Ecosyste.ms: Papers

10.3390/s100908092

Real-Time Particle Mass Spectrometry Based on Resonant Micro Strings
Cited by: 66
Author(s): Silvan Schmid, Søren Dohn, Anja Boisen
Software Mentions: 1
Published: about 14 years ago

10.3390/s150612765

Provisioning Vehicular Services and Communications Based on a Bluetooth Sensor Network Deployment
Cited by: 7
Author(s): David Pérez Díaz de Cerio, Antonio Valdovinos
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0166877

Transcriptome Analysis of the Chrysanthemum Foliar Nematode, Aphelenchoides ritzemabosi (Aphelenchida: Aphelenchoididae)
Cited by: 4
Author(s): Xiang Yu, Dong-Wei Wang, Junyi Li, Hui Xie, Chunling Xu, Li Yu
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0030432

PET/CT Imaging of c-Myc Transgenic Mice Identifies the Genotoxic N-Nitroso-Diethylamine as Carcinogen in a Short-Term Cancer Bioassay
Cited by: 7
Author(s): Katja Hueper, Mahmoud M. Elalfy, Florian Laenger, Roman Halter, Thomas Rodt, Michael Galanski, Jürgen Borlak
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0148839

Characterization of Behavioral, Neuropathological, Brain Metabolic and Key Molecular Changes in zQ175 Knock-In Mouse Model of Huntington’s Disease
Cited by: 47
Author(s): Peng Qi, Bin Wu, Mali Jiang, Jing Jin, Zhipeng Hou, Jennifer Zheng, Jiangyang Zhang, Wenzhen Duan
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0095077

Diffusion Kurtosis Imaging and High-Resolution MRI Demonstrate Structural Aberrations of Caudate Putamen and Amygdala after Chronic Mild Stress
Cited by: 52
Author(s): Rafael Delgado y Palacios, Marleen Verhoye, Kim Henningsen, Ove Wiborg, Annemie Van der Linden
Software Mentions: 1
Published: over 10 years ago

10.3390/s151129535

A Real-Time Monitoring System of Industry Carbon Monoxide Based on Wireless Sensor Networks
Cited by: 94
Author(s): Jiachen Yang, Jianxiong Zhou, Zhihan Lv, Wei Wei, Houbing Song
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0029613

Sample Reproducibility of Genetic Association Using Different Multimarker TDTs in Genome-Wide Association Studies: Characterization and a New Approach
Cited by: 6
Author(s): María M. Abad‐Grau, Nuria Medina-Medina, Rosana Montes Soldado, Fuencisla Matesanz, Vineet Bafna
Software Mentions: 1
Published: almost 13 years ago

10.21105/joss.00885

Genotify: Fast, lightweight gene lookup and summarization
Cited by: 3
Author(s): Jared Andrews, Mohamed El-Alawi, Jacqueline E. Payton
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0182771

CAM: A quality control pipeline for MNase-seq data
Cited by: 7
Author(s): Shengen Hu, Xiaolan Chen, Liao Ji, Yiqing Chen, Chengchen Zhao, Yong Zhang
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0127554

Modeled Changes in Potential Grassland Productivity and in Grass-Fed Ruminant Livestock Density in Europe over 1961–2010
Cited by: 31
Author(s): Jinfeng Chang, Nicolas Viovy, Nicolas Vuichard, Philippe Ciais, Matteo Campioli, Katja Klumpp, Raphaël Martin, Adrian Leip, Jean‐François Soussana
Software Mentions: 1
Published: over 9 years ago

10.3390/s17122894

Accurate Sample Time Reconstruction of Inertial FIFO Data
Cited by: 0
Author(s): Sebastian Stieber, Rainer G. Dorsch, Christian Haubelt
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pone.0034593

Molecular Dynamics Simulation Study and Hybrid Pharmacophore Model Development in Human LTA4H Inhibitor Design
Cited by: 12
Author(s): Sundarapandian Thangapandian, John Strouboulis, Mahreen Arooj, Keun Woo Lee
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0064692

Whole-Exome Sequencing Enables Rapid Determination of Xeroderma Pigmentosum Molecular Etiology
Cited by: 36
Author(s): Oscar Ortega‐Recalde, Jessica Inés Vergara, Dora Janeth Fonseca, Xiomara Ríos, Hernando Mosquera, Olga María Bermúdez, Claudia Liliana Medina, Clara Inés Vargas, Argemiro Enrique Pallares, Carlos Martín Restrepo, Paul Laissue
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0153771

A Web-Based Platform for Designing Vaccines against Existing and Emerging Strains of Mycobacterium tuberculosis
Cited by: 19
Author(s): Sandeep Kumar Dhanda, Pooja Vir, Deepak Singla, Sudheer Gupta, Shailesh Kumar, Gajendra P. S. Raghava
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0014454

A Complete Analysis of HA and NA Genes of Influenza A Viruses
Cited by: 37
Author(s): Weifeng Shi, Fumin Lei, Chao‐Dong Zhu, Fabian Sievers, Desmond G. Higgins
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0117987

STBase: One Million Species Trees for Comparative Biology
Cited by: 9
Author(s): Michelle M. McMahon, A. Deepak, David Fernández-Baca, Darren Boss, Michael J. Sanderson
Software Mentions: 1
Published: almost 10 years ago

10.3390/s18020320

Data-Driven Packet Loss Estimation for Node Healthy Sensing in Decentralized Cluster
Cited by: 0
Author(s): Hongqi Fan, Huandong Wang, Li Yong
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pone.0041063

Structural Origins for the Loss of Catalytic Activities of Bifunctional Human LTA4H Revealed through Molecular Dynamics Simulations
Cited by: 7
Author(s): Sundarapandian Thangapandian, John Strouboulis, Prettina Lazar, Sun Choi, Keun Woo Lee
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0104391

Eukaryotic Initiation Factor 4G Suppresses Nonsense-Mediated mRNA Decay by Two Genetically Separable Mechanisms
Cited by: 39
Author(s): Raphael Joncourt, Andrea B. Eberle, Simone C. Rufener, Oliver Mühlemann
Software Mentions: 1
Published: over 10 years ago

10.3390/s18072259

Shaping Streamflow Using a Real-Time Stormwater Control Network
Cited by: 25
Author(s): Abhiram Mullapudi, Matthew Bartos, Brandon Wong, Branko Kerkez
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0017937

A Class Representative Model for Pure Parsimony Haplotyping under Uncertain Data
Cited by: 1
Author(s): Daniele Catanzaro, Martine Labbé, Luciano Porretta
Software Mentions: 1
Published: over 13 years ago

10.3390/s18103421

Enabling Multi-Mission Interoperable UAS Using Data-Centric Communications
Cited by: 5
Author(s): Iván Vidal, Paolo Bellavista, Víctor Sanchez-Agüero, Jaime García-Reinoso, Francisco Valera, Borja Nogales, Arturo Azcorra
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pone.0082596

Characterization of a Small Auxin-Up RNA (SAUR)-Like Gene Involved in Arabidopsis thaliana Development
Cited by: 65
Author(s): Marios Nektarios Markakis, Agnieszka Karolina Boron, Bram Van Loock, Kumud Saini, Susanna Cirera, Jean‐Pierre Verbelen, Kris Vissenberg
Software Mentions: 1
Published: almost 11 years ago

10.1186/s12859-015-0558-4

Grammar-based compression approach to extraction of common rules among multiple trees of glycans and RNAs
Cited by: 3
Author(s): Yang Zhao, Morihiro Hayashida, Yue Cao, Jaewook Hwang, Tatsuya Akutsu
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0006015

Alpha-Helical Protein Networks Are Self-Protective and Flaw-Tolerant
Cited by: 68
Author(s): Theodor Ackbarow, Dipanjan Sen, Christian Thaulow, Markus J. Buehler
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0139476

Network Properties of the Ensemble of RNA Structures
Cited by: 6
Author(s): Peter Clote, Amir H. Bayegan
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pgen.1008480

Increased ultra-rare variant load in an isolated Scottish population impacts exonic and regulatory regions
Cited by: 16
Author(s): Mihail Halachev, Alison Meynert, Martin S. Taylor, Véronique Vitart, Shona M. Kerr, Lucija Klarić, Tim Aitman, Chris Haley, James Prendergast, Carys Pugh, David Hume, Sarah E. Harris, David C. Liewald, Ian J. Deary, Colin A. Semple, James F. Wilson
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0028265

Structural Constraints on the Covariance Matrix Derived from Multiple Aligned Protein Sequences
Cited by: 25
Author(s): William R. Taylor, Michael I. Sadowski
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0073377

Quantitative Analysis of PiB-PET with FreeSurfer ROIs
Cited by: 172
Author(s): Yi Su, Gina D’Angelo, Andrei G. Vlassenko, Gongfu Zhou, Abraham Z. Snyder, Daniel S. Marcus, Tyler Blazey, Jon Christensen, Shivangi Vora, John C. Morris, Mark A. Mintun, Tammie L.S. Benzinger
Software Mentions: 1
Published: about 11 years ago

10.3390/s19040805

Process Management in IoT Operating Systems: Cross-Influence between Processing and Communication Tasks in End-Devices
Cited by: 16
Author(s): Roberto Rodriguez-Zurrunero, Ramiro Utrilla, Alba Rozas, Álvaro Araújo
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1008990

Finding recurrent RNA structural networks with fast maximal common subgraphs of edge-colored graphs
Cited by: 5
Author(s): Antoine Soulé, Vladimir Reinharz, Roman Sarrazin-Gendron, Alain Denise, Jérôme Waldispühl
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pcbi.1007073

A new framework for assessing subject-specific whole brain circulation and perfusion using MRI-based measurements and a multi-scale continuous flow model
Cited by: 24
Author(s): Erlend Hodneland, Erik Andreas Hanson, Ove Sævareid, Gunnar Nævdal, Arvid Lundervold, Veronika Šoltészová, Antonella Zanna Munthe-Kaas, Andreas Deistung, Jürgen R. Reichenbach, Jan Martin Nordbotten
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0062740

Molecular Modeling Study for Inhibition Mechanism of Human Chymase and Its Application in Inhibitor Design
Cited by: 12
Author(s): Mahreen Arooj, Songmi Kim, Sugunadevi Sakkiah, Guang Ping Cao, Yuno Lee, Keun Woo Lee
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pcbi.1006324

The role of curvature feedback in the energetics and dynamics of lamprey swimming: A closed-loop model
Cited by: 23
Author(s): Christina Hamlet, Kathleen Hoffman, Eric D. Tytell, Lisa Fauci
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0095767

Molecular Recognition of CCR5 by an HIV-1 gp120 V3 Loop
Cited by: 60
Author(s): Phanourios Tamamis, Christodoulos A. Floudas
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0054585

Identifying the Computational Requirements of an Integrated Top-Down-Bottom-Up Model for Overt Visual Attention within an Active Vision System
Cited by: 1
Author(s): Sebastian D. McBride, Martin Huelse, Mark Lee
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pcbi.1008226

Ten simple rules for organizing a data science workshop
Cited by: 1
Author(s): Alise J. Ponsero, Ryan P. Bartelme, Gustavo de Oliveira Almeida, Alex Bigelow, Reetu Tuteja, Holly M. Ellingson, Tyson L. Swetnam, Nirav Merchant, Maliaca Oxnam, Eric Lyons
Software Mentions: 1
Published: about 4 years ago

10.1186/1748-7188-1-5

Effective p-value computations using Finite Markov Chain Imbedding (FMCI): application to local score and to pattern statistics
Cited by: 25
Author(s): Grégory Nuel
Software Mentions: 1
Published: over 18 years ago

10.1371/journal.pone.0097584

Stochastic Blockmodeling of the Modules and Core of the Caenorhabditis elegans Connectome
Cited by: 60
Author(s): Dragana M. Pavlović, Petra E. Vértes, Edward T. Bullmore, William R. Schafer, Thomas E. Nichols
Software Mentions: 1
Published: over 10 years ago

10.1155/2008/369830

Genomic Promoter Analysis Predicts Functional Transcription Factor Binding
Cited by: 2
Author(s): J. Sunil Rao, Suresh Karanam, Colleen D. McCabe, Carlos S. Moreno
Software Mentions: 1
Published: about 16 years ago

10.1371/journal.pcbi.1000146

Classifying RNA-Binding Proteins Based on Electrostatic Properties
Cited by: 66
Author(s): Shula Shazman, Yael Mandel-Gutfreund
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pcbi.0030245

Retinal Wave Behavior through Activity-Dependent Refractory Periods
Cited by: 53
Author(s): Keith B. Godfrey, Nicholas V. Swindale
Software Mentions: 1
Published: almost 17 years ago

10.3390/s20113048

Teaching and Learning IoT Cybersecurity and Vulnerability Assessment with Shodan through Practical Use Cases
Cited by: 15
Author(s): Tiago M. Fernández‐Caramés, Paula Fraga‐Lamas
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pcbi.1005331

Scalable Parameter Estimation for Genome-Scale Biochemical Reaction Networks
Cited by: 128
Author(s): Fabian Fröhlich, Barbara Kaltenbacher, Fabian J. Theis, Jan Hasenauer
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0135677

De Novo Transcriptome Assembly and Comparative Analysis Elucidate Complicated Mechanism Regulating Astragalus chrysochlorus Response to Selenium Stimuli
Cited by: 15
Author(s): Özgür Çakır, Neslihan Turgut-Kara, Şule Arı, Baohong Zhang
Software Mentions: 1
Published: about 9 years ago

10.1186/1471-2105-14-S9-S4

Classification and assessment tools for structural motif discovery algorithms
Cited by: 2
Author(s): Ghada Badr, Isra Al-Turaiki, Hassan Mathkour
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0068337

Improving Transferability of Introduced Species’ Distribution Models: New Tools to Forecast the Spread of a Highly Invasive Seaweed
Cited by: 93
Author(s): Heroen Verbruggen, L. Tyberghein, Gareth S. Belton, Frédéric Mineur, Alexander Jueterbock, Galice Hoarau, Carlos Frederico D. Gurgel, Olivier De Clerck
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pcbi.1004419

Modularity of Protein Folds as a Tool for Template-Free Modeling of Structures
Cited by: 16
Author(s): Brinda Vallat, Carlos Madrid-Aliste, András Fiser
Software Mentions: 1
Published: over 9 years ago