pypi: CellProfiler | Projects | Ecosyste.ms: Papers

10.1126/sciadv.aat3775

<i>Plasmodium</i> gametocytes display homing and vascular transmigration in the host bone marrow
Cited by: 68
Author(s): Mariana De Niz, Elamaran Meibalan, Pedro Mejia, Siyuan Ma, Nicolas M. B. Brancucci, Carolina Agop‐Nersesian, Rebecca Mandt, Priscilla Ngotho, Katie R. Hughes, Andrew P. Waters, Curtis Huttenhower, James R. Mitchell, Roberta Martinelli, Friedrich Frischknecht, Karl B. Seydel, Terrie E. Taylor, Danny A. Milner, Volker Heussler, Matthias Marti
Software Mentions: 1
Published: over 8 years ago

10.1038/sdata.2017.170

Protocols and characterization data for 2D, 3D, and slice-based tumor models from the PREDECT project
Cited by: 26
Author(s): Ronald de Hoogt, Marta Estrada, Suzana Vidic, Emma Davies, Annika Oßwald, Michaël Barbier, Vítor E. Santo, Kjersti Gjerde, Hanneke J. A. A. van Zoggel, Sami Blom, Di Meng, Katja Närhi, Erwin R. Boghaert, Catarina Brito, Yolanda T. Chong, Wolfgang Sommergruber, Heiko van der Kuip, Wytske M. van Weerden, Emmy W. Verschuren, John A. Hickman, Ralph Graeser
Software Mentions: 1
Published: over 8 years ago

10.1038/sdata.2018.116

High content screen for identifying small-molecule LC3B-localization modulators in a renal cancer cell line
Cited by: 6
Author(s): Likhitha Kolla, David Heo, Daniel P. Rosenberg, Sara A. Barlow, Anna A. Maximova, Emily E. Cassio, William J. Buchser
Software Mentions: 1
Published: about 8 years ago

10.1038/srep09038

Protein Traffic Disorders: an Effective High-Throughput Fluorescence Microscopy Pipeline for Drug Discovery
Cited by: 51
Author(s): Hugo M. Botelho, Inna Uliyakina, Nikhil T Awatade, Maria da Conceição Proença, Christian Tischer, Lalida Sirianant, Karl Kunzelmann, Rainer Pepperkok, Margarida D. Amaral
Software Mentions: 1
Published: over 11 years ago

10.1038/srep12317

Compaction of rolling circle amplification products increases signal integrity and signal-to-noise ratio
Cited by: 26
Author(s): Carl-Magnus Clausson, Linda Arngården, Omer Ishaq, Axel Klaesson, Malte Kühnemund, Karin Grannas, Björn Koos, Xiaoyan Qian, Petter Ranefall, Tomasz Krzywkowski, Hjalmar Brismar, Mats Nilsson, Carolina Wählby, Ola Söderberg
Software Mentions: 1
Published: about 11 years ago

10.1038/srep12540

Laser-scanning cytometry can quantify human adipocyte browning and proves effectiveness of irisin
Cited by: 33
Author(s): Endre Kristóf, Quang Minh Doan‐Xuan, Péter Bai, Zsolt Bacsó, László Fésüs
Software Mentions: 1
Published: about 11 years ago

10.1038/srep13576

Evaluation of drug-targetable genes by defining modes of abnormality in gene expression
Cited by: 12
Author(s): Junseong Park, Jungsul Lee, Chulhee Choi
Software Mentions: 1
Published: almost 11 years ago

10.1038/srep15029

The folate-coupled enzyme MTHFD2 is a nuclear protein and promotes cell proliferation
Cited by: 81
Author(s): Nina Gustafsson, Lisa Jarl, Diana Mahadessian, Laura Strittmatter, Angelika Schmidt, Nikhil Madhusudan, Jesper Tegnér, Emma Lundberg, Anna Asplund, Mohit Jain, Roland Nilsson
Software Mentions: 1
Published: almost 11 years ago

10.1038/srep15222

Three-Dimensional Blood-Brain Barrier Model for in vitro Studies of Neurovascular Pathology
Cited by: 152
Author(s): Hansang Cho, Ji Hae Seo, Keith H.K. Wong, Yasukazu Terasaki, Joseph Park, Kiwan Bong, Ken Arai, Eng H. Lo, Daniel Irimia
Software Mentions: 1
Published: almost 11 years ago

10.1038/srep09850

Spatial mapping of the biologic effectiveness of scanned particle beams: towards biologically optimized particle therapy
Cited by: 115
Author(s): Fada Guan, Lawrence F. Bronk, Uwe Titt, Steven H. Lin, Dragan Mirković, M. Kerr, Xiaorong Ronald Zhu, Jeffrey Dinh, Mary Sobieski, Clifford Stephan, C Peeler, Reza Taleei, Radhe Mohan, David R. Grosshans
Software Mentions: 1
Published: over 11 years ago

10.1038/srep18889

Drug response in organoids generated from frozen primary tumor tissues
Cited by: 74
Author(s): Alex J. Walsh, Rebecca S. Cook, Melinda E. Sanders, Carlos L. Arteaga, Melissa C. Skala
Software Mentions: 1
Published: over 10 years ago

10.1038/srep21991

High-resolution Identification and Separation of Living Cell Types by Multiple microRNA-responsive Synthetic mRNAs
Cited by: 24
Author(s): Kiyoshi Endo, Karin Hayashi, Hirohide Saito
Software Mentions: 1
Published: over 10 years ago

10.1038/srep21471

Deep Learning in Label-free Cell Classification
Cited by: 349
Author(s): Claire Lifan Chen, Ata Mahjoubfar, Li Chia Tai, Ian K. Blaby, Allen Huang, Kayvan Niazi, Bahram Jalali
Software Mentions: 1
Published: over 10 years ago

10.1038/srep24055

Growth resumption from stationary phase reveals memory in Escherichia coli cultures
Cited by: 60
Author(s): Arvi Jõers, Tanel Tenson
Software Mentions: 1
Published: over 10 years ago

10.1038/srep24356

CRISPR-Cas9D10A nickase-based genotypic and phenotypic screening to enhance genome editing
Cited by: 104
Author(s): Ting-Wei Chiang, Carlos le Sage, Delphine Larrieu, Mukerrem Demir, Stephen Jackson
Software Mentions: 1
Published: over 10 years ago

10.1038/srep24637

Induction of Human iPSC-Derived Cardiomyocyte Proliferation Revealed by Combinatorial Screening in High Density Microbioreactor Arrays
Cited by: 52
Author(s): Drew M. Titmarsh, Nick Glass, Richard J. Mills, Alejandro Hidalgo, Ernst J. Wolvetang, Enzo R. Porrello, James E. Hudson, Justin J. Cooper-White
Software Mentions: 1
Published: over 10 years ago

10.1038/srep25095

Image-based compound profiling reveals a dual inhibitor of tyrosine kinase and microtubule polymerization
Cited by: 7
Author(s): Kenji Tanabe
Software Mentions: 1
Published: over 10 years ago

10.1038/srep24925

LIMK Regulates Tumor-Cell Invasion and Matrix Degradation Through Tyrosine Phosphorylation of MT1-MMP
Cited by: 54
Author(s): Emilie Lagoutte, Clémentine Villeneuve, Laurence Lafanechère, Claire M. Wells, Gareth E. Jones, Philippe Chavrier, Carine Rossé
Software Mentions: 1
Published: over 10 years ago

10.1038/srep25187

Characterization of primary human hepatocyte spheroids as a model system for drug-induced liver injury, liver function and disease
Cited by: 471
Author(s): Catherine Bell, Delilah Hendriks, Sabrina Moro, Ewa Ellis, James Walsh, Anna Renblom, Lisa Fredriksson Puigvert, Anita C. A. Dankers, Frank Jacobs, Jan Snoeys, Rowena Sison-Young, Rosalind E. Jenkins, Åsa Nordling, Souren Mkrtchian, B. Kevin Park, Neil R. Kitteringham, Christopher E. Goldring, Volker M. Lauschke, Magnus Ingelman‐Sundberg
Software Mentions: 1
Published: over 10 years ago

10.1038/srep28951

Capturing tumor complexity in vitro: Comparative analysis of 2D and 3D tumor models for drug discovery
Cited by: 178
Author(s): Kristin Stock, Marta Estrada, Suzana Vidic, Kjersti Gjerde, Albin Rudisch, Vítor E. Santo, Michaël Barbier, Sami Blom, Sharath C. Arundkar, Irwin Selvam, Annika Oßwald, Yan Stein, Sylvia Gruenewald, Catarina Brito, Wytske van Weerden, Varda Rotter, Erwin R. Boghaert, Moshe Oren, Wolfgang Sommergruber, Yolanda T. Chong, Ronald de Hoogt, Ralph Graeser
Software Mentions: 1
Published: about 10 years ago

10.1038/srep28865

A systematic High-Content Screening microscopy approach reveals key roles for Rab33b, OATL1 and Myo6 in nanoparticle trafficking in HeLa cells
Cited by: 19
Author(s): Angela Panarella, Mariana G. Bexiga, George Galea, Elaine D O' Neill, Anna Salvati, Kenneth A. Dawson, Jeremy C. Simpson
Software Mentions: 1
Published: about 10 years ago

10.1038/srep29510

Endothelial cell alignment as a result of anisotropic strain and flow induced shear stress combinations
Cited by: 73
Author(s): Ravi Sinha, Séverine Le Gac, Nico Verdonschot, Albert van den Berg, Bart Koopman, Jeroen Rouwkema
Software Mentions: 1
Published: about 10 years ago

10.1038/srep31566

Transgenic overexpression of VEGF-C induces weight gain and insulin resistance in mice
Cited by: 37
Author(s): Sinem Karaman, Maija Hollmén, Sun‐Young Yoon, H. Furkan Alkan, Kari Alitalo, Christian Wolfrum, Michael Detmar
Software Mentions: 1
Published: about 10 years ago

10.1038/srep31360

A point mutation in AgrC determines cytotoxic or colonizing properties associated with phenotypic variants of ST22 MRSA strains
Cited by: 25
Author(s): Srikanth Mairpady Shambat, Nikolai Siemens, Ian R. Monk, Disha B. Mohan, Santhosh Mukundan, Karthickeyan Chella Krishnan, Sushma Prabhakara, Johanna Snäll, Angela Kearns, François Vandenesch, Mattias Svensson, Malak Kotb, B. Gopal, Gayathri Arakere, Anna Norrby‐Teglund
Software Mentions: 1
Published: about 10 years ago

10.1038/srep31516

Systematic evaluation of sericin protein as a substitute for fetal bovine serum in cell culture
Cited by: 18
Author(s): Liyuan Liu, Jinhuan Wang, Shengchang Duan, Lei Chen, Hui Xiang, Yang Dong, Wang Wen
Software Mentions: 1
Published: about 10 years ago

10.1038/srep31694

A simple non-perturbing cell migration assay insensitive to proliferation effects
Cited by: 35
Author(s): Honor L. Glenn, Jacob Messner, Deirdre R. Meldrum
Software Mentions: 1
Published: about 10 years ago

10.1038/srep32412

Accurate Morphology Preserving Segmentation of Overlapping Cells based on Active Contours
Cited by: 58
Author(s): Csaba Molnár, Ian H. Jermyn, Zoltán Kató, Vesa Rahkama, Päivi Östling, Piia Mikkonen, Vilja Pietiäinen, Péter Horváth
Software Mentions: 1
Published: almost 10 years ago

10.1038/srep34097

Stretch Injury of Human Induced Pluripotent Stem Cell Derived Neurons in a 96 Well Format
Cited by: 34
Author(s): Sydney A. Sherman, Jack Phillips, Joseph Costa, Frances S. Cho, Sevan R. Oungoulian, John D. Finan
Software Mentions: 1
Published: almost 10 years ago

10.1038/srep35434

Hepatic 3D spheroid models for the detection and study of compounds with cholestatic liability
Cited by: 111
Author(s): Delilah Hendriks, Lisa Fredriksson Puigvert, Simon Messner, Wolfgang Mortiz, Magnus Ingelman‐Sundberg
Software Mentions: 1
Published: almost 10 years ago

10.1038/srep37201

Intronless WNT10B-short variant underlies new recurrent allele-specific rearrangement in acute myeloid leukaemia
Cited by: 13
Author(s): Francesca Lazzaroni, Luca Del Giacco, Daniele Biasci, Mauro Turrini, Laura Prosperi, R Brusamolino, Roberto Cairoli, Alessandro Beghini
Software Mentions: 1
Published: almost 10 years ago

10.1038/srep37909

Relationship between nanotopographical alignment and stem cell fate with live imaging and shape analysis
Cited by: 49
Author(s): Peter Newman, Jorge Luis Galenano-Niño, Pamela L. Graney, Joselito M. Razal, Andrew I. Minett, João Francisco Magno Ribas, Raquel Ovalle‐Robles, Maté Biro, Hala Zreiqat
Software Mentions: 1
Published: over 9 years ago

10.1038/srep39457

Efficient derivation of extraembryonic endoderm stem cell lines from mouse postimplantation embryos
Cited by: 18
Author(s): Jiangwei Lin, Mona Khan, Bolek Zapiec, Peter Mombaerts
Software Mentions: 1
Published: over 9 years ago

10.1038/srep39693

Functional insights into the late embryogenesis abundant (LEA) protein family from Dendrobium officinale (Orchidaceae) using an Escherichia coli system
Cited by: 56
Author(s): Hong Ling, Zhiai Xu, Shun‐Xing Guo
Software Mentions: 1
Published: over 9 years ago

10.1038/srep39501

Premature senescence of endothelial cells upon chronic exposure to TNFα can be prevented by N-acetyl cysteine and plumericin
Cited by: 95
Author(s): Shafaat Yar Khan, Ezzat M. Awad, André Oszwald, Manuel Mayr, Xiaoke Yin, Birgit Waltenberger, Hermann Stuppner, Markus Lipovac, Pavel Uhrín, Johannes M. Breuss
Software Mentions: 1
Published: over 9 years ago

10.1038/srep40953

Cofilin Regulates Nuclear Architecture through a Myosin-II Dependent Mechanotransduction Module
Cited by: 40
Author(s): O’Neil Wiggan, Bryce Schroder, Diego Krapf, James R. Bamburg, Jennifer G. DeLuca
Software Mentions: 1
Published: over 9 years ago

10.1038/srep43039

Group A Streptococcal M1 Protein Provides Resistance against the Antimicrobial Activity of Histones
Cited by: 23
Author(s): Simon Döhrmann, Christopher N. LaRock, Ericka L. Anderson, Jason N. Cole, Brinda Ryali, Chelsea Stewart, Poochit Nonejuie, Joe Pogliano, Ross Corriden, Partho Ghosh, Victor Nizet
Software Mentions: 1
Published: over 9 years ago

10.1038/srep43693

Multiscale image analysis reveals structural heterogeneity of the cell microenvironment in homotypic spheroids
Cited by: 45
Author(s): Alexander Schmitz, Sabine Fischer, Christian Mattheyer, Francesco Pampaloni, Ernst H. K. Stelzer
Software Mentions: 1
Published: over 9 years ago

10.1038/srep46732

Quantitative diagnosis of breast tumors by morphometric classification of microenvironmental myoepithelial cells using a machine learning approach
Cited by: 31
Author(s): Yoichiro Yamamoto, Akira Saito, Ayako Tateishi, Hisashi Shimojo, Hiroyuki Kanno, Satoshi Tsuchiya, Ken Ito, Eric Cosatto, Hans Peter Graf, Rodrigo Rojas Moraleda, Roland Eils, Niels Grabe
Software Mentions: 1
Published: over 9 years ago

10.1038/s41598-017-01004-y

In vivo dynamics of AAV-mediated gene delivery to sensory neurons of the trigeminal ganglia
Cited by: 12
Author(s): Chung H. Dang, Martine Aubert, Harshana S. De Silva Feelixge, Kurt Diem, Michelle A. Loprieno, Pavitra Roychoudhury, Daniel Stone, Keith R. Jerome
Software Mentions: 1
Published: over 9 years ago

10.1038/s41598-017-01150-3

Microfluidic Isolation of Circulating Tumor Cell Clusters by Size and Asymmetry
Cited by: 147
Author(s): Sam H. Au, Jon Edd, Amy E. Stoddard, Keith H.K. Wong, Fabio Fachin, Shyamala Maheswaran, Daniel A. Haber, Shannon L. Stott, Ravi Kapur, Mehmet Toner
Software Mentions: 1
Published: about 9 years ago

10.1038/s41598-017-04999-6

Thrombin-induced cytoskeleton dynamics in spread human platelets observed with fast scanning ion conductance microscopy
Cited by: 38
Author(s): Jan Seifert, Johannes Rheinlaender, Florian Läng, Meinrad Gawaz, Tilman E. Schäffer
Software Mentions: 1
Published: about 9 years ago

10.1038/s41598-017-05119-0

C-terminal deletion of NOTCH1 intracellular domain (N1ICD) increases its stability but does not amplify and recapitulate N1ICD-dependent signalling
Cited by: 5
Author(s): Jennifer Blain, Jessily Bédard, Maureen Thompson, François‐Michel Boisvert, Marie‐Josée Boucher
Software Mentions: 1
Published: about 9 years ago

10.1038/s41598-017-06243-7

Nucleocytoplasmic Shuttling of Histone Deacetylase 9 Controls Activity-Dependent Thalamocortical Axon Branching
Cited by: 10
Author(s): Ricardo Alchini, Haruka Sato, Naoyuki Matsumoto, Tomomi Shimogori, Noriyuki Sugo, Naoya Yamamoto
Software Mentions: 1
Published: about 9 years ago

10.1038/s41598-017-06544-x

A high-content image analysis approach for quantitative measurements of chemosensitivity in patient-derived tumor microtissues
Cited by: 12
Author(s): Ilmari Ahonen, Malin Åkerfelt, Mervi Toriseva, Eva Oswald, Julia Schüler, Matthias Nees
Software Mentions: 1
Published: about 9 years ago

10.1038/s41598-017-06993-4

Novel strategies to mimic transmembrane tumor necrosis factor-dependent activation of tumor necrosis factor receptor 2
Cited by: 30
Author(s): Roman Fischer, Jessica Marsal, Cristiano Guttà, Stephan A. Eisler, Nathalie Peters, John R. Bethea, Klaus Pfizenmaier, Roland E. Kontermann
Software Mentions: 1
Published: about 9 years ago

10.1038/s41598-017-07260-2

Prion strains depend on different endocytic routes for productive infection
Cited by: 29
Author(s): Andrea Fehlinger, Hanna Wolf, André Hossinger, Yvonne Duernberger, Catharina Pleschka, Katrin Riemschoss, Liu Shu, Romina Bester, Lydia Paulsen, Suzette A. Priola, Martin H. Groschup, Hermann Schätzl, Ina Vorberg
Software Mentions: 1
Published: about 9 years ago

10.1038/s41598-017-07584-z

Rapid phenotypic stress-based microfluidic antibiotic susceptibility testing of Gram-negative clinical isolates
Cited by: 24
Author(s): Maxim Kalashnikov, M. G. Mueller, Christine McBeth, Jean C. Lee, Jennifer Campbell, André Sharon, Alexis F. Sauer-Budge
Software Mentions: 1
Published: about 9 years ago

10.1038/s41598-017-08786-1

MatCol: a tool to measure fluorescence signal colocalisation in biological systems
Cited by: 13
Author(s): Matloob Khushi, Christine E. Napier, Christine Smyth, Roger R. Reddel, Jonathan W. Arthur
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-09208-y

Rapid Prototyping of Polymeric Nanopillars by 3D Direct Laser Writing for Controlling Cell Behavior
Cited by: 23
Author(s): Nina Buch-Månson, Arnaud Spangenberg, Laura Gómez, Jean‐Pierre Malval, Olivier Soppera, Karen L. Martinez
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-09910-x

A missense MT-ND5 mutation in differentiated Parkinson Disease cytoplasmic hybrid induces ROS-dependent DNA Damage Response amplified by DROSHA
Cited by: 20
Author(s): Daniela Soriano Pignataro, Sofia Francia, Francesca Zanetta, Giulia Brenna, Stefania Brandini, Anna Olivieri, Antonio Torroni, Giuseppe Biamonti, Alessandra Montecucco
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-11446-z

Streptococcus salivarius MS-oral-D6 promotes gingival re-epithelialization in vitro through a secreted serine protease
Cited by: 11
Author(s): Marcela M. Fernandez-Gutierrez, P.P.J. Roosjen, Eveline Ultee, Maarten Agelink, Jacques Vervoort, Bart J. F. Keijser, Jerry M. Wells, Michiel Kleerebezem
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-11534-0

Real-time Image Processing for Microscopy-based Label-free Imaging Flow Cytometry in a Microfluidic Chip
Cited by: 59
Author(s): Young Jin Heo, Donghyeon Lee, Jun-Su Kang, Keondo Lee, Wan Kyun Chung
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-12378-4

Label-free detection of cellular drug responses by high-throughput bright-field imaging and machine learning
Cited by: 71
Author(s): Hirofumi Kobayashi, Cheng Lei, Yi Wu, Ailin Mao, Yiyue Jiang, Baoping Guo, Yasuyuki Ozeki, Keisuke Goda
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-14326-8

Methods to Evaluate Cell Growth, Viability, and Response to Treatment in a Tissue Engineered Breast Cancer Model
Cited by: 27
Author(s): Kayla F. Goliwas, Jillian R. Richter, Hawley C. Pruitt, Lita M. Araysi, N. R. Anderson, Rajeev S. Samant, Susan M. Lobo-Ruppert, Joel L. Berry, Andra R. Frost
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-15092-3

Interactive phenotyping of large-scale histology imaging data with HistomicsML
Cited by: 43
Author(s): Michael Nalisnik, Mohamed Amgad, Sanghoon Lee, Sameer H. Halani, José E. Velázquez Vega, Daniel J. Brat, David Gutman, Lee Cooper
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-15466-7

ABMA, a small molecule that inhibits intracellular toxins and pathogens by interfering with late endosomal compartments
Cited by: 14
Author(s): Yu Wu, Véronique Pons, Amélie Goudet, Laetitia Panigai, Annette Fischer, Jo-Ana Herweg, Sabrina Kali, Robert A. Davey, Jérôme Laporte, Céline Bouclier, Rahima Yousfi, Céline Aubenque, Goulven Merer, Emilie Gobbo, Roman Lopez, Cynthia Gillet, Sandrine Cojean, Michel R. Popoff, Pascal Clayette, Roger Le Grand, Claire Boulogne, Noël Tordo, Emmanuel Lemichez, Philippe M. Loiseau, Thomas Rudel, D. Sauvaire, Jean‐Christophe Cintrat, Daniel Gillet, Julien Barbier
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-15798-4

Systems pathology by multiplexed immunohistochemistry and whole-slide digital image analysis
Cited by: 119
Author(s): Sami Blom, Lassi Paavolainen, Dmitrii Bychkov, Riku Turkki, Petra Mäki-Teeri, Annabrita Hemmes, Katja Välimäki, Johan Lundin, Olli Kallioniemi, Teijo Pellinen
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-15901-9

Loss of lamin B1 is a biomarker to quantify cellular senescence in photoaged skin
Cited by: 68
Author(s): Audrey S. Wang, P.P. Ong, Alexandre Chojnowski, Carlos Clavel, Oliver Dreesen
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-15885-6

Andy’s Algorithms: new automated digital image analysis pipelines for FIJI
Cited by: 40
Author(s): Andrew M. K. Law, Julia Yin, Lesley Castillo, Alex Young, Catherine Piggin, Samuel Rogers, C. Elizabeth Caldon, Andrew Burgess, Ewan K.A. Millar, Sandra A. O’Toole, David Gallego‐Ortega, Christopher J. Ormandy, Samantha Oakes
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-17012-x

Construction of a system using a deep learning algorithm to count cell numbers in nanoliter wells for viable single-cell experiments
Cited by: 7
Author(s): Takashi Kamatani, Koichi Fukunaga, Keizo Miyata, Yoshitaka Shirasaki, Junji Tanaka, Rie Baba, Masako Matsusaka, Naoyuki Kamatani, Kazuyo Moro, Tomoko Betsuyaku, Shunsuke Uemura
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-017-17204-5

QuPath: Open source software for digital pathology image analysis
Cited by: 3,202
Author(s): Peter Bankhead, Maurice B. Loughrey, José A Fernández, Yvonne Dombrowski, Darragh G. McArt, Philip D. Dunne, Stephen McQuaid, Ronan T. Gray, Liam Murray, Helen Coleman, Jacqueline James, Manuel Salto-Tellez, Peter Hamilton
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-017-17832-x

Leveraging ectopic Hsp90 expression to assay the presence of tumor cells and aggressive tumor phenotypes in breast specimens
Cited by: 14
Author(s): Brian T. Crouch, Helen Murphy, Stella Belonwu, Amy F. Martinez, Jennifer E. Gallagher, Allison Hall, Mary Scott Soo, Marianne Lee, Philip F. Hughes, Timothy Haystead, Nirmala Ramanujam
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-018-19539-z

High content analysis identifies unique morphological features of reprogrammed cardiomyocytes
Cited by: 23
Author(s): Matthew D. Sutcliffe, Philip M. Tan, Antonio Fernandez-Perez, Young Nam, Nikhil V. Munshi, Jeffrey J. Saucerman
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-018-23691-x

Protein-bound NAD(P)H Lifetime is Sensitive to Multiple Fates of Glucose Carbon
Cited by: 74
Author(s): Joe T. Sharick, Peter F. Favreau, Amani A. Gillette, Sophia M. Sdao, Matthew J. Merrins, Melissa C. Skala
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-018-24194-5

IL23 and TGF-ß diminish macrophage associated metastasis in pancreatic carcinoma
Cited by: 15
Author(s): Syed M. Hussain, Leighton Reed, Bradley A. Krasnick, Gustavo A. Miranda-Carboni, Ryan C. Fields, Ye Bi, Abul Elahi, Abidemi Ajidahun, Paxton V. Dickson, Jeremiah L. Deneve, William G. Hawkins, David Shibata, Evan S. Glazer
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-018-24916-9

AutoCellSeg: robust automatic colony forming unit (CFU)/cell analysis using adaptive image segmentation and easy-to-use post-editing techniques
Cited by: 33
Author(s): Arif ul Maula Khan, Angelo Torelli, Ivo Wolf, Norbert Gretz
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-018-24119-2

Super-resolution imaging reveals the sub-diffraction phenotype of Zellweger Syndrome ghosts and wild-type peroxisomes
Cited by: 27
Author(s): Kareem Soliman, Fabian Göttfert, Hendrik Rosewich, Sven Thoms, Jutta Gärtner
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-018-26701-0

Glucose challenge metabolomics implicates medium-chain acylcarnitines in insulin resistance
Cited by: 42
Author(s): Christoph Nowak, Susanne Hetty, Samira Salihović, Casimiro Castillejo-López, Andrea Ganna, Naomi L. Cook, Corey D. Broeckling, Jessica E. Prenni, Xia Shen, Vilmantas Giedraitis, Johan Ärnlöv, Lars Lind, Christian Berne, Johan Sundström, Erik Ingelsson
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-018-27346-9

An immortalised mesenchymal stem cell line maintains mechano-responsive behaviour and can be used as a reporter of substrate stiffness
Cited by: 28
Author(s): Asier Galarza Torre, Joshua E Shaw, A.K. Wood, Hamish T. J. Gilbert, Oana Dobre, Paul G. Genever, Keith Brennan, Stephen M. Richardson, Joe Swift
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-018-27058-0

A single cell high content assay detects mitochondrial dysfunction in iPSC-derived neurons with mutations in SNCA
Cited by: 44
Author(s): Daniel Little, Christin Luft, Olukunbi Mosaku, Maëlle Lorvellec, Zhi Yao, Sébastien Paillusson, János Kriston-Vizi, Sonia Gandhi, Andrey Y. Abramov, Robin Ketteler, Michael J. Devine, Paul Gissen
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-018-28090-w

Maternal Vitamin D Prevents Abnormal Dopaminergic Development and Function in a Mouse Model of Prenatal Immune Activation
Cited by: 41
Author(s): Weiling Luan, Luke A. Hammond, Stéphanie Vuillermot, Urs Meyer, Darryl W. Eyles
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-018-29060-y

Dynamic Loading and Tendon Healing Affect Multiscale Tendon Properties and ECM Stress Transmission
Cited by: 52
Author(s): Benjamin R. Freedman, Ashley B. Rodriguez, Ryan J. Leiphart, Joseph B. Newton, Ehsan Ban, Joseph J. Sarver, Robert L. Mauck, Vivek B. Shenoy
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-018-29817-5

Dysregulation in Actin Cytoskeletal Organization Drives Increased Stiffness and Migratory Persistence in Polyploidal Giant Cancer Cells
Cited by: 42
Author(s): Botai Xuan, Deepraj Ghosh, Emily Cheney, Elizabeth M. Clifton, Michelle Dawson
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-018-30682-5

MicroRNA-224 down-regulates Glycine N-methyltransferase gene expression in Hepatocellular Carcinoma
Cited by: 18
Author(s): Jan Jong Hung, Chung Hsien Li, Ching‐Hua Yeh, Pin Cheng Huang, Cheng Fang, Yen-Fu Chen, Kuo Jui Lee, Chih‐Hung Chou, Hsin Yun Cheng, Hsien Da Huang, Marcelo Chen, Ting Fen Tsai, Anya Maan Yuh Lin, Chia-Hung Yen, Ann-Ping Tsou, Yu‐Chang Tyan, Yi Ming Arthur Chen
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-018-30776-0

Image-Assisted Microvessel-on-a-Chip Platform for Studying Cancer Cell Transendothelial Migration Dynamics
Cited by: 24
Author(s): Cristina Bertulli, Magda Gerigk, Nicholas Piano, Ye Liu, Duo Zhang, Thomas Müller, Tuomas P. J. Knowles, Yan Yan Shery Huang
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41598-018-31253-4

Graves’ orbitopathy occurs sex-independently in an autoimmune hyperthyroid mouse model
Cited by: 24
Author(s): A Schlüter, Ulrich Flögel, Salvador Díaz‐Cano, Gina-Eva Görtz, Kerstin Stähr, Michael Oeverhaus, Svenja Plöhn, Stefan Mattheis, Lars C. Moeller, Stephan Lang, Nikolaos E. Bechrakis, J. Paul Banga, Anja Eckstein, Utta Berchner‐Pfannschmidt
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41598-018-31408-3

Histamine causes endothelial barrier disruption via Ca2+-mediated RhoA activation and tension at adherens junctions
Cited by: 39
Author(s): Daniela Kugelmann, Lukas T. Rotkopf, Mariya Y. Radeva, Alexander García‐Ponce, Elias Walter, Jens Waschke
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41598-018-32722-6

Human hepatic 3D spheroids as a model for steatosis and insulin resistance
Cited by: 102
Author(s): Mikael Kozyra, Inger Johansson, Åsa Nordling, Shahid Ullah, Volker M. Lauschke, Magnus Ingelman‐Sundberg
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41598-018-32694-7

A short isoform of ATG7 fails to lipidate LC3/GABARAP
Cited by: 9
Author(s): Margrét H. Ögmundsdóttir, Valerie Fock, L. Sooman, Vivian Pogenberg, Ramile Dilshat, Christian Bindesbøll, Helga M. Ögmundsdóttir, Anne Simonsen, Matthias Wilmanns, Eiríkur Steingrímsson
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41598-018-34455-y

Deep Analysis of Mitochondria and Cell Health Using Machine Learning
Cited by: 31
Author(s): Atena Zahedi, Vincent On, Rattapol Phandthong, Angela Chaili, Guadalupe Remark, Bir Bhanu, Prue Talbot
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41598-018-37251-w

BLNCR is a long non-coding RNA adjacent to integrin beta-1 that is rapidly lost during epidermal progenitor cell differentiation
Cited by: 11
Author(s): Sabine E.J. Tanis, Elif Senem Köksal, Jessie A.G.L. van Buggenum, Klaas W. Mulder
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-018-37554-y

Identification of Key Signaling Pathways Orchestrating Substrate Topography Directed Osteogenic Differentiation Through High-Throughput siRNA Screening
Cited by: 11
Author(s): Tuğba Özdemir, Daniel T. Bowers, Xiang Zhan, Debashis Ghosh, Justin L. Brown
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-39376-y

Disruption of APOL1-miR193a Axis Induces Disorganization of Podocyte Actin Cytoskeleton
Cited by: 20
Author(s): Vinod Kumar, Nitpriya Paliwal, Kamesh Ayasolla, Himanshu Vashistha, Alok Jha, Nirupama Chandel, Sheetal Chowdhary, Moin A. Saleem, Ashwani Malhotra, Praveen N. Chander, Karl Skorecki, Pravin C. Singhal
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-41061-z

HNF4α is a novel regulator of intestinal glucose-dependent insulinotropic polypeptide
Cited by: 6
Author(s): Romain Girard, Mathieu Darsigny, Christine M. Jones, Faïza Maloum-Rami, Yves Gélinas, André C. Carpentier, Mathieu Laplante, Nathalie Perreault, François Boudreau
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-39538-y

The immunosuppressant drug azathioprine restrains adipogenesis of muscle Fibro/Adipogenic Progenitors from dystrophic mice by affecting AKT signaling
Cited by: 17
Author(s): Alessio Reggio, Filomena Spada, Marco Rosina, Giorgia Massacci, Alessandro Zuccotti, Claudia Fuoco, Cesare Gargioli, Luisa Castagnoli, Gianni Cesareni
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-40852-8

Clathrin Adaptor Complex-interacting Protein Irc6 Functions through the Conserved C-Terminal Domain
Cited by: 4
Author(s): Huajun Zhou, Giancarlo Costaguta, Grégory S. Payne
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-41057-9

TLP-mediated global transcriptional repression after double-strand DNA breaks slows down DNA repair and induces apoptosis
Cited by: 9
Author(s): Haruo Suzuki, Mayumi Okamoto-Katsuyama, Tetsufumi Suwa, Ryo Maeda, Tomohiro Tamura, Yuki Yamaguchi
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-42131-y

High Skp2 expression is associated with a mesenchymal phenotype and increased tumorigenic potential of prostate cancer cells
Cited by: 20
Author(s): Šárka Šimečková, Zuzana Kahounová, Radek Fedr, Ján Remšík, Eva Slabáková, Tereza Suchánková, Jiřina Procházková, Jan Bouchal, Gvantsa Kharaishvili, Milan Král, Petr Beneš, Karel Souček
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-42892-6

Pharmacological boost of DNA damage response and repair by enhanced biogenesis of DNA damage response RNAs
Cited by: 42
Author(s): Ubaldo Gioia, Sofia Francia, Matteo Cabrini, Silvia Brambillasca, Flavia Michelini, Corey Winston Jones-Weinert, Fabrizio d’Adda di Fagagna
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-43137-2

Automated Segmentation of Fluorescence Microscopy Images for 3D Cell Detection in human-derived Cardiospheres
Cited by: 39
Author(s): Massimo Salvi, Umberto Morbiducci, Francesco Amadeo, Rosaria Santoro, Francesco Angelini, Isotta Chimenti, Diana Nada Caterina Massai, Elisa Messina, Alessandro Giacomello, Maurizio Pesce, Filippo Molinari
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-42845-z

Development and Validation of a Pathology Image Analysis-based Predictive Model for Lung Adenocarcinoma Prognosis - A Multi-cohort Study
Cited by: 6
Author(s): Xin Luo, Yin Shen, Lin Yang, Junya Fujimoto, Yikun Yang, César A. Moran, Neda Kalhor, Annikka Weissferdt, Yang Xie, Adi F. Gazdar, John D. Minna, Ignacio I. Wistuba, Yousheng Mao, Guanghua Xiao
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-45217-9

Quantification of fixed adherent cells using a strong enhancer of the fluorescence of DNA dyes
Cited by: 19
Author(s): Anna Ligasová, Karel Koberna
Software Mentions: 1
Published: about 7 years ago

10.3390/toxins5091555

The Effect of Aflatoxin-B1 on Red Drum (Sciaenops ocellatus) and Assessment of Dietary Supplementation of NovaSil for the Prevention of Aflatoxicosis
Cited by: 42
Author(s): Katherine E. Zychowski, Aline Rodrigues Hoffmann, Hoai J. Ly, Camilo Pohlenz, Alejandro Buentello, Amelia Romoser, Delbert M. Gatlin, Timothy D. Phillips
Software Mentions: 1
Published: almost 13 years ago

10.3390/toxins9010041

Above and beyond C5a Receptor Targeting by Staphylococcal Leucotoxins: Retrograde Transport of Panton–Valentine Leucocidin and γ-Hemolysin
Cited by: 2
Author(s): Gaëlle Zimmermann‐Meisse, Gilles Prévost, Emmanuel Jover
Software Mentions: 1
Published: over 9 years ago

10.1016/j.tranon.2021.101149

Anti-tumor effects of rigosertib in high-risk neuroblastoma
Cited by: 5
Author(s): Katarzyna Radke, Karin Hansson, Jonas Sjölund, Magdalena Wolska, Jenny Karlsson, Javanshir Esfandyari, Kristian Pietras, Kristina Aaltonen, David Gisselsson, Daniel Bexell
Software Mentions: 1
Published: about 5 years ago

10.1038/tp.2016.230

Clozapine modifies the differentiation program of human adipocytes inducing browning
Cited by: 31
Author(s): Endre Kristóf, Quang-Minh Doan-Xuan, Anitta Kinga Sárvári, Ágnes Klusóczki, Pamela Fischer‐Posovszky, Martin Wabitsch, Zsolt Bacsó, Péter Bai, Zoltán Balajthy, László Fésüs
Software Mentions: 1
Published: over 9 years ago

10.1038/s41398-021-01287-w

Umbilical cord blood-derived microglia-like cells to model COVID-19 exposure
Cited by: 10
Author(s): Steven D. Sheridan, Jessica M. Thanos, Rose M. De Guzman, Liam McCrea, Joy E. Horng, Ting Fu, Carl M. Sellgren, Roy H. Perlis, Andrea G. Edlow
Software Mentions: 1
Published: over 5 years ago

10.1097/TXD.0000000000001168

Tubular Cell Dropout in Preimplantation Deceased Donor Biopsies as a Predictor of Delayed Graft Function
Cited by: 5
Author(s): Zachary M. Avigan, Nikhil Singh, Judith A. Kliegel, Marlene Weiß, Gilbert Moeckel, Lloyd G. Cantley
Software Mentions: 1
Published: about 5 years ago

10.1128/mBio.00903-16

JC Polyomavirus Infection of Primary Human Renal Epithelial Cells Is Controlled by a Type I IFN-Induced Response
Cited by: 41
Author(s): Benedetta Assetta, Marco De Cecco, Bethany A. O’Hara, Walter J. Atwood
Software Mentions: 1
Published: almost 10 years ago

10.1128/mBio.01453-17

Spatiotemporally Heterogeneous Population Dynamics of Gut Bacteria Inferred from Fecal Time Series Data
Cited by: 27
Author(s): Hidetoshi Inamine, Stephen P. Ellner, Peter D. Newell, Yuan Luo, Nicolas Buchon, Angela E. Douglas
Software Mentions: 1
Published: over 8 years ago

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