BioImage Informatics

SciLifeLab National facility since 2017.

44 publications

Year 2021

Year 2019

Impact of Q-Griffithsin anti-HIV microbicide gel in non-human primates: In situ analyses of epithelial and immune cell markers in rectal mucosa.
Günaydın G, Edfeldt G, Garber DA, ..., Tjernlund A, Broliden K
pii: 10.1038/s41598-019-54493-4
Sci Rep 9 (1) 18120 [2019-12-02; online 2019-12-02]
BioImage Informatics [Service]
SynQuant: an automatic tool to quantify synapses from microscopy images
Wang Y, Wang C, Ranefall P, ..., Tian L, Yu G
- - (-) - [2019-10-09; online 2019-10-09]
BioImage Informatics [Collaborative]

Year 2018

Deep Learning in Image Cytometry: A Review
Gupta A, Harrison PJ, Wieslander H, ..., Sintorn IM, Wählby C
Cytometry - (-) - [2018-12-19; online 2018-12-19]
BioImage Informatics [Collaborative]
Quantitative image analysis of protein expression and colocalisation in skin sections
Zhang H, Ericsson M, Virtanen M, ..., Vahlquist A, Törmä H
Exp Dermatol 27 (2) 196-199 [2018-02-00; online 2018-01-09]
BioImage Informatics [Service]
Whole Slide Image Registration for the Study of Tumor Heterogeneity
Solorzano L, Almeida GM, Mesquita B, ..., Oliveira C, Wählby C
- - (-) 95-102 [2018-00-00; online 2018-09-14]
BioImage Informatics [Technology development]

Year 2017

Automated Training of Deep Convolutional Neural Networks for Cell Segmentation
Sadanandan SK, Ranefall P, Le Guyader S, Wählby C
cb.uu.se: http://www.cb.uu.se/~carolina/timelapse_data/ data.broadinstitute.org: https://data.broadinstitute.org/bbbc/BBBC022/
Sci Rep 7 (1) - [2017-12-00; online 2017-08-10]
BioImage Informatics [Technology development]
A short feature vector for image matching: The Log-Polar Magnitude feature descriptor
Matuszewski DJ, Hast A, Wählby C, Sintorn IM
cb.uu.se: http://cb.uu.se/~damian/LPM.html
PLoS ONE 12 (11) e0188496 [2017-11-30; online 2017-11-30]
BioImage Informatics [Technology development]
Objective automated quantification of fluorescence signal in histological sections of rat lens
Talebizadeh N, Hagström NZ, Yu Z, ..., Söderberg P, Wählby C
Cytometry 91 (8) 815-821 [2017-08-00; online 2017-05-11]
BioImage Informatics [Collaborative]
Decoding Gene Expression in 2D and 3D
Bombrun M, Ranefall P, Lindblad J, ..., Nilsson M, Wählby C
Scandinavian Conference on Image Analysis 2017 - (-) 257-268 [2017-00-00; online 2017-05-19]
BioImage Informatics [Collaborative]

Year 2016

Global gray-level thresholding based on object size.
Ranefall P, Wählby C
cb.uu.se: http://www.cb.uu.se/~petter/downloads/CellClusters/ cb.uu.se: http://www.cb.uu.se/~petter/downloads/SIP/ murphylab.web.cmu.edu: http://murphylab.web.cmu.edu/data/2009_ISBI_Nuclei.html smal.we: http://smal.ws/wp/software/synthetic-data-generator/
Cytometry A 89 (4) 385-390 [2016-04-00; online 2016-01-23]
BioImage Informatics [Technology development]
Segmentation and Track-Analysis in Time-Lapse Imaging of Bacteria
Sadanandan SK, Baltekin O, Magnusson KEG, ..., Elf J, Wahlby C
IEEE J. Sel. Top. Signal Process. 10 (1) 174-184 [2016-02-00; online 2016-02-00]
BioImage Informatics [Technology development]
Feature Augmented Deep Neural Networks for Segmentation of Cells
Sadanandan SK, Ranefall P, Wählby C
bitbucket.org: https://bitbucket.org/sajithks/fastcba/
- - (-) 231-243 [2016-00-00; online 2016-09-18]
BioImage Informatics [Technology development]

Year 2015

Year 2013

Year 2012

Visualising individual sequence-specific protein-DNA interactions in situ.
Weibrecht I, Gavrilovic M, Lindbom L, ..., Wählby C, Söderberg O
pii: S1871-6784(11)00186-5
N Biotechnol 29 (5) 589-598 [2012-06-15; online 2011-09-13]
BioImage Informatics [Collaborative] PLA and Single Cell Proteomics

Year 2011

Increasing the dynamic range of in situ PLA.
Clausson C, Allalou A, Weibrecht I, ..., Wählby C, Söderberg O
pii: nmeth.1743
Nat. Methods 8 (11) 892-893 [2011-10-28; online 2011-10-28]
BioImage Informatics [Collaborative] PLA and Single Cell Proteomics