Ecosyste.ms: Papers

10.3390/molecules25040836

Rosmarinic Acid as a Candidate in a Phenotypic Profiling Cardio-/Cytotoxicity Cell Model Induced by Doxorubicin
Cited by: 7
Author(s): Qiao Zhang, Jing Li, Sha Peng, Yanling Zhang, Yanjiang Qiao
Software Mentions: 1
Published: almost 5 years ago

10.1016/j.molmet.2018.11.004

Hypothalamic POMC or MC4R deficiency impairs counterregulatory responses to hypoglycemia in mice
Cited by: 14
Author(s): Benjamin P. Tooke, Hui Yu, Jeffrey Adams, Graham L. Jones, Talisha Sutton-Kennedy, Lakshmi Mundada, Nathan Qi, Malcolm J. Low, Kavaljit H. Chhabra
Software Mentions: 1
Published: almost 6 years ago

10.1016/j.molmet.2015.02.003

Mice lacking neutral amino acid transporter B0AT1 (Slc6a19) have elevated levels of FGF21 and GLP-1 and improved glycaemic control
Cited by: 67
Author(s): Yang Jiang, Adam J. Rose, Tjeerd Sijmonsma, Angelika Bröer, Anja Pfenninger, Stephan Herzig, Dieter Schmoll, Stefan Bröer
Software Mentions: 1
Published: over 9 years ago

10.1007/s12035-017-0834-6

A Novel Ultrasensitive In Situ Hybridization Approach to Detect Short Sequences and Splice Variants with Cellular Resolution
Cited by: 49
Author(s): Larissa Erben, Min He, Annelies Laeremans, Emily Park, Andrés Buonanno
Software Mentions: 1
Published: almost 7 years ago

10.1002/1878-0261.12780

Distribution and prognostic significance of gluconeogenesis and glycolysis in lung cancer
Cited by: 47
Author(s): Elisabeth Smolle, Petra Leko, Elvira Stacher‐Priehse, Luka Brčić, Amin El‐Heliebi, Lilli Hofmann, Franz Quehenberger, Andelko Hrzenjak, Helmut Popper, Horst Olschewski, Katharina Leithner
Software Mentions: 1
Published: about 4 years ago

10.15252/msb.20198983

A solid‐phase transfection platform for arrayed <scp>CRISPR</scp> screens
Cited by: 7
Author(s): Özdemirhan Serçin, Sabine Reither, Paris Roidos, Nadja Ballin, Spyridon Palikyras, Anna Baginska, Katrin Rein, Marı́a Llamazares, Aliaksandr Halavatyi, Hauke Winter, Thomas Muley, Renata Z. Jurkowska, Amir Abdollahi, Frank T. Zenke, Beate Neumann, Balca R. Mardin
Software Mentions: 1
Published: almost 5 years ago

10.15252/msb.20188322

Tumor‐stroma interactions differentially alter drug sensitivity based on the origin of stromal cells
Cited by: 26
Author(s): Benjamin Landry, Thomas Leete, Ryan Richards, Peter Cruz‐Gordillo, Hannah Schwartz, Megan E. Honeywell, Gary Ren, Alyssa D. Schwartz, Shelly R. Peyton, Michael J. Lee
Software Mentions: 1
Published: over 6 years ago

10.15252/msb.20156458

Frequency modulation of <scp>ERK</scp> activation dynamics rewires cell fate
Cited by: 174
Author(s): Hyunryul Ryu, Minhwa Chung, Maciej Dobrzyński, Dirk Fey, Yannick Blum, Sung Sik Lee, Matthias Peter, Boris N. Kholodenko, Noo Li Jeon, Olivier Pertz
Software Mentions: 1
Published: about 9 years ago

10.15252/msb.20177551

Automated analysis of high‐content microscopy data with deep learning
Cited by: 212
Author(s): Oren Kraus, Ben T. Grys, Jimmy Ba, Yolanda T. Chong, Brendan J. Frey, Charles Boone, Brenda Andrews
Software Mentions: 1
Published: over 7 years ago

10.15252/msb.20177733

Cell‐specific responses to the cytokine <scp>TGF</scp> β are determined by variability in protein levels
Cited by: 51
Author(s): Jette Strasen, Uddipan Sarma, Marcel Jentsch, Stefan Bohn, Caibin Sheng, Daniel Horbelt, Petra Knaus, Stefan Legewie, Alexander Loewer
Software Mentions: 1
Published: almost 7 years ago

10.15252/msb.20198947

Temporal perturbation of ERK dynamics reveals network architecture of FGF2/MAPK signaling
Cited by: 28
Author(s): Yannick Blum, Jan Mikelson, Maciej Dobrzyński, Hyunryul Ryu, Marc‐Antoine Jacques, Noo Li Jeon, Mustafa Khammash, Olivier Pertz
Software Mentions: 1
Published: about 5 years ago

10.1038/s41385-021-00437-z

Human small intestinal infection by SARS-CoV-2 is characterized by a mucosal infiltration with activated CD8+ T cells
Cited by: 48
Author(s): Malte Lehmann, Kristina Allers, C Heldt, Jenny Meinhardt, Franziska Schmidt, Yasmina Rodríguez-Sillke, Désirée Kunkel, Michael Schümann, Chotima Böttcher, Christiane Stahl–Hennig∥, Sefer Elezkurtaj, Christian Bojarski, Helena Radbruch, Victor M. Corman, Thomas Schneider, Christoph Loddenkemper, Verena Moos, Carl Weidinger, Anja A. Kühl, Britta Siegmund
Software Mentions: 1
Published: about 3 years ago

10.3390/vetsci6020045

2,4-Thiazolidinedione in Well-Fed Lactating Dairy Goats: I. Effect on Adiposity and Milk Fat Synthesis
Cited by: 3
Author(s): Shana Jaaf, Fernanda Rosa, Misagh Moridi, J. S. Osorio, J. D. Lohakare, Erminio Trevisi, Shelby J. Filley, Gita Cherian, Charles T. Estill, Massimo Bionaz
Software Mentions: 1
Published: over 5 years ago

10.1080/21505594.2021.1964329

The ApoA-I mimetic peptide 4F attenuates in vitro replication of SARS-CoV-2, associated apoptosis, oxidative stress and inflammation in epithelial cells
Cited by: 9
Author(s): Theodoros Kelesidis, Sharma Madhav, Anton Petcherski, Cristelle Hugo, Ellen O’Connor, Nan W. Hultgren, Eleni Ritou, David Williams, Orian S. Shirihai, Srinivasa T. Reddy
Software Mentions: 1
Published: about 3 years ago

10.3390/v10040152

Identification of Ellagic Acid from Plant Rhodiola rosea L. as an Anti-Ebola Virus Entry Inhibitor
Cited by: 39
Author(s): Qinghua Cui, Ruikun Du, Manu Anantpadma, Adam Schafer, Lin Hou, Tian Jing-zhen, Robert A. Davey, Han Cheng, Lijun Rong
Software Mentions: 1
Published: over 6 years ago

10.3390/v10040202

Concepts in Light Microscopy of Viruses
Cited by: 40
Author(s): Robert Witte, Vardan Andriasyan, Fanny Georgi, Artur Yakimovich, Urs F. Greber
Software Mentions: 1
Published: over 6 years ago

10.3390/v10120678

Identification of Diaryl-Quinoline Compounds as Entry Inhibitors of Ebola Virus
Cited by: 20
Author(s): Qinghua Cui, Han Cheng, Rui Xiong, Gang Zhang, Ruikun Du, Manu Anantpadma, Robert A. Davey, Lijun Rong
Software Mentions: 1
Published: almost 6 years ago

10.3390/v12010012

The Zebrafish Xenograft Platform—A Novel Tool for Modeling KSHV-Associated Diseases
Cited by: 11
Author(s): Eric S. Pringle, Jaime Wertman, Nicole Melong, Andrew J Coombs, Andrew L. Young, David O’Leary, Chansey J. Veinotte, Carolyn A. Jost Robinson, Michael N. Ha, Graham Dellaire, Todd E. Druley, Craig McCormick, Jason N. Berman
Software Mentions: 1
Published: almost 5 years ago

10.3390/v12121423

Novel Broad-Spectrum Antiviral Inhibitors Targeting Host Factors Essential for Replication of Pathogenic RNA Viruses
Cited by: 20
Author(s): Marianna Tampere, Aleksandra Pettke, Cristiano Salata, Olov Wallner, Tobias Koolmeister, Armando Cázares‐Körner, Torkild Visnes, Maria C Hesselman, Elena Kunold, Elisée Wiita, Christina Kaldéren, Molly Lightowler, Ann‐Sofie Jemth, Janne Lehtiö, Åsa Rosenquist, Ulrika Warpman Berglund, Thomas Helleday, Alì Mirazimi, Rozbeh Jafari, Marjo-Riitta Puumalainen
Software Mentions: 1
Published: almost 4 years ago

10.3390/v13010037

Broadly Active Antiviral Compounds Disturb Zika Virus Progeny Release Rescuing Virus-Induced Toxicity in Brain Organoids
Cited by: 14
Author(s): Aleksandra Pettke, Marianna Tampere, Robin Pronk, Olov Wallner, Anna Falk, Ulrika Warpman Berglund, Thomas Helleday, Alì Mirazimi, Marjo-Riitta Puumalainen
Software Mentions: 1
Published: almost 4 years ago

10.3390/v13010036

Chloroquine and Sulfadoxine Derivatives Inhibit ZIKV Replication in Cervical Cells
Cited by: 4
Author(s): Audrien Alves Andrade de Souza, Lauana Ribas Torres, Lyana Rodrigues Pinto Lima Capobianco, Vanessa Salete de Paula, Cynthia Machado Cascabulho, Kelly Salomão, Maria da Glória Bonecini-Almeida, Maria de Lourdes G. Ferreira, Núbia Boechat, Luiz C. S. Pinheiro, Elen Mello de Souza
Software Mentions: 1
Published: almost 4 years ago

10.3390/v13020298

Heparan Sulfate Is a Cellular Receptor for Enteric Human Adenoviruses
Cited by: 9
Author(s): A. Rajan, Elin Palm, Fredrik Trulsson, Sarah Mundigl, Miriam Becker, B. David Persson, Lars Frängsmyr, Annasara Lenman
Software Mentions: 1
Published: almost 4 years ago

10.3390/v13071193

A Fluorescent Real-Time Plaque Assay Enables Single-Cell Analysis of Virus-Induced Cytopathic Effect by Live-Cell Imaging
Cited by: 3
Author(s): Jorge L. Arias-Arias, Eugenia Corrales-Aguilar, Rodrigo Mora-Rodríguez
Software Mentions: 1
Published: over 3 years ago

10.12688/wellcomeopenres.12469.2

Single-cell heterogeneity and cell-cycle-related viral gene bursts in the human leukaemia virus HTLV-1
Cited by: 81
Author(s): Martin Rafael Billman, David Rueda, Charles R. M. Bangham
Software Mentions: 1
Published: almost 7 years ago

10.1097/j.pain.0000000000000939

Paclitaxel-induced painful neuropathy is associated with changes in mitochondrial bioenergetics, glycolysis, and an energy deficit in dorsal root ganglia neurons
Cited by: 74
Author(s): Natalie A Duggett, Lisa A. Griffiths, Sarah J.L. Flatters
Software Mentions: 1
Published: over 7 years ago

10.3390/pathogens10010009

An In Vitro Cell Culture Model for Pyoverdine-Mediated Virulence
Cited by: 14
Author(s): Donghoon Kang, Natalia V. Kirienko
Software Mentions: 1
Published: almost 4 years ago

10.3390/pathogens9020144

Isolation of Acanthamoeba T5 from Water: Characterization of Its Pathogenic Potential, Including the Production of Extracellular Vesicles
Cited by: 7
Author(s): Lissette Retana Moreira, Daniel Vargas Ramírez, Fernando Gervilla Linares, Alexa Prescilla-Ledezma, Annette Vaglio Garro, Antonio Osuna, Jacob Morales, Elizabeth Abrahams Sandí
Software Mentions: 1
Published: over 4 years ago

10.3390/pathogens9080634

Combining Computed Tomography and Histology Leads to an Evolutionary Concept of Hepatic Alveolar Echinococcosis
Cited by: 8
Author(s): Johannes Grimm, A. Beck, Juliane Nell, Julian Schmidberger, Andreas Hillenbrand, Ambros Beer, Balázs Dezsényi, Rong Shi, Meinrad Beer, Peter Kern, Doris Henne‐Bruns, Wolfgang Kratzer, Peter Möller, Thomas Barth, Beate Gruener, Tilmann Graeter
Software Mentions: 1
Published: over 4 years ago

10.1016/j.patter.2020.100040

BIAFLOWS: A Collaborative Framework to Reproducibly Deploy and Benchmark Bioimage Analysis Workflows
Cited by: 24
Author(s): Ulysse Rubens, Romain Mormont, Lassi Paavolainen, Volker Baecker, Benjamin Pavie, Leandro Aluisio Scholz, Gino Michiels, Martin Maška, Devrim Ünay, Graeme Ball, Renaud Hoyoux, Rémy Vandaele, Ofra Golani, Stefan G. Stanciu, Nataša Sladoje, Perrine Paul‐Gilloteaux, Raphaël Marée, Sébastien Tosi
Software Mentions: 1
Published: over 4 years ago

10.7717/peerj.4937

An inexpensive, customizable microscopy system for the automated quantification and characterization of multiple adherent cell types
Cited by: 4
Author(s): Vishwaratn Asthana, Yuqi Tang, Adam R. Ferguson, Pallavi Bugga, Anantratn Asthana, Emily Evans, Allen L. Chen, Brett S Stern, Rebekah A. Drezek
Software Mentions: 1
Published: over 6 years ago

10.7717/peerj.11829

Capturing and analyzing pattern diversity: an example using the melanistic spotted patterns of leopard geckos
Cited by: 5
Author(s): Tilmann Glimm, Maria A. Kiskowski, Nickolas Moreno, Ylenia Chiari
Software Mentions: 1
Published: about 3 years ago

10.7717/peerj.5789

Assessment of the kidney and lung as immune barriers and hematopoietic sites in the invasive apple snail <i>Pomacea canaliculata</i>
Cited by: 19
Author(s): Cristian Rodriguez, Guido I. Prieto, Israel A. Vega, Alfredo Castro-Vázquez
Software Mentions: 1
Published: about 6 years ago

10.3390/pharmaceutics13060893

Systemic Treatment with Nicotinamide Riboside Is Protective in Two Mouse Models of Retinal Ganglion Cell Damage
Cited by: 16
Author(s): Xian Zhang, Nan Zhang, Micah A Chrenek, Preston Girardot, Jiaxing Wang, Jana T Sellers, Eldon E. Geisert, Charles Brenner, John M. Nickerson, Jeffrey H Boatright, Ying Liu
Software Mentions: 1
Published: over 3 years ago

10.14814/phy2.14573

Spontaneous restoration of functional β‐cell mass in obese SM/J mice
Cited by: 4
Author(s): Mario A. Miranda, Caryn Carson, Celine L. St. Pierre, Juan F Macias-Velasco, Jing W. Hughes, Marcus Kunzmann, Heather Schmidt, Jessica P Wayhart, Heather A. Lawson
Software Mentions: 1
Published: about 4 years ago

10.1186/s13007-018-0298-3

MeioSeed: a CellProfiler-based program to count fluorescent seeds for crossover frequency analysis in Arabidopsis thaliana
Cited by: 5
Author(s): Niels van Tol, Martijn Rolloos, Peter van Loon, Bert J. van der Zaal
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pbio.0060224

A Genome-Wide RNAi Screen to Dissect Centriole Duplication and Centrosome Maturation in Drosophila
Cited by: 217
Author(s): Jeroen Dobbelaere, Filipe Josué, Saskia J.E. Suijkerbuijk, Buzz Baum, Nicolas Tapon, Jordan W. Raff
Software Mentions: 1
Published: about 16 years ago

10.1371/journal.pbio.2006540

Comprehensive profiling of the STE20 kinase family defines features essential for selective substrate targeting and signaling output
Cited by: 31
Author(s): Chad J. Miller, Hua Lou, Craig D. Simpson, Bert van de Kooij, Byung Hak Ha, Oriana S. Fisher, Natasha L. Pirman, Titus J. Boggon, Jesse Rinehart, Michael B. Yaffe, Rune Linding, Benjamin E. Turk
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pbio.3001060

Ectoderm to mesoderm transition by down-regulation of actomyosin contractility
Cited by: 13
Author(s): Leily Kashkooli, David B. Rozema, Lina Espejo-Ramirez, Paul Lasko, François Fagotto
Software Mentions: 1
Published: almost 4 years ago

10.1371/journal.pbio.3000340

Scientific Community Image Forum: A discussion forum for scientific image software
Cited by: 26
Author(s): Curtis Rueden, Jeanelle Ackerman, Ellen T. Arena, Jan Eglinger, Beth A. Cimini, Allen Goodman, Anne E. Carpenter, Kevin W. Eliceiri
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pbio.1001758

Epigenetic Reprogramming of the Type III Interferon Response Potentiates Antiviral Activity and Suppresses Tumor Growth
Cited by: 51
Author(s): Siyuan Ding, William Khoury-Hanold, Akiko Iwasaki, Michael D. Robek
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pbio.2003127

Olig2 and Hes regulatory dynamics during motor neuron differentiation revealed by single cell transcriptomics
Cited by: 70
Author(s): Andreas Sagner, Zachary B. Gaber, Julien Delile, Jennifer H. Kong, D. Rousso, Caroline Alayne Pearson, Steven E. Weicksel, Manuela Melchionda, S. Neda Mousavy Gharavy, James Briscoe, Bennett G. Novitch
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pbio.2001655

Reduced insulin signaling maintains electrical transmission in a neural circuit in aging flies
Cited by: 21
Author(s): Hrvoje Augustin, Kieran McGourty, Marcus Allen, Sirisha Kudumala Madem, Jennifer Adcott, Fiona Kerr, Chi T. Wong, Alec Vincent, Tanja A. Godenschwege, Emmanuel Boucrot, Linda Partridge
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pbio.3000998

Seipin traps triacylglycerols to facilitate their nanoscale clustering in the endoplasmic reticulum membrane
Cited by: 47
Author(s): Xavier Prasanna, Veijo T. Salo, Shiqian Li, Katharina Ven, Helena Vihinen, Eija Jokitalo, Ilpo Vattulainen, Elina Ikonen
Software Mentions: 1
Published: almost 4 years ago

10.1371/journal.pbio.2004644

Effective polyploidy causes phenotypic delay and influences bacterial evolvability
Cited by: 38
Author(s): Lei Sun, Helen K. Alexander, Balázs Bogos, Daniel J. Kiviet, Martin Ackermann, Sebastian Bonhoeffer
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pbio.3001263

A chemical screen for modulators of mRNA translation identifies a distinct mechanism of toxicity for sphingosine kinase inhibitors
Cited by: 3
Author(s): Alba Corman, Dimitris C. Kanellis, Patrycja Michalska, Maria Häggblad, Vanesa Lafarga, Jiří Bártek, Jordi Carreras-Puigvert, Óscar Fernández-Capetillo
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pbio.3001277

Comprehensive glycoproteomics shines new light on the complexity and extent of glycosylation in archaea
Cited by: 7
Author(s): Stefan Schulze, Friedhelm Pfeiffer, Benjamin A. García, Mechthild Pohlschröder
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pcbi.1003043

Chapter 17: Bioimage Informatics for Systems Pharmacology
Cited by: 25
Author(s): Fuhai Li, Zhimin Yin, Guangxu Jin, Hong Zhao, Stephen T.C. Wong
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pcbi.1007901

A systematic approach to decipher crosstalk in the p53 signaling pathway using single cell dynamics
Cited by: 11
Author(s): Fabian Konrath, Anna Mittermeier, Elena Cristiano, Jana Wolf, Alexander Loewer
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pcbi.1005985

A mechanistic pan-cancer pathway model informed by multi-omics data interprets stochastic cell fate responses to drugs and mitogens
Cited by: 45
Author(s): Mehdi Bouhaddou, Anne Marie Barrette, Ari Stern, Rick J. Koch, Matthew DiStefano, Eric A. Riesel, Leonardo D. Santos, Annie L. Tan, Alex E. Mertz, Marc R. Birtwistle
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1000603

Introduction to the Quantitative Analysis of Two-Dimensional Fluorescence Microscopy Images for Cell-Based Screening
Cited by: 91
Author(s): Vebjorn Ljosa, Anne E. Carpenter
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pcbi.1000974

Pattern Recognition Software and Techniques for Biological Image Analysis
Cited by: 142
Author(s): Lior Shamir, John Delaney, Nikita Orlov, D. Mark Eckley, Ilya G. Goldberg
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pcbi.1007758

Shape-to-graph mapping method for efficient characterization and classification of complex geometries in biological images
Cited by: 1
Author(s): William Pilcher, Xingyu Yang, Anastasia Zhurikhina, Olga Chernaya, Yinghan Xu, Peng Qiu, Denis Tsygankov
Software Mentions: 1
Published: about 4 years ago

10.1371/journal.pcbi.1007516

Bioinformatics analysis of whole slide images reveals significant neighborhood preferences of tumor cells in Hodgkin lymphoma
Cited by: 8
Author(s): Jennifer Hannig, Hendrik Schäfer, Jörg Ackermann, Marie Hebel, Tim Schäfer, Claudia Döring, Sven Hartmann, Martin‐Leo Hansmann, Ina Koch
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pcbi.1006629

TAMMiCol: Tool for analysis of the morphology of microbial colonies
Cited by: 6
Author(s): Hayden Tronnolone, Jennifer M. Gardner, Joanna F. Sundstrom, Vladimir Jiranek, Stephen G. Oliver, Benjamin J. Binder
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1004161

Perturbation-Expression Analysis Identifies RUNX1 as a Regulator of Human Mammary Stem Cell Differentiation
Cited by: 21
Author(s): Ethan S. Sokol, Sandhya Sanduja, Dexter X. Jin, Daniel Miller, Robert Austin Mathis, Piyush B. Gupta
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pgen.1006458

Chronological Lifespan in Yeast Is Dependent on the Accumulation of Storage Carbohydrates Mediated by Yak1, Mck1 and Rim15 Kinases
Cited by: 47
Author(s): Lu Cao, Yingzhi Tang, Zhenzhen Quan, Zhe Zhang, Stephen G. Oliver, Nianshu Zhang
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pgen.1002509

Nondisjunction of a Single Chromosome Leads to Breakage and Activation of DNA Damage Checkpoint in G2
Cited by: 28
Author(s): Oliver Quevedo, Jonay García-Luis, Emiliano Matos-Perdomo, Luís Aragón, Félix Machín
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pgen.1005645

DNA Repair Cofactors ATMIN and NBS1 Are Required to Suppress T Cell Activation
Cited by: 13
Author(s): Jana Procházková, Shoji Sakaguchi, Michel Owusu, Abdelghani Mazouzi, Marc Wiedner, Georgia Velimezi, Martin Moder, Gleb Turchinovich, Anastasiya Hladik, Elisabeth Gurnhofer, Adrian Hayday, Axel Behrens, Sylvia Knapp, Lukas Kenner, Wilfried Ellmeier, Joanna I. Loizou
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pgen.1004680

The Chromosomal Association of the Smc5/6 Complex Depends on Cohesion and Predicts the Level of Sister Chromatid Entanglement
Cited by: 58
Author(s): Kristian Jeppsson, Kristian K. Carlborg, Ryuichiro Nakato, Davide G. Berta, Ingrid Lilienthal, Takaharu Kanno, Arne Lindqvist, Maartje C. Brink, Nico P. Dantuma, Yuki Katou, Katsuhiko Shirahige, Camilla Sjögren
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pgen.1004855

Systematic Cell-Based Phenotyping of Missense Alleles Empowers Rare Variant Association Studies: A Case for LDLR and Myocardial Infarction
Cited by: 48
Author(s): Aenne S. Thormaehlen, Christian Schuberth, Hong-Hee Won, Peter Blattmann, Brigitte Joggerst-Thomalla, Susanne Theiß, Rosanna Asselta, Stefano Duga, Pier Angelica Merlini, Diego Ardissino, Eric S. Lander, Stacey Gabriel, Daniel J. Rader, Gina M. Peloso, Rainer Pepperkok, Sekar Kathiresan, Heiko Runz
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pgen.1008351

Exocyst-mediated apical Wg secretion activates signaling in the Drosophila wing epithelium
Cited by: 12
Author(s): Varun Chaudhary, Michael Boutros
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pgen.1008162

MNM and SNM maintain but do not establish achiasmate homolog conjunction during Drosophila male meiosis
Cited by: 14
Author(s): Michael Shoujie Sun, Joe Weber, Ariane C. Blattner, Soumya Chaurasia, Christian F. Lehner
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pgen.1005684

Stable Pseudohyphal Growth in Budding Yeast Induced by Synergism between Septin Defects and Altered MAP-kinase Signaling
Cited by: 19
Author(s): Jun Won Kim, Mark D. Rose
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pgen.1000994

Drosophila Genome-Wide RNAi Screen Identifies Multiple Regulators of HIF–Dependent Transcription in Hypoxia
Cited by: 47
Author(s): Andrés Dekanty, Nuria Romero, Agustina P. Bertolin, María Gabriela Thomas, Claudia C. Leishman, Joel I. Perez-Perri, Graciela Lidia Boccaccio, Pablo Wappner
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pgen.1005759

The Polymerase Activity of Mammalian DNA Pol ζ Is Specifically Required for Cell and Embryonic Viability
Cited by: 27
Author(s): Sabine S. Lange, Junya Tomida, Karen S. Boulware, Sarita Bhetawal, Richard D. Wood
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pgen.1007541

DNA replication stress triggers rapid DNA replication fork breakage by Artemis and XPF
Cited by: 24
Author(s): Rémy Bétous, Théo Goullet de Rugy, Alessandra Luíza Pelegrini, Sophie Queillé, Jean-Pierre de Villartay, Jean-Sébastien Hoffmann
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pntd.0007890

Repurposing the antimalarial pyronaridine tetraphosphate to protect against Ebola virus infection
Cited by: 41
Author(s): Thomas R. Lane, Christopher Massey, Jason E. Comer, Manu Anantpadma, Joel S. Freundlich, Robert A. Davey, Peter B. Madrid, Sean Ekins
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pntd.0007602

TGF-β inhibitor therapy decreases fibrosis and stimulates cardiac improvement in a pre-clinical study of chronic Chagas’ heart disease
Cited by: 52
Author(s): Roberto Rodrigues Ferreira, Rayane da Silva Abreu, Gláucia Vilar-Pereira, Wim Degrave, Marcelo Meuser-Batista, Nilma Valéria Caldeira Ferreira, Otacílio C. Moreira, Natália Lins da Silva Gomes, Elen Mello de Souza, Isalira Peroba Ramos, Sabine Bailly, Jean‐Jacques Feige, Joseli Lannes-Vieira, Tânia C. Araújo-Jorge, Mariana Caldas Waghabi
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0220807

Secretome profiling of PC3/nKR cells, a novel highly migrating prostate cancer subline derived from PC3 cells
Cited by: 2
Author(s): Ju Mi Jeon, Oh Kwang Kwon, Ann-Yae Na, Eun Ji Sung, Il Je Cho, Mirae Kim, Sung Su Yea, So Young Chun, Jun Hyung Lee, Yun‐Sok Ha, Tae Gyun Kwon, Sangkyu Lee
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0128975

Automated Analysis and Classification of Histological Tissue Features by Multi-Dimensional Microscopic Molecular Profiling
Cited by: 22
Author(s): Daniel P. Riordan, Sushama Varma, Robert B. West, Patrick O. Brown
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0085896

Monitoring Repair of UV-Induced 6-4-Photoproducts with a Purified DDB2 Protein Complex
Cited by: 10
Author(s): Matija Dreze, Anne S. Calkins, Judit Gálicza, Daniel J. Echelman, Mathew R. Schnorenberg, Gillian L. Fell, Shigenori Iwai, David E. Fisher, Dávid Szűts, J. Dirk Iglehart, Jean Bernard Lazaro
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0033755

A Chemical Screen Probing the Relationship between Mitochondrial Content and Cell Size
Cited by: 52
Author(s): Toshimori Kitami, David J. Logan, Joseph Negri, Thomas Hasaka, Nicola Tolliday, Anne E. Carpenter, Bruce M. Spiegelman, Vamsi K. Mootha
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0020143

Omeprazole Inhibits Proliferation and Modulates Autophagy in Pancreatic Cancer Cells
Cited by: 90
Author(s): Andrej Udelnow, Andreas Kreyes, Stefan Ellinger, Katharina Landfester, Paul Walther, T. Klapperstueck, Johannes Wohlrab, Doris Henne‐Bruns, Uwe Knippschild, Peter Würl
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0041688

MicroRNA Regulation of the Synaptic Plasticity-Related Gene Arc
Cited by: 82
Author(s): Karin Wibrand, Balagopal Pai, Taweeporn Siripornmongcolchai, Margarethe Bittins, Birgitte Berentsen, May Lillian Ofte, A A Janet Weigel, Kai Ove Skaftnesmo, Clive R. Bramham
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0092444

ColonyArea: An ImageJ Plugin to Automatically Quantify Colony Formation in Clonogenic Assays
Cited by: 454
Author(s): Camilo Guzmán, Manish Bagga, Amanpreet Kaur, Jukka Westermarck, Daniel Abankwa
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0188817

Cytotoxicity of portoamides in human cancer cells and analysis of the molecular mechanisms of action
Cited by: 20
Author(s): Tiago Ribeiro, Filipa Lemos, Marco Preto, Joana Azevedo, Maria Lígia Sousa, Pedro N. Leão, Alexandre Campos, Stig Linder, Rui Vitorino, Vı́tor Vasconcelos, Ralph Urbatzka
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pone.0043263

Differential Effects of Two Fermentable Carbohydrates on Central Appetite Regulation and Body Composition
Cited by: 66
Author(s): Tulika Arora, Ruey Leng Loo, Jelena Anastasovska, Glenn R. Gibson, Kieran Tuohy, Raj Kumar Sharma, Jonathan R. Swann, E. R. Deaville, Michelle Sleeth, E. Louise Thomas, Elaine Holmes, Jimmy D. Bell, Gary Frost
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0051831

Identification of Drosophila Gene Products Required for Phagocytosis of Leishmania donovani
Cited by: 19
Author(s): Adam Peltan, Laura Briggs, Gareth Matthews, Sean T. Sweeney, Deborah F. Smith
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0244135

Quantitative determination of histone methylation via fluorescence resonance energy transfer (FRET) technology in immortalized bovine mammary alveolar epithelial cells supplemented with methionine
Cited by: 3
Author(s): Fernanda Rosa, J. S. Osorio
Software Mentions: 1
Published: almost 4 years ago

10.1371/journal.pone.0054962

Lack of the Matricellular Protein SPARC (Secreted Protein, Acidic and Rich in Cysteine) Attenuates Liver Fibrogenesis in Mice
Cited by: 42
Author(s): Catalina Atorrasagasti, Estanislao Peixoto, Jorge B. Aquino, Néstor Kippes, Mariana Malvicini, Laura Alaniz, Mariana Garcı́a, Flavia Piccioni, Esteban Fiore, Juan Bayo, Ramón Bataller, Elizabeth Guruceaga, Fernando J. Corrales, Osvaldo L. Podhajcer, Guillermo Mazzolini
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0054923

A Novel Angiopoietin-2 Selective Fully Human Antibody with Potent Anti-Tumoral and Anti-Angiogenic Efficacy and Superior Side Effect Profile Compared to Pan-Angiopoietin-1/-2 Inhibitors
Cited by: 61
Author(s): Markus Thomas, Yvonne Kienast, Werner Scheuer, Monika Bähner, Klaus Kaluza, Christian Gassner, Frank Herting, Ulrich Brinkmann, Stefan Seeber, Anita Kavlie, Martin Welschof, Stefan Ries, K. Michael Weidner, Jörg T. Regula, Christian Klein
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0140236

In Vivo Zonal Variation and Liver Cell-Type Specific NF-κB Localization after Chronic Adaptation to Ethanol and following Partial Hepatectomy
Cited by: 5
Author(s): Harshavardhan Nilakantan, Lakshmi Kuttippurathu, Austin Parrish, Jan B. Hoek, Rajanikanth Vadigepalli
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0193605

Development of image analysis software for quantification of viable cells in microchips
Cited by: 8
Author(s): Maximilian Georg, Tamara Fernández‐Cabada, Natalia Bourguignon, P. Karp, Ana Peñaherrera, Gustavo Helguera, Betiana Lerner, Maximiliano Pérez, Roland Mertelsmann
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0222946

Gene expression profiling of skeletal myogenesis in human embryonic stem cells reveals a potential cascade of transcription factors regulating stages of myogenesis, including quiescent/activated satellite cell-like gene expression
Cited by: 9
Author(s): Michael Shelton, Morten Ritso, Jun Li, Daniel O’Neil, Avetik Kocharyan, Michael A. Rudnicki, William L. Stanford, Ilona S. Skerjanc, Alexandre Blais
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0189433

Angiopoietin-1 deficiency increases renal capillary rarefaction and tubulointerstitial fibrosis in mice
Cited by: 24
Author(s): Krishnapriya Loganathan, Ebtisam Salem Said, Emily Winterrowd, Martina Orebrand, Liqun He, Michael Vanlandewijck, Christer Betsholtz, Susan E. Quaggin, Marie Jeansson
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pone.0144596

Ethanol Inhibits High-Affinity Immunoglobulin E Receptor (FcεRI) Signaling in Mast Cells by Suppressing the Function of FcεRI-Cholesterol Signalosome
Cited by: 12
Author(s): Lubica Dráberová, Tomáš Paulenda, Ivana Hálová, Lucie Potůčková, Monika Bambousková, Magda Tůmová, Petr Dráber
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0055799

Integrin-Mediated Signaling Induced by Simian Virus 40 Leads to Transient Uncoupling of Cortical Actin and the Plasma Membrane
Cited by: 23
Author(s): Lilli Stergiou, Manuel Bauer, Waltraud Mair, Damaris Bausch-Fluck, Nir Drayman, Bernd Wollscheid, Ariella Oppenheim, Lucas Pelkmans
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0124595

Repurposing Salicylanilide Anthelmintic Drugs to Combat Drug Resistant Staphylococcus aureus
Cited by: 119
Author(s): Rajmohan Rajaraman, Beth Burgwyn Fuchs, Annie L. Conery, Wooseong Kim, Elamparithi Jayamani, Bumsup Kwon, Frederick M. Ausubel, Eleftherios Mylonakis
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0188256

Age of heart disease presentation and dysmorphic nuclei in patients with LMNA mutations
Cited by: 9
Author(s): Jason Q. Core, Mehrsa Mehrabi, Zachery Robinson, Alexander Ochs, Linda A. McCarthy, Michael V. Zaragoza, Anna Grosberg
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0248183

Lumenato protects normal human dermal fibroblasts from neutrophil-induced collagen-3 damage in co-cultures
Cited by: 4
Author(s): Yulia Solomonov, Nurit Hadad, Oleg Pikovsky, Rachel Lévy
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pone.0138748

Trypsin, Tryptase, and Thrombin Polarize Macrophages towards a Pro-Fibrotic M2a Phenotype
Cited by: 28
Author(s): Michael J. V. White, Richard H. Gomer
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0174893

Looking for ugly ducklings: The role of the stability of BrdU-antibody complex and the improved method of the detection of DNA replication
Cited by: 5
Author(s): Anna Ligasová, Petr Konečný, Ivo Frydrych, Karel Koberna
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0217524

ColiCoords: A Python package for the analysis of bacterial fluorescence microscopy data
Cited by: 14
Author(s): Jochem H. Smit, Yi‐Chen Li, Eliza M. Warszawik, Andreas Herrmann, Thorben Cordes
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0141966

Loss of CD24 in Mice Leads to Metabolic Dysfunctions and a Reduction in White Adipocyte Tissue
Cited by: 20
Author(s): Nicholas A. Fairbridge, Thomas M Southall, D. Craig Ayre, Yumiko Komatsu, Paula I. Raquet, Robert Brown, Edward Randell, Christopher S. Kovacs, Sherri L. Christian
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0233052

The influenza replication blocking inhibitor LASAG does not sensitize human epithelial cells for bacterial infections
Cited by: 2
Author(s): Janine Wilden, Andre van Krüchten, Lutz Gieselmann, Eike R. Hrincius, Stefanie Deinhardt‐Emmer, Karoline Frieda Haupt, Hannah F. Preugschas, Silke Niemann, Stephan Ludwig, Christina Ehrhardt
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pone.0156312

Fluorogenic Substrates for Visualizing Acidic Organelle Enzyme Activities
Cited by: 10
Author(s): Fiona Karen Harlan, Jason S. Lusk, Breanna Michelle Mohr, Anthony P. Guzikowski, Robert H. Batchelor, Ying Jiang, John J. Naleway
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0220627

IA-Lab: A MATLAB framework for efficient microscopy image analysis development, applied to quantifying intracellular transport of internalized peptide-drug conjugate
Cited by: 0
Author(s): Adam Corrigan, Johan Karlsson, Jan Wildenhain, Laurent Knerr, Maria Ölwegård-Halvarsson, Maria Karlsson, Svenja Lünse, Yinhai Wang
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0207872

Novel high–throughput myofibroblast assays identify agonists with therapeutic potential in pulmonary fibrosis that act via EP2 and EP4 receptors
Cited by: 20
Author(s): Patrick Sieber, Anny Schäfer, Raphael Lieberherr, François Le Goff, Manuel Stritt, Richard W. D. Welford, John Gatfield, Oliver Peter, Oliver Nayler, Urs Lüthi
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pone.0007497

Bright Field Microscopy as an Alternative to Whole Cell Fluorescence in Automated Analysis of Macrophage Images
Cited by: 94
Author(s): Jyrki Selinummi, Pekka Ruusuvuori, Irina Podolsky, Adrian Ozinsky, Elizabeth S. Gold, Olli Yli‐Harja, Alan Aderem, Ilya Shmulevich
Software Mentions: 1
Published: about 15 years ago

10.1371/journal.pone.0217819

Enhanced histamine-induced itch in diacylglycerol kinase iota knockout mice
Cited by: 9
Author(s): Victoria E. Brings, Jesse K. Niehaus, Bonnie Taylor-Blake, Mark J. Zylka
Software Mentions: 1
Published: over 5 years ago