Lelieveldt's Publications with Computer Graphics and Visualization

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Publications in 2024
VKTLEBEVHL24
ManiVault: A Flexible and Extensible Visual Analytics Framework for High-Dimensional Data   presentation.pptx paper.pdf
Alexander Vieth, Thomas Kroes, Julian Thijssen, Baldur van Lew, Jeroen Eggermont, Soumyadeep Basu, Elmar Eisemann, Anna Vilanova, Thomas Höllt, Boudewijn P.F. Lelieveldt
IEEE Transactions on Visualization and Computer Graphics, Volume 30, Number 2 - 2024
 
Publications in 2023
JSESCKYCLSTBBBCDEGGKMPRSSTTFHHKLMLSSWDGLHB23
Comparative transcriptomics reveals human-specific cortical features   science.ade9516 summary.pdf science.ade9516.pdf
Nicholas L. Jorstad, Janet H. T. Song, David Exposito-Alonso, Hamsini Suresh, Nathan Castro-Pacheco, Fenna M. Krienen, Anna Marie Yanny, Jennie Close, Brian Long, Stephanie C. Seeman, Kyle J. Travaglini, Soumyadeep Basu, Marc Beaudin, Darren Bertagnolli, Megan Crow, Song-Lin Ding, Jeroen Eggermont, Alexandra Glandon, Jeff Goldy, Thomas Kroes, Delissa McMillen, Thanh Pham, Christine Rimorin, Kimberly Siletti, Saroja Somasundaram, Michael Tieu, Amy Torkelson, Guoping Feng, Guoping Hopkins, Thomas Höllt, Dirk Keene, Sten Linnarsson, Steven A. McCarroll, Boudewijn P.F. Lelieveldt, Chet C. Sherwood, Kimberly Smith, Christopher A. Walsh, Alexander Dobin, Jesse Gillis, Ed Lein, Rebecca Hodge, Trygve Bakken
Science, Volume 382, page eade9516 - 2023
BEKJBLLH23
Cytosplore Simian Viewer: Visual Exploration for Multi-Species Single-Cell RNA Sequencing Data   paper.pdf VCBMPresentationSimianViewer.pdf
Soumyadeep Basu, Jeroen Eggermont, Thomas Kroes, Nicholas L. Jorstad, Trygve Bakken, Ed Lein, Boudewijn P.F. Lelieveldt, Thomas Höllt
Eurographics Workshop on Visual Computing for Biology and Medicine, page 111-120 - Sep 2023
VLEVH23
Interactions for Seamlessly Coupled Exploration of High-Dimensional Images and Hierarchical Embeddings   presentation.pptx paper.pdf paper_supplement.pdf presentation.pdf
Alexander Vieth, Boudewijn P.F. Lelieveldt, Elmar Eisemann, Anna Vilanova, Thomas Höllt
Vision, Modeling, and Visualization - 2023
LTKDAHL23
SpaceWalker enables interactive gradient exploration for spatial transcriptomics data   2023_spacewalker.pdf
Chang Li, Julian Thijssen, Thomas Kroes, Mitchell de Boer, Tamim Abdelaal, Thomas Höllt, Boudewijn P.F. Lelieveldt
Cell Reports Methods - 2023
 
Publications in 2022
VVLEH22
Incorporating Texture Information into Dimensionality Reduction for High-Dimensional Images   Vieth_PacificVis_2022_slides.pptx Vieth_PacificVis_2022_preprint.pdf Vieth_PacificVis_2022_preprint_supplement.pdf Vieth_PacificVis_2022_preprint_supplement_figures345.pdf Vieth_PacificVis_2022_slides.pdf
Alexander Vieth, Anna Vilanova, Boudewijn P.F. Lelieveldt, Elmar Eisemann, Thomas Höllt
2022 15th IEEE Pacific Visualization Symposium (PacificVis), page 11-20 - 2022
PGKKALEH22
Visual Analysis of RIS Data for Endmember Selection   Popa-GCH-2022.pdf
Andra Popa, Francesca Gabrieli, Thomas Kroes, Anna Krekeler, Matthias Alfeld, Boudewijn P.F. Lelieveldt, Elmar Eisemann, Thomas Höllt
Eurographics Workshop on Graphics and Cultural Heritage - 2022
 
Publications in 2021
BJHLTKCHKSEYAABBCCCDDDDDDDFFGGGHHKKLLLLLMMMMNOOPPPPRRRRSSSSTTTWXYZACCDGHHHHKKKLLMPRRSSSWKHTMMTZZFELL21
Comparative cellular analysis of motor cortex in human, marmoset and mouse   2020_cellular_diversity_evolution.pdf
Trygve Bakken, Nicholas L. Jorstad, Qiwen Hu, Blue B. Lake, Wei Tian, Brian E. Kalmbach, Megan Crow, Rebecca Hodge, Fenna M. Krienen, Staci A. Sorensen, Jeroen Eggermont, Zizhen Yao, Brian Aevermann, Andrew I. Aldridge, Anna Bartlett, Darren Bertagnolli, Tamara Casper, Rosa G. Castanon, Kirsten Crichton, Tanya L. Daigle, Rachel Dalley, Nick Dee, Nikolai Dembrow, Dinh Diep, Song-Lin Ding, Weixiu Dong, Rongxin Fang, Stephan Fischer, Melissa Goldman, Jeff Goldy, Lucas Graybuck, Brian R. Herb, Xiaomeng Hou, Jayaram Kancherla, Matthew Kroll, Kanan Lathia, Baldur van Lew, Yang Eric Li, Christine S. Liu, Hanqing Liu, Anup Mahurkar, Delissa McMillen, Jeremy Miller, Marmar Moussa, Joseph R. Nery, Joshua Orvis, Scott Owen, Carter R. Palmer, Thanh Pham, Nongluk Plongthongkum, Olivier Poirion, Nora M. Reed, Christine Rimorin, Angeline Rivkin, William J. Romanow, Adriana E. Sedeño-Cortés, Kimberly Siletti, Saroja Somasundaram, Josef Sulc, Michael Tieu, Amy Torkelson, Herman Tung, Xinxin Wang, Fangming Xie, Anna Marie Yanny, Renee Zhang, Seth A. Ament, Hector Corrada Bravo, Jerold Chun, Alexander Dobin, Jesse Gillis, Ronna Hertzano, Patrick R. Hof, Thomas Höllt, Gregory D. Horwitz, Dirk Keene, Peter V. Kharchenko, Andrew Ko, Boudewijn P.F. Lelieveldt, Chongyuan Luo, Eran A. Mukamel, Sebastian Preissl, Aviv Regev, Bing Ren, Richard Scheuermann, Kimberly Smith, William J. Spain, Owen R. White, Christof Koch, Michael Hawrylycz, Bosiljka Tasic, Evan Z. Macosko, Steven A. McCarroll, Jonathan T. Ting, Hongkui Zeng, Kun Zhang, Guoping Feng, Joseph R. Ecker, Sten Linnarsson, Ed Lein
Nature, Volume 598, page 111-119 - 2021
SUKLH21a
ImaCytE: Visual Exploration of Cellular Microenvironments for Imaging Mass Cytometry Data   2019_imacyte.pdf
Antonios Somarakis, Vincent van Unen, Frits Koning, Boudewijn P.F. Lelieveldt, Thomas Höllt
IEEE Transactions on Visualization and Computer Graphics, Volume 27, Number 1, page 98--110 - 2021
DUMSGJHPMOLKAKVELRKRFHKKMLY21
Systems analysis and controlled malaria infection in Europeans and Africans elucidate naturally acquired immunity   s41590-021-00911-7.pdf
Sanne E. de Jong, Vincent van Unen, Mikhael D. Manurung , Koen Stam, Jelle J. Goeman, Simon P. Jochems, Thomas Höllt, Nicola Pezzotti, Yoanne D. Mouwenda , Madeleine Eunice Betouke Ongwe, Freia-Raphaella Lorenz, Yvonne C. M. Kruize, Shohreh Azimi, Marion König, Anna Vilanova, Elmar Eisemann, Boudewijn P.F. Lelieveldt, Meta Roestenberg, B. Kim Lee Sim, Marcel Reinders, Rolf Fendel, Stephen L. Hoffman, Peter G. Kremsner, Frits Koning, Benjamin Mordmüller, Bertrand Lell, Maria Yazdanbakhsh
Nature Immunology, Volume 22, Number 5, page 654-665 - 2021
SILKMLH21
Visual Cohort Comparison for Spatial Single-Cell Omics-Data   2020_vis_cohort.pdf
Antonios Somarakis, Marieke E Ijsselsteijn, Sietse J Luk, Boyd Kenkhuis, Noel de Miranda, Boudewijn P.F. Lelieveldt, Thomas Höllt
IEEE Transactions on Visualization and Computer Graphics (Proceedings of VAST 2020), Volume 27, Number 1 - 2021
 
Publications in 2020
AEHMRL20
Cytosplore-Transcriptomics: a Scalable Interactive Framework for Single-Cell RNA Sequencing Data Analysis   2020_cyto_transcriptomics.pdf
Tamim Abdelaal, Jeroen Eggermont, Thomas Höllt, Ahmed Mahfouz, Marcel Reinders, Boudewijn P.F. Lelieveldt
bioRxiv - 2020
PTMHLLEV20
GPGPU Linear Complexity t-SNE Optimization   2019_vis_GPUtSNE.pdf
Nicola Pezzotti, Julian Thijssen, Alexander Mordvintsev, Thomas Höllt, Baldur van Lew, Boudewijn P.F. Lelieveldt, Elmar Eisemann, Anna Vilanova
IEEE Transactions on Visualization and Computer Graphics (Proceedings of VAST 2019), Volume 26, Number 1, page 1172--1181 - 2020
DJTSKULHMLKSSSY20
Helminth Infections Drive Heterogeneity in Human Type 2 and Regulatory Cells   Ruiter_STM_repository.pdf
Karin de Ruiter, Simon P. Jochems, Dicky L. Tahapary, Koen Stam, Marion König, Vincent van Unen, Sandra Laban, Thomas Höllt, Moustapha Mbow, Boudewijn P.F. Lelieveldt, Frits Koning, Erliyani Sartono, Johannes W. A. Smit, Taniawati Supali, Maria Yazdanbakhsh
Science Translational Medicine, Volume 12, Number 524, page eaaw3703 - 2020
DUASMPHLK20
High-Dimensional Cytometric Analysis of Colorectal Cancer Reveals Novel Mediators of Antitumour Immunity   2019_gut_antitumor.pdf 2019_gut_antitumor_suppfigures.pdf 2019_gut_antitumor_suppmethods.pdf 2019_gut_antitumor_supptable.pdf
Natasja L de Vries, Vincent van Unen, Tamim Abdelaal, Arantza Sarasqueta, Ahmed Mahfouz, Koen C M J Peeters, Thomas Höllt, Boudewijn P.F. Lelieveldt, Frits Koning
Gut, Volume 69, page 691 -- 703 - 2020
SLVJULHZNR20
Multidimensional Analyses of Proinsulin Peptide-specific Regulatory T Cells Induced by Tolerogenic Dendritic Cells   2019_JofAutoimmunity.pdf 2019_JofAutoimmunity_supplemental.pdf
Jessica S. Suwandi, Sandra Laban, Kincso Vass, Antoinette Joosten, Vincent van Unen, Boudewijn P.F. Lelieveldt, Thomas Höllt, Jaap Jan Zwaginga, Tatjana Nikolic, Bart O. Roep
Journal of Autoimmunity, Volume 107, page 102361 - 2020
ISLHM20
Semi-Automated Background Removal Limits Loss of Data and Normalises the Images for Downstream Analysis of Imaging Mass Cytometry Data   2020_background_removal.pdf
Marieke E Ijsselsteijn, Antonios Somarakis, Boudewijn P.F. Lelieveldt, Thomas Höllt, Noel de Miranda
bioRxiv - 2020
 
Publications in 2019
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Conserved Cell Types with Divergent Features Between Human and Mouse Cortex   384826.full.pdf
Rebecca Hodge, Trygve Bakken, Jeremy Miller, Kimberly Smith, Eliza Barkan, Lucas Graybuck, Jennie Close, Brian Long, Osnat Penn, Zizhen Yao, Jeroen Eggermont, Thomas Höllt, Boaz Levi, Soraya Shehata, Brian Aevermann, Allison Beller, Darren Bertagnolli, Krissy Brouner, Tamara Casper, Charles Cobbs, Rachel Dalley, Nick Dee, Song-Lin Ding, Richard Ellenbogen, Olivia Fong, Emma Garren, Jeff Goldy, Ryder Gwinn, Daniel Hirschstein, Dirk Keene, Mohamed Keshk, Andrew Ko, Kanan Lathia, Ahmed Mahfouz, Zoe Maltzer, Medea McGraw, Thuc Nghi Nguyen, Julie Nyhus, Jeffrey Ojemann, Aaron Oldre, Sheana Parry, Shannon Reynolds, Christine Rimorin, Nadiya Shapovalova, Saroja Somasundaram, Aaron Szafer, Elliot Thomsen, Michael Tieu, Richard Scheuermann, Rafael Yuste, Susan Sunkin, Boudewijn P.F. Lelieveldt, David Feng, Lydia Ng, Amy Bernard, Michael Hawrylycz, John Phillips, Bosiljka Tasic, Hongkui Zeng, Allan Jones, Christof Koch, Ed Lein
Nature, Volume 573, page 61--68 - 2019
AHVLKRM19
CyTOFmerge: Integrating mass cytometry data across multiple panels   2019_cytofmerge.pdf 2019_cytofmerge_supplemental.pdf
Tamim Abdelaal, Thomas Höllt, Vincent van Unen, Boudewijn P.F. Lelieveldt, Frits Koning, Marcel Reinders, Ahmed Mahfouz
Bioinformatics, Volume btz180 - 2019
HPULKELV19
Cytosplore: Interactive Visual Single-Cell Profiling of the Immune System   2019_dirk_bartz_prize.pdf 2019_dirk_bartz_prize_slides.pdf
Thomas Höllt, Nicola Pezzotti, Vincent van Unen, Na Li, Frits Koning, Elmar Eisemann, Boudewijn P.F. Lelieveldt, Anna Vilanova
Dirk Bartz Prize for Visual Computing in Medicine 2019 (Eurographics Medical Prize) - 2019
HVPLH19
Focus+Context Exploration of Hierarchical Embeddings   2019_eurovis.pdf 2019_eurovis_slides.pdf
Thomas Höllt, Anna Vilanova, Nicola Pezzotti, Boudewijn P.F. Lelieveldt, Helwig Hauser
Computer Graphics Forum (Proceedings of Eurographics 2019), Volume 38, Number 3, page 569--579 - 2019
LUAGKLMEICHBEMCPLK19
Memory CD4+ T Cells are Generated in the Human Fetal Intestine   Li-2019-Memory-cd-t-cells-are-generated-in-.pdf
Na Li, Vincent van Unen, Tamim Abdelaal, Nannan Guo, Sofya Kasatskaya, Kristin Ladell, James McLaren, Evgeniy Egorov, Mark Izraelson, Susana M. Chuva de Sousa Lopes, Thomas Höllt, Olga Britanova, Jeroen Eggermont, Noel de Miranda, Dmitriy Chudakov, David Price, Boudewijn P.F. Lelieveldt, Frits Koning
Nature Immunology, Volume 20, Number 3, page 301--312 - 2019
 
Publications in 2018
HPVKLV18
CyteGuide: Visual Guidance for Hierarchical Single-Cell Analysis   2017_vis_cyteguide_slides.pdf vis2017_hollt_cyteguide.pdf
Thomas Höllt, Nicola Pezzotti, Vincent van Unen, Frits Koning, Boudewijn P.F. Lelieveldt, Anna Vilanova
IEEE Transactions on Visualization and Computer Graphics (Proceedings of Information Visualization 2017), Volume 24, Number 1 - jan 2018
PHVLEV18
DeepEyes: Progressive Visual Analytics for Designing Deep Neural Networks   paper216.pdf
Nicola Pezzotti, Thomas Höllt, Jan van Gemert, Boudewijn P.F. Lelieveldt, Elmar Eisemann, Anna Vilanova
IEEE Transactions on Visualization and Computer Graphics (Proceedings of VAST 2017), Volume 24, Number 1 - 2018
LSVPWHPVLR18
Heterogeneity of circulating CD8 T-cells specific to islet, neo-antigen and virus in patients with type 1 diabetes mellitus   2018_plos_circulating_t_cells.pdf
Sandra Laban, Jessica S. Suwandi, Vincent van Unen, Jos Pool, Joris Wesselius, Thomas Höllt, Nicola Pezzotti, Anna Vilanova, Boudewijn P.F. Lelieveldt, Bart O. Roep
PLoS ONE, Volume 13, Number 8, page e0200818 - aug 2018
APHDVML18
Interactive Visual Exploration of 3D Mass Spectrometry Imaging Data Using Hierarchical Stochastic Neighbor Embedding Reveals Spatiomolecular Structures at Full Data Resolution   pdf.pdf
Walid M. Abdelmoula, Nicola Pezzotti, Thomas Höllt, J. Dijkstra, Anna Vilanova, Liam A. McDonnell, Boudewijn P.F. Lelieveldt
Journal of Proteome - feb. 2018
LVHTVPEVCLK18
Mass cytometry reveals innate lymphoid cell differentiation pathways in the human fetal intestine   jem.20171934.full.pdf
Na Li, Vincent van Unen, Thomas Höllt, Allan Thompson, Jeroen van Bergen, Nicola Pezzotti, Elmar Eisemann, Anna Vilanova, Susana M. Chuva de Sousa Lopes, Boudewijn P.F. Lelieveldt, Frits Koning
Journal of Experimental Medicine, Volume 215, Number 3 - 2018
PFHLEV18
Multiscale Visualization and Exploration of Large Bipartite Graphs   waow-hal.pdf
Nicola Pezzotti, Jean-Daniel Fekete, Thomas Höllt, Boudewijn P.F. Lelieveldt, Elmar Eisemann, Anna Vilanova
Computer Graphics Forum (Proc. of EuroVis), Volume 37, Number 3 - 2018
 
Publications in 2017
PLVHEV17
Approximated and User Steerable tSNE for Progressive Visual Analytics   tvcg16_approximated_and_user_steerable_tSNE_for_progressive_visual_analytics.pdf
Nicola Pezzotti, Boudewijn P.F. Lelieveldt, Laurens van der Maaten, Thomas Höllt, Elmar Eisemann, Anna Vilanova
IEEE Transactions on Visualization and Computer Graphics, Volume 23, Number 7, page 1739--1752 - july 2017
HVMPHMVRL17
BrainScope: interactive visual exploration of the spatial and temporal human brain transcriptome   NAR_2017.pdf
Sjoerd M.H. Huisman, Baldur van Lew, Ahmed Mahfouz, Nicola Pezzotti, Thomas Höllt, Lieke Michielsen, Anna Vilanova, Marcel Reinders, Boudewijn P.F. Lelieveldt
Nucleic Acids Research - jan 2017
VHPLREVKL17
Visual Analysis of Mass Cytometry Data by Hierarchical Stochastic Neighbour Embedding Reveals Rare Cell Types   2017_hsne_preprint_supplemental.pdf 2018_hsne_biovis.pdf naturecommunications17_Visual_analysis_of_mass_cytometry_data_by_hierarchical_stochastic_neighbour_embedding_reveals_rare_cell_types.pdf
Vincent van Unen, Thomas Höllt, Nicola Pezzotti, Na Li, Marcel Reinders, Elmar Eisemann, Anna Vilanova, Frits Koning, Boudewijn P.F. Lelieveldt
Nature Communications, Volume 8, Number 1740, page 1--10 - 2017
 
Publications in 2016
HPVKELV16
Cytosplore: Interactive Immune Cell Phenotyping for Large Single-Cell Datasets   eurovis16_Cytosplore_Interactive_Immune_Cell_Phenotyping_for_Large_Single-Cell_Datasets.pdf eurovis16_Cytosplore_Interactive_Immune_Cell_Phenotyping_for_Large_Single-Cell_Datasets_slides.pdf
Thomas Höllt, Nicola Pezzotti, Vincent van Unen, Frits Koning, Elmar Eisemann, Boudewijn P.F. Lelieveldt, Anna Vilanova
Computer Graphics Forum (Proc. of EuroVis), Volume 35, Number 3, page 171--180 - june 2016
PHLEV16
Hierarchical Stochastic Neighbor Embedding   hsne.pdf
Nicola Pezzotti, Thomas Höllt, Boudewijn P.F. Lelieveldt, Elmar Eisemann, Anna Vilanova
Computer Graphics Forum (Proc. of EuroVis), Volume 35, Number 3, page 21--30 - june 2016
VLMMHVVMMVLK16
Mass Cytometry of the Human Mucosal Immune System Identifies Tissue- and Disease-Associated Immune Subsets   1-s2.0-S1074761316301431-main.pdf
Vincent van Unen, Na Li, Ilse Molendijk, Temurhan Mine, Thomas Höllt, Andrea E van der Meulen-de Jong, Hein W Verspaget, M Luisa Mearin, Chris J Mulder, Jeroen van Bergen, Boudewijn P.F. Lelieveldt, Frits Koning
Immunity, Volume 44, Number 5, page 1227--1239 - may 2016
 
Publications in 2012
KDLB12a
Integrated visualization of multi-modal multi-timepoint small animal imaging data with the cvp   kok_cvp_2012.pdf
Peter Kok, J. Dijkstra, Boudewijn P.F. Lelieveldt, Charl P. Botha
TOPIM - Hot Topics in Molecular Imaging - 2012
 
Publications in 2011
LBKHRLD11a
Towards integrated analysis of longitudinal whole-body small animal imaging studies   Lelieveldt2011.pdf
Boudewijn P.F. Lelieveldt, Charl P. Botha, E.L. Kaijzel, E.A. Hendriks, J.H.C. Reiber, C.W.G.M. Lowik, J. Dijkstra
IEEE ICASSP - 2011
 
Publications in 2007
KDBPKQLRL07a
Integrated visualization of multi-angle bioluminescence imaging and micro ct   KDBPKQLRL07a.pdf
Peter Kok, J. Dijkstra, Charl P. Botha, Frits H. Post, E.L. Kaijzel, I. Que, C.W.G.M. Lowik, J.H.C. Reiber, Boudewijn P.F. Lelieveldt
Proc. SPIE Medical Imaging 2007, Volume 6509 - 2007

37 publications
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