubMed DOI Crossref
Building the next generation of virtual cells to understand cellular biology.
Johnson GT, Agmon E, Akamatsu M, ..., Rafelski S, Horwitz R
Biophys. J. 122 (18) 3560-3569 [2023-09-19; online 2023-04-11]
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
Histochem Cell Biol 160 (3) 223-251 [2023-09-00; online 2023-07-10]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
Moving beyond the desktop: prospects for practical bioimage analysis via the web.
Ouyang W, Eliceiri KW, Cimini BA
Front Bioinform 3 (-) 1233748 [2023-07-25; online 2023-07-25]
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

Year 2022

DOI Crossref
ISG15-modification of the Arp2/3 complex restricts pathogen spread
Zhang Y, Ripley B, Ouyang W, ..., Guerra S, Radoshevich L
- - (-) - [2022-12-27; online 2022-12-27]
DDLS Fellow Wei Ouyang
DOI Crossref
Uncovering molecular grammars of intrinsically disordered regions that organize nucleolar fibrillar centers
King MR, Lin AZ, Ruff KM, ..., Lundberg E, Pappu RV
- - (-) - [2022-11-05; online 2022-11-05]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
ShareLoc - an open platform for sharing localization microscopy data.
Ouyang W, Bai J, Singh MK, ..., Lelandais B, Zimmer C
Nat. Methods 19 (11) 1331-1333 [2022-11-00; online 2022-10-22]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
Analysis of the Human Protein Atlas Weakly Supervised Single-Cell Classification competition.
Le T, Winsnes CF, Axelsson U, ..., Ouyang W, Lundberg E
Nat. Methods 19 (10) 1221-1229 [2022-10-00; online 2022-09-29]
DDLS Fellow Wei Ouyang
DOI Crossref
BioImage Model Zoo: A Community-Driven Resource for Accessible Deep Learning in BioImage Analysis
Ouyang W, Beuttenmueller F, Gómez-de-Mariscal E, ..., Jug F, Kreshuk A
- - (-) - [2022-06-08; online 2022-06-08]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
FISH-quant v2: a scalable and modular tool for smFISH image analysis.
Imbert A, Ouyang W, Safieddine A, ..., Walter T, Mueller F
RNA 28 (6) 786-795 [2022-06-00; online 2022-03-28]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
An Open-Source Modular Framework for Automated Pipetting and Imaging Applications.
Ouyang W, Bowman RW, Wang H, ..., Carreras-Puigvert J, Diederich B
Adv Biol (Weinh) 6 (4) e2101063 [2022-04-00; online 2021-10-24]
DDLS Fellow Wei Ouyang

Year 2021

PubMed DOI Crossref
A multi-scale map of cell structure fusing protein images and interactions.
Qin Y, Huttlin EL, Winsnes CF, ..., Lundberg E, Ideker T
Nature 600 (7889) 536-542 [2021-12-00; online 2021-11-24]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
DeepImageJ: A user-friendly environment to run deep learning models in ImageJ.
Gómez-de-Mariscal E, García-López-de-Haro C, Ouyang W, ..., Muñoz-Barrutia A, Sage D
Nat. Methods 18 (10) 1192-1195 [2021-10-00; online 2021-09-30]
DDLS Fellow Wei Ouyang
DOI Crossref
ShareLoc – an open platform for sharing localization microscopy data
Bai J, Ouyang W, Singh MK, ..., Lelandais B, Zimmer C
- - (-) - [2021-09-09; online 2021-09-09]
DDLS Fellow Wei Ouyang
DOI Crossref
FISH-quant v2: a scalable and modular analysis tool for smFISH image analysis
Imbert A, Ouyang W, Safieddine A, ..., Walter T, Mueller F
- - (-) - [2021-07-20; online 2021-07-20]
DDLS Fellow Wei Ouyang
DOI Crossref
An Open-Source Modular Framework for Automated Pipetting and Imaging Applications
Ouyang W, Bowman R, Wang H, ..., Carreras-Puigvert J, Diederich B
bioRxiv - (-) - [2021-06-24; online 2021-06-24]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
Pycro-Manager: open-source software for customized and reproducible microscope control.
Pinkard H, Stuurman N, Ivanov IE, ..., Mehta SB, Waller L
Nat. Methods 18 (3) 226-228 [2021-03-00; online 2021-03-07]
DDLS Fellow Wei Ouyang
DOI Crossref
Interactive biomedical segmentation tool powered by deep learning and ImJoy
Ouyang W, Le T, Xu H, Lundberg E
F1000Res 10 (-) 142 [2021-02-24; online 2021-02-24]
DDLS Fellow Wei Ouyang

Year 2020

PubMed DOI Crossref
Author Correction: Analysis of the Human Protein Atlas Image Classification competition.
Ouyang W, Winsnes CF, Hjelmare M, ..., Kappel C, Lundberg E
Nat. Methods 17 (9) 948 [2020-09-00; online 2020-08-08]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
Mapping the nucleolar proteome reveals a spatiotemporal organization related to intrinsic protein disorder.
Stenström L, Mahdessian D, Gnann C, ..., Thul PJ, Lundberg E
Mol Syst Biol 16 (8) e9469 [2020-08-00; online 2020-08-04]
DDLS Fellow Wei Ouyang
DOI Crossref
Mapping cell structure across scales by fusing protein images and interactions
Qin Y, Winsnes CF, Huttlin EL, ..., Lundberg E, Ideker T
- - (-) - [2020-06-22; online 2020-06-22]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
Publisher Correction: Analysis of the Human Protein Atlas Image Classification competition.
Ouyang W, Winsnes CF, Hjelmare M, ..., Kappel C, Lundberg E
Nat. Methods 17 (2) 241 [2020-02-00; online 2020-01-24]
DDLS Fellow Wei Ouyang
DOI Crossref
Mapping the nucleolar proteome reveals a spatiotemporal organization related to intrinsic protein disorder
Stenström L, Mahdessian D, Gnann C, ..., Thul PJ, Lundberg E
bioRxiv - (-) - [2020-01-30; online 2020-01-30]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
Publisher Correction: Analysis of the Human Protein Atlas Image Classification competition.
Ouyang W, Winsnes CF, Hjelmare M, ..., Kappel C, Lundberg E
Nat. Methods 17 (1) 115 [2020-01-00; online 2019-12-12]
DDLS Fellow Wei Ouyang

Year 2019

PubMed DOI Crossref
ImJoy: an open-source computational platform for the deep learning era.
Ouyang W, Mueller F, Hjelmare M, Lundberg E, Zimmer C
Nat. Methods 16 (12) 1199-1200 [2019-12-00; online 2019-11-30]
DDLS Fellow Wei Ouyang
PubMed DOI Crossref
Analysis of the Human Protein Atlas Image Classification competition.
Ouyang W, Winsnes CF, Hjelmare M, ..., Kappel C, Lundberg E
Nat. Methods 16 (12) 1254-1261 [2019-12-00; online 2019-11-28]
DDLS Fellow Wei Ouyang
DOI Crossref
DeepImageJ: A user-friendly environment to run deep learning models in ImageJ
Gómez-de-Mariscal E, García-López-de-Haro C, Ouyang W, ..., Muñoz-Barrutia A, Sage D
bioRxiv - (-) - [2019-10-16; online 2019-10-16]
DDLS Fellow Wei Ouyang
SciLifeLab Data Centre
Publications 9.5.1