Inspired by: Julian Pietsch
Cell segmentation is the process of partitioning a digital image into multiple image segments, also known as image regions or image objects (sets of pixels). The goal of segmentation is to simplify and/or change the representation of an image into something that is more meaningful and easier to analyze for single cells. Wikipedia (CC BY-SA 3.0)
2023 Articles
2 920 articles
Cell sorters see things more clearly now
- Daniel Schraivogel, Lars M Steinmetz, Daniel Schraivogel, …, Lars M Steinmetz, Daniel Schraivogel, Lars M Steinmetz
- Mol Syst Biol, 10.15252/msb.202211254
A practical guide to deep-learning light-field microscopy for 3D imaging of biological dynamics
- Lanxin Zhu, Chengqiang Yi, Peng Fei, Lanxin Zhu, Chengqiang Yi, Peng Fei
- STAR Protoc, 10.1016/j.xpro.2023.102078
Level Set Image Feature Detection and Application in COVID-19 Image Feature Knowledge Detection
- Dongsheng Ji, Yafeng Liu, Qingyi Zhang, …, Yafeng Liu, Qingyi Zhang, Wenjun Zheng
- Biomed Res Int, 10.1155/2023/1632992
Single-shot quantitative phase contrast imaging based on deep learning
- Yu-Chun Lin, Yuan Luo, Ying-Ju Chen, …, Huei-Wen Chen, Tai-Horng Young, Hsuan-Ming Huang
- None, 10.1364/boe.493828
Artificial Intelligence in Omics
- Feng Gao, Kun Huang, Yi Xing, …, Feng Gao, Kun Huang, Yi Xing
- Genomics Proteomics Bioinformatics, 10.1016/j.gpb.2023.01.002
Machine learning enhanced cell tracking
- Christopher J Soelistyo, Kristina Ulicna, Alan R Lowe, Christopher J Soelistyo, Kristina Ulicna, Alan R Lowe
- None, 10.3389/fbinf.2023.1228989
When seeing is not believing: application-appropriate validation matters for quantitative bioimage analysis
- Jianxu Chen, Matheus P Viana, Jianxu Chen, …, Jianxu Chen, Matheus P Viana, Susanne M Rafelski
- Nat Methods, 10.1038/s41592-023-01881-4
CellSium: versatile cell simulator for microcolony ground truth generation
- Christian Carsten Sachs, Karina Ruzaeva, Johannes Seiffarth, …, Wolfgang Wiechert, Benjamin Berkels, Katharina Nöh
- None, 10.1093/bioadv/vbac053
Reporting reproducible imaging protocols
- DeLaine D Larsen, Nathalie Gaudreault, Holly C Gibbs, DeLaine D Larsen, Nathalie Gaudreault, Holly C Gibbs
- STAR Protoc, 10.1016/j.xpro.2022.102040
Scaling biological discovery at the interface of deep learning and cellular imaging
- Morgan Schwartz, Uriah Israel, Xuefei Julie Wang, …, Ross Barnowski, Edward Pao, David Van Valen
- Nat Methods, 10.1038/s41592-023-01931-x
2022 Articles
260 articles
A deep learning based method for automatic analysis of high-throughput droplet digital PCR images
- Jiahui Yu, Luhong Jin, Yunpeng Zhao, …, Dong Li, Hai Yu, Yingke Xu
- Analyst, 10.1039/d2an01631a
IMAGE-IN: Interactive web-based multidimensional 3D visualizer for multi-modal microscopy images
- Yubraj Gupta, Carlos Costa, Eduardo Pinho, …, Eduardo Pinho, LuÃs A Bastião Silva, Rainer Heintzmann
- PLoS One, 10.1371/journal.pone.0279825
BCM3D 2.0: accurate segmentation of single bacterial cells in dense biofilms using computationally generated intermediate image representations
- Ji Zhang, Yibo Wang, Eric D Donarski, …, Madeline T Miles, Scott T Acton, Andreas Gahlmann
- NPJ Biofilms Microbiomes, 10.1038/s41522-022-00362-4
Upgraded User-Friendly Image-Activated Microfluidic Cell Sorter Using an Optimized and Fast Deep Learning Algorithm
- Keondo Lee, Seong-Eun Kim, Seokho Nam, …, Seokho Nam, Junsang Doh, Wan Kyun Chung
- None, 10.3390/mi13122105
Tracing weak neuron fibers
- Yufeng Liu, Ye Zhong, Xuan Zhao, …, Lijuan Liu, Liya Ding, Hanchuan Peng
- Bioinformatics, 10.1093/bioinformatics/btac816
Automatic recognition of protein subcellular location patterns in single cells from immunofluorescence images based on deep learning
- Xi-Liang Zhu, Lin-Xia Bao, Min-Qi Xue, …, Lin-Xia Bao, Min-Qi Xue, Ying-Ying Xu
- Brief Bioinform, 10.1093/bib/bbac609
Novel transfer learning schemes based on Siamese networks and synthetic data
- Philip Kenneweg, Dominik Stallmann, Barbara Hammer, …, Philip Kenneweg, Dominik Stallmann, Barbara Hammer
- None, 10.1007/s00521-022-08115-2
An AI-based approach for detecting cells and microbial byproducts in low volume scanning electron microscope images of biofilms
- Dilanga Abeyrathna, Md Ashaduzzaman, Milind Malshe, …, Venkataramana Gadhamshetty, Parvathi Chundi, Mahadevan Subramaniam
- None, 10.3389/fmicb.2022.996400
Spatial omics technologies at multimodal and single cell/subcellular level
- Jiwoon Park, Junbum Kim, Tyler Lewy, …, Olivier Elemento, André F Rendeiro, Christopher E Mason
- Genome Biol, 10.1186/s13059-022-02824-6
Unbiased choice of global clustering parameters for single-molecule localization microscopy
- Pietro Verzelli, Andreas Nold, Chao Sun, …, Mike Heilemann, Erin M Schuman, Tatjana Tchumatchenko
- Sci Rep, 10.1038/s41598-022-27074-1