bioconductor: dupRadar | Projects

10.1038/s41598-021-88698-3

In-depth transcriptomic analysis of human retina reveals molecular mechanisms underlying diabetic retinopathy
Cited by: 23
Author(s): Kolja Becker, H. Klein, Eric J. Simon, Coralie Viollet, Christian Haslinger, Germán Leparc, Christian Schultheis, Victor Chong, Markus H. Kuehn, Francesc Fernández-Albert, Remko A. Bakker
Software Mentions: 11
Published: over 3 years ago

10.3390/ijms21134763

The Differential Effect of Carbon Dots on Gene Expression and DNA Methylation of Human Embryonic Lung Fibroblasts as a Function of Surface Charge and Dose
Cited by: 15
Author(s): Michal Šíma, Kristýna Vrbová, Táňa Závodná, K. Hoňková, Irena Chvojková, Antonín Ambrož, Jǐŕı Kléma, Andrea Rössnerová, Kateřina Poláková, Tomáš Malina, Jan Belza, Jan Topinka, Pavel Rőssner
Software Mentions: 9
Published: over 4 years ago

10.1002/advs.201903200

Size‐Dependent Pulmonary Impact of Thin Graphene Oxide Sheets in Mice: Toward Safe‐by‐Design
Cited by: 34
Author(s): Artur Filipe Rodrigues, Leon Newman, Dhifaf Jasim, Sourav P. Mukherjee, Jun Wang, Isabella Anna Vacchi, Cécilia Ménard‐Moyon, Alberto Bianco, Bengt Fadeel, Kostas Kostarelos, Cyrill Bussy
Software Mentions: 6
Published: over 4 years ago

10.1038/sdata.2017.185

An RNA-Seq atlas of gene expression in mouse and rat normal tissues
Cited by: 95
Author(s): Julia F. Söllner, Germán Leparc, Tobias Hildebrandt, H. Klein, Leo Thomas, Elia Stupka, Eric J. Simon
Software Mentions: 6
Published: about 7 years ago

10.1371/journal.pbio.3000741

Cell-based and multi-omics profiling reveals dynamic metabolic repurposing of mitochondria to drive developmental progression of Trypanosoma brucei
Cited by: 32
Author(s): Eva Doleželová, Michaela Kunzová, Mario Dejung, Michal Levin, Brian Panicucci, Clément Regnault, Christian J. Janzen, Michael P. Barrett, Falk Butter, Alena Zı́ková
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pcbi.1007625

XPRESSyourself: Enhancing, standardizing, and automating ribosome profiling computational analyses yields improved insight into data
Cited by: 14
Author(s): Jordan A. Berg, Jonathan R Belyeu, Jeffrey T. Morgan, Yeyun Ouyang, Alex J. Bott, Aaron R. Quinlan, Jason Gertz, Jared Rutter
Software Mentions: 6
Published: almost 5 years ago

10.1007/s10456-021-09788-4

The endosomal RIN2/Rab5C machinery prevents VEGFR2 degradation to control gene expression and tip cell identity during angiogenesis
Cited by: 20
Author(s): Lanette Kempers, Yuki Wakayama, Ivo van der Bijl, Charita Furumaya, Iris M. De Cuyper, Aldo Jongejan, Marije Kat, Anne-Marieke D. van Stalborch, Antonius L. van Boxtel, Marvin Hubert, Dirk Geerts, Jaap D. van Buul, Dirk de Korte, Wiebke Herzog, Coert Margadant
Software Mentions: 5
Published: over 3 years ago

10.1186/s40478-019-0805-4

Profiling the unique protective properties of intracranial arterial endothelial cells
Cited by: 7
Author(s): Dorien Hermkens, Olga C.G. Stam, Nienke M. de Wit, Ruud D. Fontijn, Aldo Jongejan, Perry D. Moerland, Claire Mackaaij, Ingeborg S. E. Waas, M. J. A. P. Daemen, Helga E. de Vries
Software Mentions: 5
Published: about 5 years ago

10.7554/eLife.32332

Evolution and cell-type specificity of human-specific genes preferentially expressed in progenitors of fetal neocortex
Cited by: 131
Author(s): Marta Florio, Michael Heide, Anneline Pinson, Holger Brandl, Mareike Albert, Sylke Winkler, Pauline Wimberger, Wieland B. Huttner, Michael Hiller
Software Mentions: 5
Published: almost 7 years ago

10.3390/pharmaceutics13081105

Evaluation of an Intravitreal Rho-Associated Kinase Inhibitor Depot Formulation in a Rat Model of Diabetic Retinopathy
Cited by: 2
Author(s): Cécile Lebon, Heike Neubauer, Marianne Berdugo, Kimberley Delaunay, Elke Markert, Kolja Becker, Katja S. Baum-Kroker, J. Prestle, Holger Fuchs, Remko A. Bakker, Francine Behar‐Cohen
Software Mentions: 5
Published: over 3 years ago

10.3390/ijms20225710

The Biological Effects of Complete Gasoline Engine Emissions Exposure in a 3D Human Airway Model (MucilAirTM) and in Human Bronchial Epithelial Cells (BEAS-2B)
Cited by: 13
Author(s): Pavel Rőssner, Tereza Červená, Michal Vojtíšek-Lom, Kristýna Vrbová, Antonín Ambrož, Zuzana Nováková, Fatima Elzeinová, Hasmik Margaryan, V. Beránek, Martin Pechout, David Macoun, Jǐŕı Kléma, Andrea Rössnerová, Miroslav Cigánek, Jan Topinka
Software Mentions: 4
Published: about 5 years ago

10.18632/oncotarget.25596

Role for the transcriptional activator ZRF1 in early metastatic events in breast cancer progression and endocrine resistance
Cited by: 5
Author(s): Ayşegül Öztürk Kaymak, Sergi Sayols, Thaleia Papadopoulou, Holger Richly
Software Mentions: 4
Published: over 6 years ago

10.1186/s12859-016-1276-2

dupRadar: a Bioconductor package for the assessment of PCR artifacts in RNA-Seq data
Cited by: 87
Author(s): Sergi Sayols, Denise Scherzinger, H. Klein
Software Mentions: 4
Published: about 8 years ago

10.18632/oncotarget.27506

Inducible knock-out of BCL6 in lymphoma cells results in tumor stasis
Cited by: 21
Author(s): Stefanie Schlager, Carina Salomon, Sabine Olt, Christoph Albrecht, Anja Ebert, Oliver Bergner, Johannes Wachter, Francesca Trapani, Daniel Gerlach, Tilman Voss, Anna K. Traunbauer, Julian Jude, Matthias Hinterndorfer, Martina Minnich, Norbert Schweifer, Sophia M. Blake, Vittoria Zinzalla, Barbara Drobits, Darryl B. McConnell, Norbert Kraut, Mark Pearson, Johannes Zuber, Manfred Koegl
Software Mentions: 3
Published: almost 5 years ago

10.1186/s12920-019-0524-5

Exploiting orthology and de novo transcriptome assembly to refine target sequence information
Cited by: 3
Author(s): Julia F. Söllner, Germán Leparc, Matthias Zwick, Tanja Schönberger, Tobias Hildebrandt, Kay Nieselt, Eric J. Simon
Software Mentions: 3
Published: over 5 years ago

10.1098/rstb.2019.0341

Transposable elements contribute to the genomic response to insecticides in <i>Drosophila melanogaster</i>
Cited by: 24
Author(s): Judit Salces-Ortiz, Carlos Vargas-Chávez, Lain Guio, Gabriel E. Rech
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pone.0211978

Testing of library preparation methods for transcriptome sequencing of real life glioblastoma and brain tissue specimens: A comparative study with special focus on long non-coding RNAs
Cited by: 7
Author(s): Marek Večeřa, Jiří Šána, Jan Oppelt, Boris Tichý, Alena Kopková, Radim Lipina, Martin Smrčka, Radim Jančálek, Markéta Hermanová, Leoš Křen, Ondřej Slabý
Software Mentions: 3
Published: almost 6 years ago

10.1083/jcb.202103003

Anisotropic expansion of hepatocyte lumina enforced by apical bulkheads
Cited by: 10
Author(s): Lenka Belicová, Urška Repnik, Julien Delpierre, Elzbieta Gralinska, Stefan Seifert, Juan Pablo Valenzuela, Hernán Morales‐Navarrete, Christian Franke, Helin Räägel, Evgeniya Shcherbinina, Tatiana Prikazchikova, Victor Koteliansky, Martin Vingron, Yannis Kalaidzidis, Timofei S. Zatsepin, Marino Zerial
Software Mentions: 3
Published: over 3 years ago

10.1038/s41598-021-94360-9

CD276 is an important player in macrophage recruitment into the tumor and an upstream regulator for PAI-1
Cited by: 6
Author(s): Sibel Durlanik, Katrin Fundel‐Clemens, Coralie Viollet, Heinrich J. Huber, Martin Lenter, Kerstin Kitt, Stefan Pflanz
Software Mentions: 3
Published: over 3 years ago

10.1038/s41598-020-61064-5

Transcriptomic and metabolomic analyses of Lycium ruthenicum and Lycium barbarum fruits during ripening
Cited by: 12
Author(s): Jianhua Zhao, Haoxia Li, Yue Yin, Wei An, Xiaoya Qin, Yajun Wang, Yanlong Li, Yunfang Fan, Yang Cao
Software Mentions: 2
Published: almost 5 years ago

10.3389/fphys.2020.567675

A Novel Fibroblast Reporter Cell Line for in vitro Studies of Pulmonary Fibrosis
Cited by: 6
Author(s): Júlia Németh, Annika Schundner, Karsten Quast, Veronika Eva Winkelmann, Manfred Frick
Software Mentions: 2
Published: about 4 years ago

10.3389/fcell.2021.656867

High-Yield Human Induced Pluripotent Stem Cell-Derived Monocytes and Macrophages Are Functionally Comparable With Primary Cells
Cited by: 10
Author(s): Di Cui, Alexandra Franz, Sophie Fillon, Linda Jannetti, Timo Isambert, Katrin Fundel‐Clemens, Heinrich J. Huber, Coralie Viollet, Alexander Ghanem, Akira Niwa, Bernd Weigle, Stefan Pflanz
Software Mentions: 2
Published: over 3 years ago

10.1007/s12035-018-1433-x

Riluzole Attenuates L-DOPA-Induced Abnormal Involuntary Movements Through Decreasing CREB1 Activity: Insights from a Rat Model
Cited by: 3
Author(s): Luca Pagliaroli, Joanna Widomska, Ester Nespoli, Tobias Hildebrandt, Csaba Barta, Jeffrey Glennon, Bastian Hengerer, Geert Poelmans
Software Mentions: 2
Published: about 6 years ago

Ecosyste.ms: Papers

Projects: bioconductor: dupRadar

Papers Mentioning dupRadar 23