Department of Applied mathematics, computer science and statistics

3457 publications

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A parametric family of fuzzy similarity measures for intuitionistic fuzzy sets

Madiha Qayyum, Etienne Kerre (UGent) and Samina Ashraf

(2023) MATHEMATICS. 11(14).
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- A2
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Topological data analysis of thoracic radiographic images shows improved radiomics-based lung tumor histology prediction

Robin Vandaele, Pritam Mukherjee, Heather Marie Selby, Rajesh Pravin Shah and Olivier Gevaert

(2023) PATTERNS. 4(1).
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- Conference Paper
- C1
- open access
No imputation without representation

Oliver Urs Lenz (UGent) , Daniel Peralta (UGent) and Chris Cornelis (UGent)

(2023) BNAIC/BENELEARN 2023 : Joint International Scientific Conferences on AI and Machine Learning, Proceedings.
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- Conference Paper
- C3
Performance evaluation of RNA purification kits and blood collection tubes in the Extracellular RNA Quality Control (exRNAQC) study

Anneleen Decock (UGent) , Olivier De Wever (UGent) , Celine Everaert (UGent) , Hetty Helsmoortel (UGent) , An Hendrix (UGent) , Pieter Mestdagh (UGent) , Annelien Morlion (UGent) , Jo Vandesompele (UGent) , Ruben Van Paemel (UGent) , Francisco Avila Cobos (UGent) , et al.

(2023) 10th Gene Quantification Event qPCR dPCR & NGS 2023, Abstracts.
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- A2
Know your self-supervised learning : a survey on image-based generative and discriminative training

Utku Özbulak, Hyun Jung Lee (UGent) , Beril Boga, Esla Timothy Anzaku, Homin Park (UGent) , Arnout Van Messem (UGent) , Wesley De Neve (UGent) and Joris Vankerschaver (UGent)

(2023) TRANSACTIONS ON MACHINE LEARNING RESEARCH.
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- Journal Article
Proximal mediation analysis

Oliver Dukes (UGent) , Ilya Shpitser and Eric J Tchetgen Tchetgen

(2023) Biometrika. 110(4). p.973-987
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- Journal Article
Estimating the Effect of a Treatment When There Is Nonadherence in a Trial

David B Richardson, Oliver Dukes (UGent) and Eric J Tchetgen Tchetgen

(2023) American Journal of Epidemiology. 192(10). p.1772-1780
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Generalizing the intention-to-treat effect of an active control against placebo from historical placebo-controlled trials to an active-controlled trial: A case study of the efficacy of daily oral TDF/FTC in the HPTN 084 study

Qijia He, Fei Gao, Oliver Dukes (UGent) , Sinead Delany-Moretlwe and Bo Zhang

(2023)
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Augmented balancing weights as linear regression

David Bruns-Smith, Oliver Dukes (UGent) , Avi Feller and Elizabeth L. Ogburn

(2023)
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A plasma miR-193b-365 signature combined with age and glycemic status predicts response to Lactococcus lactis-based antigen-specific immunotherapy in new-onset type 1 diabetes

Gabriele Sassi, Giada Licata, Giuliana Ventriglia, Amber Wouters, Pierre Lemaitre, Ruth Seurinck (UGent) , Alessia Mori, Giuseppina Emanuela Grieco, Samal Bissenova, Darcy Ellis, et al.

(2023) DIABETES. 72(10). p.1470-1482
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Quality control for the target decoy approach for peptide identification

Elke Debrie (UGent) , Milan Malfait (UGent) , Ralf Gabriels (UGent) , Arthur Declercq (UGent) , Adriaan Sticker, Lennart Martens (UGent) and Lieven Clement (UGent)

(2023) JOURNAL OF PROTEOME RESEARCH. 22(2). p.350-358
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On a conjecture of Grünbaum on longest cycles

Carol Zamfirescu (UGent)

(2023) EUROPEAN JOURNAL OF COMBINATORICS. 114.
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Fuzzy rough sets based on fuzzy quantification

Adnan Theerens (UGent) and Chris Cornelis (UGent)

(2023) FUZZY SETS AND SYSTEMS. 473.
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- Research Data
Dolos — Source Code Plagiarism Detection System

Rien Maertens (UGent) , Charlotte Van Petegem (UGent) , Niko Strijbol (UGent) , Toon Baeyens (UGent) , Arne Carla Jacobs, Peter Dawyndt (UGent) and Bart Mesuere (UGent)

(2023)
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The single-cell transcriptional landscape of innate and adaptive lymphocytes in pediatric-onset colitis

Efthymia Kokkinou, Tea Soini, Ram Vinay Pandey, Aline van Acker, Jakob Theorell, Paulo Czarnewski, Egle Kvedaraite, Niels Vandamme (UGent) , Magda Lourda, Chiara Sorini, et al.

(2023) CELL REPORTS MEDICINE. 4(5).
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A complement atlas identifies interleukin-6-dependent alternative pathway dysregulation as a key druggable feature of COVID-19

Karel Van Damme (UGent) , Levi Hoste (UGent) , Jozefien Declercq (UGent) , Elisabeth De Leeuw (UGent) , Bastiaan Maes (UGent) , Liesbet Martens (UGent) , Roos Colman (UGent) , Robin Browaeys (UGent) , Cedric Bosteels (UGent) , Stijn Verwaerde (UGent) , et al.

(2023) SCIENCE TRANSLATIONAL MEDICINE. 15(710).
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- P1
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A decentralized information marketplace preserving input and output privacy

Steven Golob, Sikha Pentyala, Rafael Dowsley, Bernardo David, Mario Larangeira, Martine De Cock (UGent) and Anderson Nascimento

(2023) PROCEEDINGS OF THE 2ND ACM DATA ECONOMY WORKSHOP, DEC 2023.
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Rough sets : international joint conference, IJCRS 2023, Krakow, Poland, October 5–8, 2023, Proceedings

Andrea Campagner, Oliver Urs Lenz (UGent) , Shuyin Xia, Dominik Ślęzak, Jarosław Wąs and JingTao Yao

(2023) In Lecture Notes in Computer Science 14481.
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- C3
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Dramatic impact of blood collection tube and RNA purification method on extracellular RNA transcriptomes

Jasper Anckaert (UGent) , Francisco Avila Cobos (UGent) , Anneleen Decock (UGent) , Philippe Decruyenaere (UGent) , Jill Deleu (UGent) , Katleen De Preter (UGent) , Olivier De Wever (UGent) , Jilke De Wilde (UGent) , Bert Dhondt (UGent) , Thibaut D'huyvetter (UGent) , et al.

(2023) 6th ACTC Advances in Circulating Tumor Cells 'Liquid Biopsy and Precision Oncology : Where do we stand now?' Book of Abstracts.
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Some results on k-critical P5-free graphs

Qingqiong Cai, Jan Goedgebeur (UGent) and Shenwei Huang

(2023) DISCRETE APPLIED MATHEMATICS. 334. p.91-100
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Nonsingular hypercubes and nonintersecting hyperboloids

Kris Coolsaet (UGent)

(2023) DESIGNS CODES AND CRYPTOGRAPHY. 92. p.93-112
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- A2
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A robust pipeline for high-content, high-throughput immunophenotyping reveals age- and genetics-dependent changes in blood leukocytes

Thomas Liechti, Sofie Van Gassen (UGent) , Margaret Beddall, Reid Ballard, Yaser Iftikhar, Renguang Du, Thiagarajan Venkataraman, David Novák (UGent) , Massimo Mangino, Stephen Perfetto, et al.

(2023) CELL REPORTS METHODS. 3(10).
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Pooling isolates to address the diversity in antimicrobial susceptibility of Pseudomonas aeruginosa in cystic fibrosis

Sara Van den Bossche (UGent) , Emmanuel Abatih (UGent) , Lucia Grassi (UGent) , Emma De Broe (UGent) , Petra Rigole (UGent) , Jerina Boelens (UGent) , Joris Van Caenegem (UGent) , Bruno Verhasselt (UGent) , Iris Janssens (UGent) , Eva Van Braeckel (UGent) , et al.

(2023) MICROBIOLOGY SPECTRUM. 11(6).
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Single-cell profiling identifies a novel human polyclonal unconventional T cell lineage

Lore Billiet (UGent) , Laurenz De Cock (UGent) , Guillem Sanchez Sanchez, Rupert Mayer (UGent) , Glenn Goetgeluk (UGent) , Stijn De Munter (UGent) , Melissa Pille (UGent) , Joline Ingels (UGent) , Hanne Jansen, Karin Weening (UGent) , et al.

(2023) JOURNAL OF EXPERIMENTAL MEDICINE. 220(6).
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- P1
Classifying token frequencies using angular Minkowski p-distance

Oliver Urs Lenz (UGent) and Chris Cornelis (UGent)

(2023) ROUGH SETS, IJCRS 2023. In Lecture Notes in Computer Science 14481. p.402-413
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Polar lake microbiomes have distinct evolutionary histories

Bjorn Tytgat (UGent) , Elie Verleyen (UGent) , Maxime Sweetlove (UGent) , Koen Van den Berge (UGent) , Eveline Pinseel (UGent) , Dominic A. Hodgson, Steven L. Chown, Koen Sabbe (UGent) , Annick Wilmotte, Anne Willems (UGent) , et al.

(2023) SCIENCE ADVANCES. 9(46).
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Secure multi-party computation for personalized human activity recognition

David Melanson, Ricardo Maia, Hee-Seok Kim, Anderson Nascimento and Martine De Cock (UGent)

(2023) NEURAL PROCESSING LETTERS. 55(3). p.2127-2153
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Privacy-preserving fair item ranking

Jia Ao Sun, Sikha Pentyala, Martine De Cock (UGent) and Golnoosh Farnadi

(2023) ADVANCES IN INFORMATION RETRIEVAL, ECIR 2023, PT II. In Lecture Notes in Computer Science 13981. p.188-203
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- Miscellaneous
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Juggling offsets unlocks RNA-seq tools for fast scalable differential usage, aberrant splicing and expression analyses

Alexandre Segers (UGent) , Jeroen Gilis (UGent) , Mattias Van Heetvelde (UGent) , Elfride De Baere (UGent) and Lieven Clement (UGent)

(2023)
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- Miscellaneous
- open access
MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data

Robin Browaeys (UGent) , Jeroen Gilis (UGent) , Chananchida Sang-aram (UGent) , Pieter De Bleser (UGent) , Levi Hoste (UGent) , Simon Tavernier (UGent) , Diether Lambrechts, Ruth Seurinck (UGent) and Yvan Saeys (UGent)

(2023)
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- Journal Article
- A1
Strands : new efficient technique for solving time-independent two-dimensional Schrödinger equations accurately

Toon Baeyens (UGent) and Marnix Van Daele (UGent)

(2023) COMPUTERS & MATHEMATICS WITH APPLICATIONS. 152. p.334-340
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- Conference Paper
- C3
Performance evaluation of RNA purification kits and blood collection tubes in the Extracellular RNA Quality Control (exRNAQC) study

Anneleen Decock (UGent) , Olivier De Wever (UGent) , Celine Everaert (UGent) , Hetty Helsmoortel (UGent) , An Hendrix (UGent) , Pieter Mestdagh (UGent) , Annelien Morlion (UGent) , Jo Vandesompele (UGent) , Ruben Van Paemel (UGent) , Francisco Avila Cobos (UGent) , et al.

(2023) PrIOMiC-OncoPoint Symposium 2023, Abstracts.
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- P1
- open access
Revised conditional t-SNE : looking beyond the nearest neighbors

Edith Heiter (UGent) , Bo Kang (UGent) , Ruth Seurinck (UGent) and Jefrey Lijffijt (UGent)

(2023) Advances in Intelligent Data Analysis XXI : 21st International Symposium on Intelligent Data Analysis, IDA 2023, Proceedings. In Lecture notes in computer science 13876. p.169-181
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Ensuring valid inference for cox hazard ratios after variable selection

Kelly Van Lancker (UGent) , Oliver Dukes (UGent) and Stijn Vansteelandt (UGent)

(2023) BIOMETRICS. 79(4). p.3096-3110
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Emergent dynamics of adult stem cell lineages from single nucleus and single cell RNA-Seq of Drosophila testes

Amelie A. Raz, Gabriela S. Vida, Sarah R. Stern, Sharvani Mahadevaraju, Jaclyn M. Fingerhut, Jennifer M. Viveiros, Soumitra Pal, Jasmine R. Grey, Mara R. Grace, Cameron W. Berry, et al.

(2023) ELIFE. 12.
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- A2
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Protocol for large scale whole blood immune monitoring by mass cytometry and Cyto Quality Pipeline

P Rybakowska, Sofie Van Gassen (UGent) , J Martorell Marugán, Katrien Quintelier (UGent) , Yvan Saeys (UGent) , ME Alarcón-Riquelme and C Marañón

(2022) STAR PROTOCOLS. 3(4).
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FragGeneScanRs : faster gene prediction for short reads

Felix Van der Jeugt, Peter Dawyndt (UGent) and Bart Mesuere (UGent)

(2022) BMC BIOINFORMATICS. 23(1).
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Hamiltonian cycles and 1-factors in 5-regular graphs

Nicolas Van Cleemput (UGent) and Carol Zamfirescu (UGent)

(2022) JOURNAL OF COMBINATORIAL THEORY SERIES B. 154. p.239-261
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Targeting ferroptosis protects against experimental (multi)organ dysfunction and death

Samya Van Coillie (UGent) , Emily Van San (UGent) , Ines Goetschalckx, Bartosz Wiernicki (UGent) , Banibrata Mukhopadhyay, Wulf Tonnus, Sze Men Choi (UGent) , Ria Roelandt (UGent) , Catalina Dumitrascu, Ludwig Lamberts, et al.

(2022) NATURE COMMUNICATIONS. 13(1).
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Pout2Prot : an efficient tool to create protein (sub)groups from Percolator Output Files

Kay Schallert, Pieter Verschaffelt (UGent) , Bart Mesuere (UGent) , Dirk Benndorf, Lennart Martens (UGent) and Tim Van Den Bossche (UGent)

(2022) JOURNAL OF PROTEOME RESEARCH. 21(4). p.1175-1180
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Vertex degrees and 2-cuts in graphs with many hamiltonian vertex-deleted subgraphs

Carol Zamfirescu (UGent)

(2022) INFORMATION PROCESSING LETTERS. 174.
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Glutathione-dependent redox balance characterizes the distinct metabolic properties of follicular and marginal zone B cells

Davide G. Franchina, Henry Kurniawan, Melanie Grusdat, Carole Binsfeld, Luana Guerra, Lynn Bonetti, Leticia Soriano-Baguet, Anouk Ewen, Takumi Kobayashi, Sophie Farinelle, et al.

(2022) NATURE COMMUNICATIONS. 13(1).
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Loss of GM-CSF-dependent instruction of alveolar macrophages in COVID-19 provides a rationale for inhaled GM-CSF treatment

Cedric Bosteels (UGent) , Karel Van Damme (UGent) , Elisabeth De Leeuw (UGent) , Jozefien Declercq (UGent) , Bastiaan Maes (UGent) , Victor Bosteels (UGent) , Levi Hoste (UGent) , Leslie Naesens (UGent) , Nincy Debeuf (UGent) , Julie Deckers (UGent) , et al.

(2022) CELL REPORTS MEDICINE. 3(12).
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- Conference Paper
- P1
Hybridization of fuzzy sets and rough sets : achievements and opportunities

Chris Cornelis (UGent)

(2022) Proceedings of the 2022 17th Conference on Computer Science and Intelligence Systems (FEDCSIS). In Federated Conference on Computer Science and Information Systems p.7-14
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- Book Editor
Fuzzy information processing 2020 : proceedings of the 2020 annual conference of the North American fuzzy information processing society, NAFIPS 2020

Barnabás Bede, Martine Ceberio, Martine De Cock (UGent) and Vladik Kreinovich

(2022)
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Single-cell transcriptomics sheds light on the identity and metabolism of developing leaf cells

Rubén Tenorio Berrio (UGent) , Kevin Verstaen (UGent) , Niels Vandamme (UGent) , Julie Pevernagie (UGent) , Ignacio Achón (UGent) , Julie Van Duyse (UGent) , Gert Van Isterdael (UGent) , Yvan Saeys (UGent) , Lieven De Veylder (UGent) , Dirk Inzé (UGent) , et al.

(2022) PLANT PHYSIOLOGY. 188(2). p.898-918
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The influence of unmeasured confounding on the MR Steiger approach

Sharon M. Lutz, Kirsten Voorhies, Ann Chen Wu, John Hokanson, Stijn Vansteelandt (UGent) and Christoph Lange

(2022) GENETIC EPIDEMIOLOGY. 46(2). p.139-141
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Quality assessment practice in systematic reviews of mediation studies : results from an overview of systematic reviews

Tat-Thang Vo, Aidan Cashin, Cecilia Superchi, Pham Hien Trang Tu, Thanh Binh Nguyen, Isabelle Boutron, David MacKinnon, Tyler Vanderweele, Hopin Lee and Stijn Vansteelandt (UGent)

(2022) JOURNAL OF CLINICAL EPIDEMIOLOGY. 143. p.137-148
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Demystifying statistical learning based on efficient influence functions

Oliver Hines, Oliver Dukes (UGent) , Karla Diaz-Ordaz and Stijn Vansteelandt (UGent)

(2022) AMERICAN STATISTICIAN. 76(3). p.292-304
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- PhD Thesis
The unipept metagenomics analysis pipeline

Felix Van der Jeugt (UGent)

(2022)

← Previous

A parametric family of fuzzy similarity measures for intuitionistic fuzzy sets

Topological data analysis of thoracic radiographic images shows improved radiomics-based lung tumor histology prediction

No imputation without representation

Performance evaluation of RNA purification kits and blood collection tubes in the Extracellular RNA Quality Control (exRNAQC) study

Know your self-supervised learning : a survey on image-based generative and discriminative training

Proximal mediation analysis

Estimating the Effect of a Treatment When There Is Nonadherence in a Trial

Generalizing the intention-to-treat effect of an active control against placebo from historical placebo-controlled trials to an active-controlled trial: A case study of the efficacy of daily oral TDF/FTC in the HPTN 084 study

Augmented balancing weights as linear regression

A plasma miR-193b-365 signature combined with age and glycemic status predicts response to Lactococcus lactis-based antigen-specific immunotherapy in new-onset type 1 diabetes

Quality control for the target decoy approach for peptide identification

On a conjecture of Grünbaum on longest cycles

Fuzzy rough sets based on fuzzy quantification

Dolos — Source Code Plagiarism Detection System

The single-cell transcriptional landscape of innate and adaptive lymphocytes in pediatric-onset colitis

A complement atlas identifies interleukin-6-dependent alternative pathway dysregulation as a key druggable feature of COVID-19

A decentralized information marketplace preserving input and output privacy

Rough sets : international joint conference, IJCRS 2023, Krakow, Poland, October 5–8, 2023, Proceedings

Dramatic impact of blood collection tube and RNA purification method on extracellular RNA transcriptomes

Some results on k-critical P5-free graphs

Nonsingular hypercubes and nonintersecting hyperboloids

A robust pipeline for high-content, high-throughput immunophenotyping reveals age- and genetics-dependent changes in blood leukocytes

Pooling isolates to address the diversity in antimicrobial susceptibility of Pseudomonas aeruginosa in cystic fibrosis

Single-cell profiling identifies a novel human polyclonal unconventional T cell lineage

Classifying token frequencies using angular Minkowski p-distance

Polar lake microbiomes have distinct evolutionary histories

Secure multi-party computation for personalized human activity recognition

Privacy-preserving fair item ranking

Juggling offsets unlocks RNA-seq tools for fast scalable differential usage, aberrant splicing and expression analyses

MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data

Strands : new efficient technique for solving time-independent two-dimensional Schrödinger equations accurately

Performance evaluation of RNA purification kits and blood collection tubes in the Extracellular RNA Quality Control (exRNAQC) study

Revised conditional t-SNE : looking beyond the nearest neighbors

Ensuring valid inference for cox hazard ratios after variable selection

Emergent dynamics of adult stem cell lineages from single nucleus and single cell RNA-Seq of Drosophila testes

Protocol for large scale whole blood immune monitoring by mass cytometry and Cyto Quality Pipeline

FragGeneScanRs : faster gene prediction for short reads

Hamiltonian cycles and 1-factors in 5-regular graphs

Targeting ferroptosis protects against experimental (multi)organ dysfunction and death

Pout2Prot : an efficient tool to create protein (sub)groups from Percolator Output Files

Vertex degrees and 2-cuts in graphs with many hamiltonian vertex-deleted subgraphs

Glutathione-dependent redox balance characterizes the distinct metabolic properties of follicular and marginal zone B cells

Loss of GM-CSF-dependent instruction of alveolar macrophages in COVID-19 provides a rationale for inhaled GM-CSF treatment

Hybridization of fuzzy sets and rough sets : achievements and opportunities

Fuzzy information processing 2020 : proceedings of the 2020 annual conference of the North American fuzzy information processing society, NAFIPS 2020

Single-cell transcriptomics sheds light on the identity and metabolism of developing leaf cells

The influence of unmeasured confounding on the MR Steiger approach

Quality assessment practice in systematic reviews of mediation studies : results from an overview of systematic reviews

Demystifying statistical learning based on efficient influence functions

The unipept metagenomics analysis pipeline