Testbed

Basic formatting

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.

External link

Internal link

italic text

bold text

strike-through text

Text with extra blank lines above and below

• list item a
• list item b
• list item c

1. ordered list item 1
2. ordered list item 2
3. ordered list item 3

1. top level list item
   • nested list item
     1. even deeper nested list item

Plain image:

Heading 1

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Heading 2

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Heading 3

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Heading 4

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Heading 5

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Heading 6

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

It was the best of times it was the worst of times. It was the age of wisdom, it was the age of foolishness. It was the spring of hope, it was the winter of despair.

// some code with syntax highlighting
const popup = document.querySelector("#popup");
popup.style.width = "100%";
popup.innerText =
  "Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.";

This sentence has inline code, useful for making references to variables, packages, versions, etc. within a sentence.

Lorem ipsum dolor sit amet.

Consectetur adipiscing elit.

Sed do eiusmod tempor incididunt.

Jekyll Spaceship

$ a * b = c ^ b $

$ 2^{\frac{n-1}{3}} $

$ \int_a^b f(x)\,dx. $

Components

Section

Section, background

Section, dark=true

Section, background dark=true

Section, size=wide

Section, size=full w/ figure

Figure

Button

Icon

Lorem Ipsum Dolor

Feature

Title

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Title

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

List

List citations

2025

2024

2023

2021

2020

2019

2018

2017

2016

2015

2014

List projects

List team members

Adrian Morgan Sebuliba Software Engineer

Davide Panzeri Postdoc Researcher

Editha Jasniewicz Master student

Iqbal Ashik Emon Master student

Hongxiao Wang Visiting Scholar

Jair Sánchez Contreras Ph.D. Researcher

Jan Sollmann Master (Now Ph.D. at RUB)

Jianxu Chen Principal Investigator

Justin Sonneck Ph.D. Researcher

Kathrin Krieger Postdoc Researcher

Lennart Kowitz Software Engineer

Leon Boon High school

Peter Lampen Software Engineer

Shuo Zhao Ph.D. Researcher

Simon Püttmann Ph.D. Researcher

Sweta Banerjee Scientist

Xiaowei Xu Visiting Scholar

Ye Zhang Visiting Scholar

Yu Zhou Ph.D. Researcher

List blog posts

2023

Example post 3

john-doe February 23, 2023 June 26, 2025

biology medicine

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

2021

2020

2019

Citation

[no title info]

[no publisher info]  ·  [no date info]  ·  [no id info]

Card

A Large Card A cool card

A cool description

manual-tag

A Small Card A cool card

Lorem ipsum

manual-tag

Portrait

Manual name

Post Excerpt

Alert

Tags

Float

Figures

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.

Code

const test = "Lorem ipsum dolor sit amet, consectetur adipiscing elit.";

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Nulla facilisi etiam dignissim diam quis. Id aliquet lectus proin nibh nisl condimentum id venenatis a. Tristique magna sit amet purus gravida quis blandit turpis cursus. Ultrices eros in cursus turpis massa tincidunt dui ut ornare. A cras semper auctor neque vitae tempus quam pellentesque nec. At tellus at urna condimentum mattis pellentesque. Ipsum consequat nisl vel pretium. Ultrices mi tempus imperdiet nulla malesuada pellentesque elit eget gravida. Integer vitae justo eget magna fermentum iaculis eu non diam. Mus mauris vitae ultricies leo integer malesuada nunc vel. Leo integer malesuada nunc vel risus. Ornare arcu odio ut sem nulla pharetra. Purus semper eget duis at tellus at urna condimentum. Enim neque volutpat ac tincidunt vitae semper quis lectus.

Grid

Regular

With Markdown images

Square

With figure components

Grid of citations

2025

Rethinking deep learning in bioimaging through a data centric lens

Jiajun Cao, Jan Wenzel, Shanghang Zhang, Josephine Lampe, Hongxiao Wang, …, Chao Chen, Markus Schwaninger, Jufeng Yang, Danny Z. Chen, Jianxu Chen

npj Imaging  ·  26 Jun 2025  ·  doi:10.1038/s44303-025-00092-0

deep-learning validation

Uncertainty-aware quantitative analysis of high-throughput live cell migration data

Simo Kitanovski, Shannon Conroy, Justin Sonneck, Madeleine Dorsch, Sebastian Urban, Jianxu Chen, Barbara M. Grüner, Daniel Hoffmann

Cold Spring Harbor Laboratory  ·  17 Jun 2025  ·  doi:10.1101/2025.06.12.659342

cell-tracking cell-biology

MSI-Explorer: Napari-Powered Tool for Mass Spectrometry Imaging Data Analysis

Nay Min Min Thaw Saw, Lennart Kowitz, Peter Lampen, Siva Swapna Kasarla, Antonia Fecke, Jianxu Chen, Prasad Phapale

Analytical Chemistry  ·  06 Jun 2025  ·  doi:10.1021/acs.analchem.5c01513

napari msi

Colony context and size-dependent compensation mechanisms give rise to variations in nuclear growth trajectories

Julie C. Dixon, Christopher L. Frick, Chantelle L. Leveille, Philip Garrison, Peyton A. Lee, …, Ruian Yang, Daniel M. Toloudis, Matheus P. Viana, Julie A. Theriot, Susanne M. Rafelski

Cell Systems  ·  01 May 2025  ·  doi:10.1016/j.cels.2025.101265

cell-biology deep-learning cell-tracking

The Four Color Theorem for Cell Instance Segmentation

Y. Zhang, Y. Zhou, Y. Wang, J. Xiao, Z. Wang, Y. Zhang, J. Chen

Forty-second International Conference on Machine Learning  ·  01 May 2025  ·  [no id info]

deep-learning image-segmentation

Category Prompt Mamba Network for Nuclei Segmentation and Classification

Ye Zhang, Zijie Fang, Yifeng Wang, Lingbo Zhang, Xianchao Guan, Yongbing Zhang

Proceedings of the AAAI Conference on Artificial Intelligence  ·  11 Apr 2025  ·  doi:10.1609/aaai.v39i10.33116

image-segmentation deep-learning

Inhibition of tumour necrosis factor alpha by Etanercept attenuates Shiga toxin-induced brain pathology

Robin Christ, Devon Siemes, Shuo Zhao, Lars Widera, Philippa Spangenberg, …, Hannah Voss, Hartmut Schlüter, Olga Shevchuk, Jianxu Chen, Daniel R. Engel

Journal of Neuroinflammation  ·  07 Feb 2025  ·  doi:10.1186/s12974-025-03356-z

active-learning image-segmentation

Risk beyond neutropenia: insights into neutrophil migration from newly diagnosed AML until late after allogeneic stem cell transplantation

Zülal Cibir, Alexander Beer, Andreas Kraus, Aleksandra Pillibeit, Dana Bludau, …, Maxim Cherneha, Dietrich W Beelen, H Christian Reinhardt, Matthias Gunzer, Amin T Turki

Journal of Leukocyte Biology  ·  01 Feb 2025  ·  doi:10.1093/jleuko/qiae250

cell-tracking

Deep learning without stress data on the discovery of multi-regional hyperelastic properties

Ruike Shi, Haitian Yang, Jianxu Chen, Klaus Hackl, Stéphane Avril, Yiqian He

Computational Mechanics  ·  28 Jan 2025  ·  doi:10.1007/s00466-024-02591-0

ai-for-physics

Leonardo: A Toolset to Remove Sample-Induced Aberrations in Light Sheet Microscopy Images

Tingying Peng, Yu Liu, Gesine Müller, Lennart Kowitz, Tomas Chobola, …, Ali Ertürk, Nassir Navab, Carsten Marr, Jianxu Chen, Jan Huisken

Springer Science and Business Media LLC  ·  24 Jan 2025  ·  doi:10.21203/rs.3.rs-5853941/v1

lsfm

Active Learning Pipeline for Biomedical Image Instance Segmentation with Minimal Human Intervention

Shuo Zhao, Yu Zhou, Jianxu Chen

Informatik aktuell  ·  01 Jan 2025  ·  doi:10.1007/978-3-658-47422-5_48

active-learning image-segmentation

2024

Is the Apple Vision Pro the Ultimate Display? A First Perspective and Survey on Entering the Wonderland of Precision Medicine

Jan Egger, Christina Gsaxner, Gijs Luijten, Jianxu Chen, Xiaojun Chen, Jiang Bian, Jens Kleesiek, Behrus Puladi

JMIR Serious Games  ·  18 Sep 2024  ·  doi:10.2196/52785

visualization multisensory-xr

Multimodal large language models for bioimage analysis

Shanghang Zhang, Gaole Dai, Tiejun Huang, Jianxu Chen

Nature Methods  ·  01 Aug 2024  ·  doi:10.1038/s41592-024-02334-2

deep-learning foundation-model multimodal

Multisensory Extended Reality Applications Offer Benefits for Volumetric Biomedical Image Analysis in Research and Medicine

Kathrin Krieger, Jan Egger, Jens Kleesiek, Matthias Gunzer, Jianxu Chen

Journal of Imaging Informatics in Medicine  ·  11 Jun 2024  ·  doi:10.1007/s10278-024-01094-x

visualization multisensory-xr

2D Label-Free Prediction of Multiple Organelles Across Different Transmitted-Light Microscopy Images with Bag-of-Experts

Yu Zhou, Shuo Zhao, Justin Sonneck, Jianxu Chen

IEEE ISBI Conference  ·  27 May 2024  ·  doi:10.1109/ISBI56570.2024.10635298

labelfree deep-learning

Topological Analysis of Mouse Brain Vasculature via 3d Light-Sheet Microscopy Images

Jiachen Yao, Nina Hagemann, Qiaojie Xiong, Jianxu Chen, Dirk M. Hermann, Chao Chen

2024 IEEE International Symposium on Biomedical Imaging (ISBI)  ·  27 May 2024  ·  doi:10.1109/ISBI56570.2024.10635226

vasculature topology

Stroke and myocardial infarction induce neutrophil extracellular trap release disrupting lymphoid organ structure and immunoglobulin secretion

Ali A. Tuz, Susmita Ghosh, Laura Karsch, Dimitris Ttoouli, Sai P. Sata, …, Albert Sickmann, Jianxu Chen, Dirk M. Hermann, Matthias Gunzer, Vikramjeet Singh

Nature Cardiovascular Research  ·  23 Apr 2024  ·  doi:10.1038/s44161-024-00462-8

human-in-the-loop image-segmentation immunology

Microvascular Network Remodeling in the Ischemic Mouse Brain Defined by Light Sheet Microscopy

Nina Hagemann, Yachao Qi, Ayan Mohamud Yusuf, AnRan Li, Anthony Squire, …, Philippa Spangenberg, Jianxu Chen, Axel Mosig, Matthias Gunzer, Dirk M. Hermann

Arteriosclerosis, Thrombosis, and Vascular Biology  ·  01 Apr 2024  ·  doi:10.1161/ATVBAHA.123.320339

vasculature image-segmentation

Understanding metric-related pitfalls in image analysis validation

Annika Reinke, Minu D. Tizabi, Michael Baumgartner, Matthias Eisenmann, Doreen Heckmann-Nötzel, …, Ben Van Calster, Gaël Varoquaux, Ziv R. Yaniv, Paul F. Jäger, Lena Maier-Hein

Nature Methods  ·  01 Feb 2024  ·  doi:10.1038/s41592-023-02150-0

image-analysis-validation

EfficientBioAI: making bioimaging AI models efficient in energy and latency

Yu Zhou, Jiajun Cao, Justin Sonneck, Sweta Banerjee, Stefanie Dörr, Anika Grüneboom, Kristina Lorenz, Shanghang Zhang, Jianxu Chen

Nature Methods  ·  24 Jan 2024  ·  doi:10.1038/s41592-024-02167-z

source code

AI-generated Podcast (by Google NotebookLLM)

deep-learning efficiency

MMV_Im2Im: an open-source microscopy machine vision toolbox for image-to-image transformation

Justin Sonneck, Yu Zhou, Jianxu Chen

GigaScience  ·  01 Jan 2024  ·  doi:10.1093/gigascience/giad120

source code

open-source-software deep-learning

Implicit Neural Image Field for Biological Microscopy Image Compression

Gaole Dai, Cheng-Ching Tseng, Qingpo Wuwu, Rongyu Zhang, Shaokang Wang, …, Yu Zhou, Ali Ata Tuz, Matthias Gunzer, Jianxu Chen, Shanghang Zhang

arXiv  ·  01 Jan 2024  ·  doi:10.48550/arXiv.2405.19012

image-compression deep-learning implicit-neural-representation

Deep-learning-based image compression for microscopy images: An empirical study

Yu Zhou, Jan Sollmann, Jianxu Chen

Biological Imaging  ·  01 Jan 2024  ·  doi:10.1017/S2633903X24000151

image-compression deep-learning

Rethinking Medical Anomaly Detection in Brain MRI: An Image Quality Assessment Perspective

Zixuan Pan, Jun Xia, Zheyu Yan, Guoyue Xu, Yawen Wu, Zhenge Jia, Jianxu Chen, Yiyu Shi

arXiv  ·  01 Jan 2024  ·  doi:10.48550/arXiv.2408.08228

anomaly-detection deep-learning

The Emerging Issues in Bioimaging AI Publications and Research (Dagstuhl Seminar 24042)

Jianxu Chen, Florian Jug, Susanne Rafelski, Shanghang Zhang

Schloss Dagstuhl – Leibniz-Zentrum für Informatik  ·  01 Jan 2024  ·  doi:10.4230/DagRep.14.1.90

image-analysis-validation

Adaptive Kinematic Modeling for Improved Hand Posture Estimates Using a Haptic Glove

Kathrin Krieger, David P. Leins, Thorben Markmann, Robert Haschke, Jianxu Chen, Matthias Gunzer, Helge Ritter

arXiv  ·  01 Jan 2024  ·  doi:10.48550/arXiv.2411.06575

visualization multisensory-xr

2023

ComplexEye: a multi-lens array microscope for high-throughput embedded immune cell migration analysis

Zülal Cibir, Jacqueline Hassel, Justin Sonneck, Lennart Kowitz, Alexander Beer, …, Karsten Seidl, Jianxu Chen, Anton Grabmaier, Reinhard Viga, Matthias Gunzer

Nature Communications  ·  11 Dec 2023  ·  doi:10.1038/s41467-023-43765-3

cell-biology array-microscopy cell-tracking

On the risk of manual annotations in 3D confocal microscopy image segmentation

Justin Sonneck, Shuo Zhao, Jianxu Chen

2023 IEEE/CVF International Conference on Computer Vision Workshops (ICCVW)  ·  02 Oct 2023  ·  doi:10.1109/ICCVW60793.2023.00421

deep-learning image-segmentation image-analysis-validation

When seeing is not believing: application-appropriate validation matters for quantitative bioimage analysis

Jianxu Chen, Matheus P. Viana, Susanne M. Rafelski

Nature Methods  ·  01 Jul 2023  ·  doi:10.1038/s41592-023-01881-4

AI-generated Podcast (by Google NotebookLLM)

image-analysis-validation

The importance of resource awareness in artificial intelligence for healthcare

Zhenge Jia, Jianxu Chen, Xiaowei Xu, John Kheir, Jingtong Hu, Han Xiao, Sui Peng, Xiaobo Sharon Hu, Danny Chen, Yiyu Shi

Nature Machine Intelligence  ·  12 Jun 2023  ·  doi:10.1038/s42256-023-00670-0

deep-learning efficiency

Rapid and fully automated blood vasculature analysis in 3D light-sheet image volumes of different organs

Philippa Spangenberg, Nina Hagemann, Anthony Squire, Nils Förster, Sascha D. Krauß, …, Iris Helfrich, Jianxu Chen, Matthias Gunzer, Dirk M. Hermann, Axel Mosig

Cell Reports Methods  ·  01 Mar 2023  ·  doi:10.1016/j.crmeth.2023.100436

image-segmentation open-source-software vasculature

Integrated intracellular organization and its variations in human iPS cells

Matheus P. Viana, Jianxu Chen, Theo A. Knijnenburg, Ritvik Vasan, Calysta Yan, …, Graham T. Johnson, Ruwanthi N. Gunawardane, Nathalie Gaudreault, Julie A. Theriot, Susanne M. Rafelski

Nature  ·  04 Jan 2023  ·  doi:10.1038/s41586-022-05563-7

cell-biology analysis-and-modeling

Masked Diffusion as Self-supervised Representation Learner

Zixuan Pan, Jianxu Chen, Yiyu Shi

arXiv  ·  01 Jan 2023  ·  doi:10.48550/arXiv.2308.05695

deep-learning segmentation diffusion-models

MedShapeNet -- A Large-Scale Dataset of 3D Medical Shapes for Computer Vision

Jianning Li, Zongwei Zhou, Jiancheng Yang, Antonio Pepe, Christina Gsaxner, …, Behrus Puladi, Pascal Fua, Alan L. Yuille, Jens Kleesiek, Jan Egger

arXiv  ·  01 Jan 2023  ·  doi:10.48550/arXiv.2308.16139

medical-imaging deep-learning visualization

2021

Cell states beyond transcriptomics: Integrating structural organization and gene expression in hiPSC-derived cardiomyocytes

Kaytlyn A. Gerbin, Tanya Grancharova, Rory M. Donovan-Maiye, Melissa C. Hendershott, Helen G. Anderson, …, Nathalie Gaudreault, Theo A. Knijnenburg, Susanne M. Rafelski, Julie A. Theriot, Ruwanthi N. Gunawardane

Cell Systems  ·  01 Jun 2021  ·  doi:10.1016/j.cels.2021.05.001

cell-biology analysis-and-modeling

2020

Unlabeled Data Guided Semi-supervised Histopathology Image Segmentation

Hongxiao Wang, Hao Zheng, Jianxu Chen, Lin Yang, Yizhe Zhang, Danny Z. Chen

IEEE BIBM Conference  ·  16 Dec 2020  ·  doi:10.1109/BIBM49941.2020.9313428

histopathology-image image-transformation image-segmentation unlabeled-data

InTracker: An Integrated Detector-Tracker Framework for Cell Detection and Tracking

Peixian Liang, Jianxu Chen, Yizhe Zhang, Hongxiao Wang, Hao Zheng, Pengfei Gu, Danny Chen

IEEE CBMS Conference  ·  01 Jul 2020  ·  doi:10.1109/CBMS49503.2020.00069

cell-tracking

2019

Single Cells Exhibit Differing Behavioral Phases during Early Stages of Pseudomonas aeruginosa Swarming

Chinedu S. Madukoma, Peixian Liang, Aleksandar Dimkovikj, Jianxu Chen, Shaun W. Lee, Danny Z. Chen, Joshua D. Shrout

Journal of Bacteriology  ·  01 Oct 2019  ·  doi:10.1128/JB.00184-19

cell-tracking analysis-and-modeling bacteria

Biomedical Image Segmentation via Representative Annotation

Hao Zheng, Lin Yang, Jianxu Chen, Jun Han, Yizhe Zhang, Peixian Liang, Zhuo Zhao, Chaoli Wang, Danny Z. Chen

AAAI Conference  ·  17 Jul 2019  ·  doi:10.1609/aaai.v33i01.33015901

image-segmentation efficient-annotation

Cascade Decoder: A Universal Decoding Method For Biomedical Image Segmentation

Peixian Liang, Jianxu Chen, Hao Zheng, Lin Yang, Yizhe Zhang, Danny Z. Chen

IEEE ISBI Conference  ·  01 Apr 2019  ·  doi:10.1109/ISBI.2019.8759430

image-segmentation 3d

Decoding Calcium Signaling Dynamics during Drosophila Wing Disc Development

Pavel A. Brodskiy, Qinfeng Wu, Dharsan K. Soundarrajan, Francisco J. Huizar, Jianxu Chen, …, Cody Narciso, Megan K. Levis, Ninfamaria Arredondo-Walsh, Danny Z. Chen, Jeremiah J. Zartman

Biophysical Journal  ·  01 Feb 2019  ·  doi:10.1016/j.bpj.2019.01.007

image-registration analysis-and-modeling

2018

The Allen Cell and Structure Segmenter: a new open source toolkit for segmenting 3D intracellular structures in fluorescence microscopy images

Jianxu Chen, Liya Ding, Matheus P. Viana, HyeonWoo Lee, M. Filip Sluezwski, Benjamin Morris, Melissa C. Hendershott, Ruian Yang, Irina A. Mueller, Susanne M. Rafelski

bioRxiv  ·  08 Dec 2018  ·  doi:10.1101/491035

Project homepage

ML segmentation source

Classic segmentation source code

image-segmentation 3d tool

A new registration approach for dynamic analysis of calcium signals in organs

Peixian Liang, Jianxu Chen, Pavel A. Brodskiy, Qinfeng Wu, Yejia Zhang, Yizhe Zhang, Lin Yang, Jeremiah J. Zartman, Danny Z. Chen

IEEE ISBI Conference  ·  01 Apr 2018  ·  doi:10.1109/ISBI.2018.8363724

image-registration

2017

Compression-induced structural and mechanical changes of fibrin-collagen composites

O.V. Kim, R.I. Litvinov, J. Chen, D.Z. Chen, J.W. Weisel, M.S. Alber

Matrix Biology  ·  01 Jul 2017  ·  doi:10.1016/j.matbio.2016.10.007

image-segmentation analysis-and-modeling

Optimizing Memory Efficiency for Convolution Kernels on Kepler GPUs

Xiaoming Chen, Jianxu Chen, Danny Z. Chen, Xiaobo Sharon Hu

ACM Design Automation Conference  ·  18 Jun 2017  ·  doi:10.1145/3061639.3062297

hardware/software-co-design

Deep Adversarial Networks for Biomedical Image Segmentation Utilizing Unannotated Images

Yizhe Zhang, Lin Yang, Jianxu Chen, Maridel Fredericksen, David P. Hughes, Danny Z. Chen

MICCAI Conference  ·  01 Jan 2017  ·  doi:10.1007/978-3-319-66179-7_47

image-segmentation unlabeled-data

Suggestive Annotation: A Deep Active Learning Framework for Biomedical Image Segmentation

Lin Yang, Yizhe Zhang, Jianxu Chen, Siyuan Zhang, Danny Z. Chen

MICCAI Conference  ·  01 Jan 2017  ·  doi:10.1007/978-3-319-66179-7_46

image-segmentation human-in-the-loop

Neuron Segmentation Using Deep Complete Bipartite Networks

Jianxu Chen, Sreya Banerjee, Abhinav Grama, Walter J. Scheirer, Danny Z. Chen

MICCAI Conference  ·  01 Jan 2017  ·  doi:10.1007/978-3-319-66185-8_3

image-segmentation

2016

Combining Fully Convolutional and Recurrent Neural Networks for 3D Biomedical Image Segmentation

J. Chen, L. Yang, Y. Zhang, M. Alber, D. Chen

NeurIPS Conference  ·  05 Dec 2016  ·  [no id info]

recurrent-neural-network image-segmentation

A Hybrid Approach for Segmentation and Tracking of Myxococcus Xanthus Swarms

Jianxu Chen, Mark S. Alber, Danny Z. Chen

IEEE Transactions on Medical Imaging  ·  01 Sep 2016  ·  doi:10.1109/TMI.2016.2548490

image-segmentation cell-tracking

Kinetic Transition Networks for the Thomson Problem and Smale’s Seventh Problem

Dhagash Mehta, Jianxu Chen, Danny Z. Chen, Halim Kusumaatmaja, David J. Wales

Physical Review Letters  ·  06 Jul 2016  ·  doi:10.1103/PhysRevLett.117.028301

analysis-and-modeling

Iris Recognition Based on Human-Interpretable Features

Jianxu Chen, Feng Shen, Danny Ziyi Chen, Patrick J. Flynn

IEEE Transactions on Information Forensics and Security  ·  01 Jul 2016  ·  doi:10.1109/TIFS.2016.2535901

human-in-the-loop image-recognition forensics

Segmentation and tracking of Pseudomonas aeruginosa for cell dynamics analysis in time-lapse images

Jianxu Chen, Yiqing Cai, Chen Wei, Lin Yang, Mark S. Alber, Danny Z. Chen

IEEE ISBI Conference  ·  01 Apr 2016  ·  doi:10.1109/ISBI.2016.7493426

image-segmentation cell-tracking

2015

Iris recognition based on human-interpretable features

Jianxu Chen, Feng Shen, Danny Z. Chen, Patrick J. Flynn

IEEE International Conference on Identity, Security, and Behavior Analysis  ·  01 Mar 2015  ·  doi:10.1109/ISBA.2015.7126352

human-in-the-loop image-recognition forensics

A Hybrid Approach for Segmentation and Tracking of Myxococcus Xanthus Swarms

Jianxu Chen, Shant Mahserejian, Mark Alber, Danny Z. Chen

MICCAI Conference  ·  01 Jan 2015  ·  doi:10.1007/978-3-319-24574-4_34

image-segmentation cell-tracking

2014

An Automated Approach for Fibrin Network Segmentation and Structure Identification in 3D Confocal Microscopy Images

Jianxu Chen, Oleg V. Kim, Rustem I. Litvinov, John W. Weisel, Mark S. Alber, Danny Z. Chen

IEEE CBMS Conference  ·  01 May 2014  ·  doi:10.1109/CBMS.2014.62

image-segmentation

A Matching Model Based on Earth Mover’s Distance for Tracking Myxococcus Xanthus

Jianxu Chen, Cameron W. Harvey, Mark S. Alber, Danny Z. Chen

MICCAI Conference  ·  01 Jan 2014  ·  doi:10.1007/978-3-319-10470-6_15

cell-tracking

Grid of blog posts

2023

Example post 3

john-doe February 23, 2023 June 26, 2025

biology medicine

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

2021

Example post 2

jane-smith September 30, 2021 June 26, 2025

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

2020

An overview of image registration

jianxu chen July 13, 2020 June 26, 2025

basic-concepts

post work-in-progress

An overview of self-supervision

jianxu chen July 12, 2020 June 26, 2025

basic-concepts

post work-in-progress

An overview of instance segmentation

jianxu chen July 10, 2020 June 26, 2025

semantic-segmentation instance-segmentation basic-concepts

post work-in-progress

Super resolution, image restoration, and noise reduction

jianxu chen July 10, 2020 June 26, 2025

image2image-transfer basic-concepts

post work-in-progress

An overview of semantic segmentation

jianxu chen July 09, 2020 June 26, 2025

semantic-segmentation basic-concepts

post work-in-progress

2019

Example post 1

sarah-johnson January 07, 2019 June 26, 2025

biology medicine big-data

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Cols

Text

Images

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Code

const test = "Lorem ipsum dolor sit amet";

const test = "Lorem ipsum dolor sit amet";

const test = "Lorem ipsum dolor sit amet";

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