bioconductor: flowViz | Projects | Ecosyste.ms: Papers

10.1186/s12859-019-3152-3

flowEMMi: an automated model-based clustering tool for microbial cytometric data
Cited by: 16
Author(s): Joachim Ludwig, Christian Höner zu Siederdissen, Zishu Liu, Peter F. Stadler, Susann Müller
Software Mentions: 18
Published: about 5 years ago

10.3389/fcell.2020.618552

A Semi-automated Organoid Screening Method Demonstrates Epigenetic Control of Intestinal Epithelial Differentiation
Cited by: 12
Author(s): Jenny Ostrop, Rosalie T. Zwiggelaar, Marianne Terndrup Pedersen, François Gerbe, Korbinian Bösl, Håvard T. Lindholm, Alberto Díez-Sánchez, Naveen Parmar, Silke Radetzki, Jens Peter von Kries, Philippe Jay, Kim B. Jensen, C.H. Arrowsmith, Menno J. Oudhoff
Software Mentions: 12
Published: almost 4 years ago

10.3389/fonc.2016.00188

Immunophenotype Discovery, Hierarchical Organization, and Template-Based Classification of Flow Cytometry Samples
Cited by: 12
Author(s): Ariful Azad, Bartek Rajwa, Alex Pothen
Software Mentions: 10
Published: over 8 years ago

10.1128/mSystems.00895-20

Computational Analysis of Microbial Flow Cytometry Data
Cited by: 16
Author(s): Peter Rubbens, Ruben Props
Software Mentions: 9
Published: almost 4 years ago

10.1371/journal.pcbi.1003806

OpenCyto: An Open Source Infrastructure for Scalable, Robust, Reproducible, and Automated, End-to-End Flow Cytometry Data Analysis
Cited by: 171
Author(s): Greg Finak, Jacob Frelinger, Wenxin Jiang, Evan W. Newell, John Ramey, Mark M. Davis, Spyros A. Kalams, Stephen C. De Rosa, Raphaël Gottardo
Software Mentions: 8
Published: over 10 years ago

10.1186/1471-2105-13-252

QUAliFiER: An automated pipeline for quality assessment of gated flow cytometry data
Cited by: 17
Author(s): Greg Finak, Wenxin Jiang, Jorge Pardo, Adam Asare, Raphaël Gottardo
Software Mentions: 8
Published: about 12 years ago

10.1038/s41392-021-00729-7

Technological advances in cancer immunity: from immunogenomics to single-cell analysis and artificial intelligence
Cited by: 34
Author(s): Ying Xu, Guan-Hua Su, Ding Ma, Yi Xiao, Zhi-Ming Shao
Software Mentions: 8
Published: over 3 years ago

10.7554/eLife.31867

Stochastic tuning of gene expression enables cellular adaptation in the absence of pre-existing regulatory circuitry
Cited by: 16
Author(s): Peter L. Freddolino, Jiping Yang, Amir Momen-Roknabadi, Saeed Tavazoie
Software Mentions: 7
Published: over 6 years ago

10.1186/1471-2105-11-44

The curvHDR method for gating flow cytometry samples
Cited by: 29
Author(s): Ulrike Naumann, George Luta, M. P. Wand
Software Mentions: 7
Published: almost 15 years ago

10.1038/s41598-020-70198-5

Computational flow cytometry of planktonic populations for the evaluation of microbiological-control programs in district cooling plants
Cited by: 0
Author(s): James McElhinney, Aurélie Mawart, Ruba Alkaabi, H. S. S. Abdelsamad, Afnan Mansour, Ayesha Hasan
Software Mentions: 6
Published: over 4 years ago

10.1186/1471-2105-10-145

flowClust: a Bioconductor package for automated gating of flow cytometry data
Cited by: 165
Author(s): Kenneth Lo, Florian Hahne, Ryan R. Brinkman, Raphaël Gottardo
Software Mentions: 6
Published: over 15 years ago

10.1371/journal.pone.0243746

Image-based screen capturing misfolding status of Niemann-Pick type C1 identifies potential candidates for chaperone drugs
Cited by: 7
Author(s): Ryuta Shioi, Fumika Karaki, Hirosuke Yoshioka, Tomomi Noguchi‐Yachide, Minoru Ishikawa, Kosuke Dodo, Yuichi Hashimoto, Mikiko Sodeoka, Kenji Ohgane
Software Mentions: 6
Published: about 4 years ago

10.1093/bioinformatics/bty441

ggCyto: next generation open-source visualization software for cytometry
Cited by: 55
Author(s): Phu T. Van, Wenxin Jiang, Raphaël Gottardo, Greg Finak
Software Mentions: 5
Published: over 6 years ago

10.1186/1471-2105-10-106

flowCore: a Bioconductor package for high throughput flow cytometry
Cited by: 421
Author(s): Florian Hahne, Nolwenn Le Meur, Ryan R. Brinkman, Byron Ellis, Perry D. Haaland, Deepayan Sarkar, Josef Špidlen, Errol Strain, Robert Gentleman
Software Mentions: 5
Published: over 15 years ago

10.1155/2009/809469

Bridging the Divide between Manual Gating and Bioinformatics with the Bioconductor Package flowFlowJo
Cited by: 4
Author(s): John J. Gosink, Gary Means, William Rees, Cheng Su, Hugh Rand
Software Mentions: 4
Published: about 15 years ago

10.1038/s41598-020-68693-w

Inhibition of indole production increases the activity of quinolone antibiotics against E. coli persisters
Cited by: 13
Author(s): Ashraf Zarkan, Marta Matuszewska, Stephen Trigg, Meng Zhang, Daaniyah Belgami, Cameron Croft, Junyan Liu, Sawssen El-Ouisi, Jack Greenhalgh, James S. Duboff, Taufiq Rahman, David Summers
Software Mentions: 4
Published: over 4 years ago

10.1155/2009/356141

Analysis of High-Throughput Flow Cytometry Data Using plateCore
Cited by: 7
Author(s): Errol Strain, Florian Hahne, Ryan R. Brinkman, Perry D. Haaland
Software Mentions: 3
Published: about 15 years ago

10.1371/journal.pone.0188853

Indole at low concentration helps exponentially growing Escherichia coli survive at high temperature
Cited by: 7
Author(s): Junyan Liu, David Summers
Software Mentions: 3
Published: about 7 years ago

10.1186/s12859-015-0602-4

NetworkPainter: dynamic intracellular pathway animation in Cytobank
Cited by: 3
Author(s): Jonathan R. Karr, Harendra Guturu, Edward Y. Chen, Stuart L Blair, Jonathan M. Irish, Nikesh Kotecha, Markus W. Covert
Software Mentions: 2
Published: over 9 years ago

10.3389/fmicb.2020.02059

Changes in Population Age-Structure Obscure the Temperature-Size Rule in Marine Cyanobacteria
Cited by: 4
Author(s): Antonio S Palacio, Ana María Cabello, Francisca C. García, Abbrar Labban, Xosé Anxelu G. Morán, Laurence Garczarek, Laura Alonso‐Sáez, Ángel López‐Urrutia
Software Mentions: 2
Published: over 4 years ago

10.1038/cddiscovery.2016.22

Hypoxia and classical activation limits Mycobacterium tuberculosis survival by Akt-dependent glycolytic shift in macrophages
Cited by: 28
Author(s): Sumit Kumar Matta, Sumit Kumar Matta
Software Mentions: 2
Published: over 8 years ago

10.1128/mSphere.00101-16

Active and Secretory IgA-Coated Bacterial Fractions Elucidate Dysbiosis in Clostridium difficile Infection
Cited by: 18
Author(s): Mária Džunková, Andrés Moya, Jorge F. Vázquez-Castellanos, Alejandro Artacho, Xinhua Chen, Ciarán P. Kelly, Giuseppe D’Auria
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0022448

The Active Human Gut Microbiota Differs from the Total Microbiota
Cited by: 94
Author(s): Francesc Peris-Bondia, Amparo Latorre, Alejandro Artacho, Andrés Moya, Giuseppe D’Auria
Software Mentions: 1
Published: over 13 years ago

10.1038/srep03515

Active and secreted IgA-coated bacterial fractions from the human gut reveal an under-represented microbiota core
Cited by: 42
Author(s): Giuseppe D’Auria, Francesc Peris-Bondia, Mária Džunková, Álex Mira, María Carmen Collado, Amparo Latorre, Andrés Moya
Software Mentions: 1
Published: about 11 years ago

10.1111/1365-2656.13000

Comparing biotic drivers of litter breakdown across stream compartments
Cited by: 14
Author(s): Ignacio Peralta‐Maraver, Daniel M. Perkins, Murray S. A. Thompson, Katarina E. Fussmann, Joshua D. Reiss, Anne L. Robertson
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.ppat.1006236

Alternate splicing of transcripts shape macrophage response to Mycobacterium tuberculosis infection
Cited by: 49
Author(s): Haroon Kalam, Mary F. Fontana, Dhiraj Kumar
Software Mentions: 1
Published: almost 8 years ago

Ecosyste.ms: Papers

Projects: bioconductor: flowViz

Papers Mentioning flowViz 26