cran: matlab | Projects | Ecosyste.ms: Papers

10.1186/1471-2105-10-211

puma: a Bioconductor package for propagating uncertainty in microarray analysis
Cited by: 67
Author(s): Richard D. Pearson, Xuejun Liu, Guido Sanguinetti, Marta Milo, Neil D. Lawrence, Magnus Rattray
Software Mentions: 9
Published: over 15 years ago

10.1371/journal.pcbi.1009064

coupleCoC+: An information-theoretic co-clustering-based transfer learning framework for the integrative analysis of single-cell genomic data
Cited by: 7
Author(s): Pengcheng Zeng, Zhixiang Lin
Software Mentions: 9
Published: over 3 years ago

10.1371/journal.pone.0226694

AlleleProfileR: A versatile tool to identify and profile sequence variants in edited genomes
Cited by: 4
Author(s): Arne A.N. Bruyneel, Alexandre R. Colas, Ioannis Karakikes, Mark Mercola
Software Mentions: 9
Published: almost 5 years ago

10.1371/journal.pone.0084227

Automatic Context-Specific Subnetwork Discovery from Large Interaction Networks
Cited by: 10
Author(s): Ashis Saha, Aik Choon Tan, Jaewoo Kang
Software Mentions: 9
Published: almost 11 years ago

10.1111/1462-2920.14870

Microbial signatures of protected and impacted Northern Caribbean reefs: changes from Cuba to the Florida Keys
Cited by: 23
Author(s): Laura Weber, Patricia González‐Díaz, Maickel Armenteros, Víctor Manuel Ferrer, Fernando Bretos, Erich Bartels, Alyson E. Santoro, Amy Apprill
Software Mentions: 9
Published: about 5 years ago

10.7554/eLife.65654

Quantitative control of noise in mammalian gene expression by dynamic histone regulation
Cited by: 2
Author(s): Tan D, Rui Chen, Yuejian Mo, Shu Gu, Jiao Ma, Wei Xu, Xibin Lu, Hongtao He, Fan Jiang, Weimin Fan, Yili Wang, Xi Chen, Wei Huang
Software Mentions: 8
Published: over 3 years ago

10.3389/fneur.2019.00331

Googling Boundaries for Operating Mobile Stroke Unit for Stroke Codes
Cited by: 7
Author(s): Thanh G. Phan, Richard Beare, Mark Parsons, Henry Zhao, Stephen M. Davis, Geoffrey A. Donnan, Velandai Srikanth, Henry Ma
Software Mentions: 8
Published: over 5 years ago

10.1371/journal.pgen.1003733

Histone Variant HTZ1 Shows Extensive Epistasis with, but Does Not Increase Robustness to, New Mutations
Cited by: 45
Author(s): Joshua B. Richardson, Locke Uppendahl, Maria K. Traficante, Sasha F. Levy, Mark L. Siegal
Software Mentions: 7
Published: over 11 years ago

10.1038/s41598-021-92927-0

A new CAM6 + DART reanalysis with surface forcing from CAM6 to other CESM models
Cited by: 5
Author(s): K. Raeder, T. J. Hoar, Mohamad El Gharamti, Benjamin K. Johnson, Nancy Collins, Jeffrey L. Anderson, Jeff Steward, Mick Coady
Software Mentions: 7
Published: over 3 years ago

10.7554/eLife.01256

Chromatin signature of widespread monoallelic expression
Cited by: 74
Author(s): Anwesha Nag, Virginia Savova, Ho Lim Fung, Alexander Miron, Guo Cheng Yuan, Kun Zhang, Alexander A. Gimelbrant
Software Mentions: 6
Published: almost 11 years ago

10.1038/sdata.2016.95

Systematic chemical-genetic and chemical-chemical interaction datasets for prediction of compound synergism
Cited by: 12
Author(s): Jan Wildenhain, Michaela Spitzer, Sonam Dolma, Nick Jarvik, Robert L. White, Marcia Roy, Emma Griffiths, David S. Bellows, Gerard D. Wright, Mike Tyers
Software Mentions: 6
Published: about 8 years ago

10.1371/journal.pcbi.1008276

Uncertainty-driven regulation of learning and exploration in adolescents: A computational account
Cited by: 19
Author(s): Marieke Jepma, Jessica V. Schaaf, Ingmar Visser, Hilde M. Huizenga
Software Mentions: 6
Published: about 4 years ago

10.1371/journal.pgen.1008516

Ligand dependent gene regulation by transient ERα clustered enhancers
Cited by: 17
Author(s): Bharath Saravanan, Deepanshu Soota, Zubairul Islam, Sudeshna Majumdar, Rajat Mann, Sweety Meel, Umer Farooq, Kaivalya Walavalkar, Srimonta Gayen, Anurag Kumar Singh, Sridhar Hannenhalli, Dimple Notani
Software Mentions: 6
Published: almost 5 years ago

10.1002/2211-5463.12327

Multiple-cumulative probabilities used to cluster and visualize transcriptomes
Cited by: 4
Author(s): Xueping Jia, Yisu Liu, Qiuhong Han, Lu Zhang
Software Mentions: 6
Published: about 7 years ago

10.1016/j.dib.2021.107264

Personalized prediction of repetitive transcranial magnetic stimulation clinical response in medication-refractory depression data
Cited by: 1
Author(s): Helene Hopman, Sandra S. M. Chan, Winnie Chiu Wing Chu, Hanna Lu, Chun‐Yu Tse, Steven Wai Ho Chau, Linda Chiu Wa Lam, Arthur F.T. Mak, Sebastiaan F. W. Neggers
Software Mentions: 6
Published: over 3 years ago

10.14814/phy2.13376

Male apoE*3-Leiden.CETP mice on high-fat high-cholesterol diet exhibit a biphasic dyslipidemic response, mimicking the changes in plasma lipids observed through life in men
Cited by: 18
Author(s): Yared Paalvast, Albert Gerding, Yanan Wang, Vincent W. Bloks, Theo H. van Dijk, Rick Havinga, Ko Willems van Dijk, Patrick C.N. Rensen, Barbara M. Bakker, Jan Albert Kuivenhoven, Albert K. Groen
Software Mentions: 5
Published: about 7 years ago

10.1186/s12859-016-0951-7

Regularized logistic regression with network-based pairwise interaction for biomarker identification in breast cancer
Cited by: 18
Author(s): Mengyun Wu, Xiaofei Zhang, Dao‐Qing Dai, Le Ou-Yang, Yuan Zhu, Hong Yan
Software Mentions: 5
Published: almost 9 years ago

10.1111/j.1461-0248.2007.01121.x

Demographic analysis of continuous-time life-history models
Cited by: 60
Author(s): André M. de Roos
Software Mentions: 5
Published: about 17 years ago

10.1186/s12920-016-0202-9

Integrative approach for inference of gene regulatory networks using lasso-based random featuring and application to psychiatric disorders
Cited by: 5
Author(s): Dongchul Kim, Min-Hee Kang, Ashis Kumer Biswas, Chun Yu Liu, Jean Gao
Software Mentions: 5
Published: over 8 years ago

10.12688/f1000research.8252.2

Detecting variable responses in time-series using repeated measures ANOVA: Application to physiologic challenges
Cited by: 3
Author(s): Paul M Macey, Philip J. Schlüter, Katherine E. Macey, Ronald M. Harper
Software Mentions: 5
Published: over 8 years ago

10.7554/eLife.60090

The organizational principles of de-differentiated topographic maps in somatosensory cortex
Cited by: 11
Author(s): Peng Liu, Anastasia Chrysidou, Juliane Doehler, Martin N. Hebart, Thomas Wolbers, Esther Kuehn
Software Mentions: 5
Published: over 3 years ago

10.7554/eLife.62719

Identical sequences found in distant genomes reveal frequent horizontal transfer across the bacterial domain
Cited by: 14
Author(s): Michael Sheinman, Ksenia Arkhipova, Peter F. Arndt, Bas E. Dutilh, Rutger Hermsen, Florian Massip
Software Mentions: 5
Published: over 3 years ago

10.1186/s12868-015-0217-8

Estimating the location and size of retinal injections from orthogonal images of an intact retina
Cited by: 3
Author(s): Johannes Hjorth, Élise Savier, David C. Sterratt, Michaël Reber, Stephen J. Eglen
Software Mentions: 5
Published: about 9 years ago

10.1371/journal.pone.0160588

Fidelity of Automatic Speech Processing for Adult and Child Talker Classifications
Cited by: 26
Author(s): Mark VanDam, Noah H. Silbert
Software Mentions: 5
Published: over 8 years ago

10.1371/journal.pone.0200094

A robust gene regulatory network inference method base on Kalman filter and linear regression
Cited by: 35
Author(s): Jamshid Pirgazi, Alireza Khanteymoori
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pcbi.1009350

Evaluating the effectiveness of ensemble voting in improving the accuracy of consensus signals produced by various DTWA algorithms from step-current signals generated during nanopore sequencing
Cited by: 0
Author(s): M. R. Smith, Rachel Chan, Maaz Khurram, Paul M. Gordon
Software Mentions: 5
Published: over 3 years ago

10.3389/fninf.2015.00005

Neuroinformatics and the The Insight ToolKit
Cited by: 6
Author(s): Brian B. Avants, Hans J. Johnson, Nicholas J. Tustison
Software Mentions: 5
Published: over 9 years ago

10.1186/1752-0509-1-27

Non-linear dimensionality reduction of signaling networks
Cited by: 18
Author(s): Sergii Ivakhno, J. Douglas Armstrong
Software Mentions: 5
Published: over 17 years ago

10.1186/1748-7188-5-32

Gravitation field algorithm and its application in gene cluster
Cited by: 24
Author(s): Ming Zheng, Guixia Liu, Chunguang Zhou, Yanchun Liang, Yan Wang
Software Mentions: 5
Published: over 14 years ago

10.1186/2047-217X-3-37

Shared data for intensity modulated radiation therapy (IMRT) optimization research: the CORT dataset
Cited by: 68
Author(s): David Craft, Mark Bangert, Tammy M. Long, Dávid Papp, Jan Unkelbach
Software Mentions: 5
Published: about 10 years ago

10.1038/s41598-018-32377-3

A Convenient Non-harm Cervical Spondylosis Intelligent Identity method based on Machine Learning
Cited by: 2
Author(s): Nana Wang, Xi Huang, Yi Rao, Jing Xiao, Junqing Lu, Nian Wang, Cui Li
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pcbi.1005698

A systems approach reveals distinct metabolic strategies among the NCI-60 cancer cell lines
Cited by: 19
Author(s): Maike Kathrin Aurich, Ronan M. T. Fleming, Ines Thiele
Software Mentions: 4
Published: over 7 years ago

10.31557/APJCP.2019.20.2.457

A Novel Hybrid Feature Extraction Model for Classification on Pulmonary Nodules
Cited by: 12
Author(s): Siddharth Kailasam, M. Mohamed Sathik
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pcbi.1009216

Topology-preserving smoothing of retinotopic maps
Cited by: 3
Author(s): Yanshuai Tu, Duyan Ta, Zhong-Lin Lü, Yalin Wang
Software Mentions: 4
Published: over 3 years ago

10.1038/srep38274

Edge enhancement improves disruptive camouflage by emphasising false edges and creating pictorial relief
Cited by: 27
Author(s): John T. Egan, Rebecca J. Sharman, Kenneth C. Scott-Brown, P. George Lovell
Software Mentions: 4
Published: about 8 years ago

10.1371/journal.pone.0071823

DTW4Omics: Comparing Patterns in Biological Time Series
Cited by: 16
Author(s): Rachel Cavill, Jos Kleinjans, Jacob J. Briedé
Software Mentions: 4
Published: over 11 years ago

10.1002/brb3.327

<scp>DTI</scp> and <scp>VBM</scp> reveal white matter changes without associated gray matter changes in patients with idiopathic restless legs syndrome
Cited by: 27
Author(s): Marcus Belke, Johannes T. Heverhagen, Boris Keil, Felix Rosenow, Wolfgang H. Oertel, Karin Stiasny‐Kolster, Susanne Knake, Katja Menzler
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0098372

Maximal Sum of Metabolic Exchange Fluxes Outperforms Biomass Yield as a Predictor of Growth Rate of Microorganisms
Cited by: 9
Author(s): Raphy Zarecki, Matthew Oberhardt, Keren Yizhak, Allon Wagner, Ella Shtifman Segal, Shiri Freilich, Christopher S. Henry, Uri Gophna, Eytan Ruppin
Software Mentions: 4
Published: over 10 years ago

10.1371/journal.pone.0230570

A Quality of Experience assessment of haptic and augmented reality feedback modalities in a gait analysis system
Cited by: 17
Author(s): Thiago Braga Rodrigues, Ciarán Ó Catháin, Noel E. O’Connor, Niall Murray
Software Mentions: 4
Published: almost 5 years ago

10.1186/1471-2105-8-421

A procedure for the estimation over time of metabolic fluxes in scenarios where measurements are uncertain and/or insufficient
Cited by: 54
Author(s): Francisco Llaneras, Jesús Picó
Software Mentions: 4
Published: about 17 years ago

10.1111/jne.12920

Activation and expression of endogenous CREB‐regulated transcription coactivators (CRTC) 1, 2 and 3 in the rat adrenal gland
Cited by: 3
Author(s): Lorna Smith, Zidong Zhao, Jamie J. Walker, Stafford L. Lightman, Francesca Spiga
Software Mentions: 4
Published: about 4 years ago

10.1371/journal.pone.0058804

A Small Set of Succinct Signature Patterns Distinguishes Chinese and Non-Chinese HIV-1 Genomes
Cited by: 7
Author(s): Yan Wang, Reda Rawi, Christoph Wilms, Dominik Heider, Rongge Yang, Daniel Hoffmann
Software Mentions: 4
Published: almost 12 years ago

10.1371/journal.pone.0144782

SVM2Motif—Reconstructing Overlapping DNA Sequence Motifs by Mimicking an SVM Predictor
Cited by: 6
Author(s): Marina M.-C. Vidovic, Nico Görnitz, Klaus Robert Müller, Gunnar Rätsch, Marius Kloft
Software Mentions: 4
Published: about 9 years ago

10.1371/journal.pone.0245222

Early Holocene Scandinavian foragers on a journey to affluence: Mesolithic fish exploitation, seasonal abundance and storage investigated through strontium isotope ratios by laser ablation (LA‐MC-ICP‐MS)
Cited by: 9
Author(s): Adam Boëthius, Mathilda Kjällquist, Melanie Kielman‐Schmitt, Torbjörn Ahlström, Lars Larsson
Software Mentions: 4
Published: almost 4 years ago

10.1121/1.5116568

Categorical phoneme labeling in children with dyslexia does not depend on stimulus duration
Cited by: 6
Author(s): Gabrielle O’Brien, Daniel McCloy, Jason D. Yeatman
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-018-26438-w

Unravelling miRNA regulation in yield of rice (Oryza sativa) based on differential network model
Cited by: 21
Author(s): Jihong Hu, Tao Zeng, Xia QiongMei, Qian Qian, Chunrong Yang, Yi Ding, Luonan Chen, Wen Wang
Software Mentions: 4
Published: over 6 years ago

10.3390/s19071562

Prediction of Marine Pycnocline Based on Kernel Support Vector Machine and Convex Optimization Technology
Cited by: 5
Author(s): Jiachen Yang, Lin Liu, Linfeng Zhang, Gen Li, Zhonghao Sun, Houbing Song
Software Mentions: 4
Published: over 5 years ago

10.7554/eLife.61646

Neural encoding of actual and imagined touch within human posterior parietal cortex
Cited by: 16
Author(s): Srinivas Chivukula, Carey Y. Zhang, Tyson Aflalo, Matiar Jafari, Kelsie Pejsa, Nader Pouratian, Richard A. Andersen
Software Mentions: 4
Published: almost 4 years ago

10.1111/jth.13613

Clustering of glycoprotein VI (GPVI) dimers upon adhesion to collagen as a mechanism to regulate GPVI signaling in platelets
Cited by: 82
Author(s): Natalie S. Poulter, Alice Y. Pollitt, Dylan M. Owen, Elizabeth E. Gardiner, Robert K. Andrews, Hiroyuki Shimizu, Daisuke Ishikawa, Dominique Bihan, Richard W. Farndale, Masaaki Moroi, Steve P. Watson, Stéphanie Jung
Software Mentions: 4
Published: almost 8 years ago

10.1371/journal.pone.0045084

A Peak-Clustering Method for MEG Group Analysis to Minimise Artefacts Due to Smoothness
Cited by: 5
Author(s): Jessica R. Gilbert, Laura Shapiro, Gareth R. Barnes
Software Mentions: 4
Published: over 12 years ago

10.1038/s41597-019-0070-1

Inter-urban mobility via cellular position tracking in the southeast Songliao Basin, Northeast China
Cited by: 8
Author(s): Zhanwei Du, Yintang Yang, Zeynep Ertem, Chao Gao, Liping Huang, Qiuyang Huang, Yuan Bai
Software Mentions: 4
Published: over 5 years ago

10.3390/s20133726

Movable Platform-Based Topology Detection for a Geographic Routing Wireless Sensor Network
Cited by: 1
Author(s): Runzhi Li, Jian Wang, Jiongyi Chen
Software Mentions: 4
Published: over 4 years ago

10.1111/joa.12631

Statistical shape modelling of hip and lumbar spine morphology and their relationship in the <scp>MRC</scp> National Survey of Health and Development
Cited by: 23
Author(s): Anastasia Pavlova, Fiona Saunders, Stella G. Muthuri, Jennifer S. Gregory, Rebecca Barr, Kathryn Martin, Rebecca Hardy, Rachel Cooper, Judith E. Adams, Diana Kuh, Richard M. Aspden
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pcbi.1007909

Perturbation biology links temporal protein changes to drug responses in a melanoma cell line
Cited by: 14
Author(s): Elin Nyman, Richard R. Stein, Xin Jing, Weiqing Wang, Benjamin Marks, Ioannis K. Zervantonakis, Anil Korkut, Nicholas Paul Gauthier, Chris Sander
Software Mentions: 4
Published: over 4 years ago

10.1186/s13014-018-1072-4

Real-time intra-fraction motion management in breast cancer radiotherapy: analysis of 2028 treatment sessions
Cited by: 42
Author(s): D. Reitz, Carl Ganter, S. Schönecker, Montserrat Pazos, P. Freislederer, Maximilian Niyazi, Ute Ganswindt, Filippo Alongi, M. J. Reiner, Claus Belka, Stefanie Corradini
Software Mentions: 4
Published: over 6 years ago

10.1121/10.0002450

Effect of masks on speech intelligibility in auralized classrooms
Cited by: 60
Author(s): Pasquale Bottalico, Silvia Murgia, Giuseppina Emma Puglisi, Arianna Astolfi, Karen Iler Kirk
Software Mentions: 4
Published: about 4 years ago

10.1121/10.0003440

Speech compensation responses and sensorimotor adaptation to formant feedback perturbations
Cited by: 11
Author(s): Inez Raharjo, Hardik Kothare, Srikantan S. Nagarajan, John F. Houde
Software Mentions: 4
Published: almost 4 years ago

10.1111/joa.13188

Anatomy of avian rictal bristles in Caprimulgiformes reveals reduced tactile function in open‐habitat, partially diurnal foraging species
Cited by: 5
Author(s): Mariane G. Delaunay, Carl Larsen, Huw Lloyd, Matthew Sullivan, Robyn A. Grant
Software Mentions: 4
Published: almost 5 years ago

10.1186/s13014-020-01572-w

Stability and reproducibility of 6013 deep inspiration breath-holds in left-sided breast cancer
Cited by: 24
Author(s): D. Reitz, Franziska Walter, S. Schönecker, P. Freislederer, Montserrat Pazos, Maximilian Niyazi, Guillaume Landry, Filippo Alongi, Edwin Bölke, Christiane Matuschek, M. J. Reiner, Claus Belka, Stefanie Corradini
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pone.0102495

Loss of Sirt1 Function Improves Intestinal Anti-Bacterial Defense and Protects from Colitis-Induced Colorectal Cancer
Cited by: 44
Author(s): Giuseppe Lo Sasso, Dongryeol Ryu, Laurent Mouchiroud, Samodha C. Fernando, Christopher L. Anderson, Elena Katsyuba, Alessandra Piersigilli, Michael O. Hottiger, Kristina Schoonjans, Johan Auwerx
Software Mentions: 4
Published: over 10 years ago

10.1111/ics.12536

Use of inline near‐infrared spectroscopy to predict the viscosity of shampoo using multivariate analysis
Cited by: 6
Author(s): Kiran Haroon, Ali Arafeh, Philip A. Martin, Thomas L. Rodgers, César Mendoza, M. R. Baker
Software Mentions: 4
Published: over 5 years ago

10.3389/fphys.2016.00327

MetaboTools: A Comprehensive Toolbox for Analysis of Genome-Scale Metabolic Models
Cited by: 37
Author(s): Maike Kathrin Aurich, Ronan M. T. Fleming, Ines Thiele
Software Mentions: 4
Published: over 8 years ago

10.1186/s13059-020-02183-0

Fission yeast condensin contributes to interphase chromatin organization and prevents transcription-coupled DNA damage
Cited by: 19
Author(s): Yasutaka Kakui, Christopher Barrington, David J. Barry, Tereza Gerguri, Xiao Fu, Paul A. Bates, Bhavin S. Khatri, Frank Uhlmann
Software Mentions: 4
Published: about 4 years ago

10.3389/fninf.2017.00031

Unsupervised Idealization of Ion Channel Recordings by Minimum Description Length: Application to Human PIEZO1-Channels
Cited by: 20
Author(s): Radhakrishnan Gnanasambandam, Morten Schak Nielsen, Christopher Nicolai, Frederick Sachs, Johannes P. Hofgaard, Jakob Kisbye Dreyer
Software Mentions: 4
Published: over 7 years ago

10.1002/2211-5463.12282

Evaluation of the metastatic potential of malignant cells by image processing of digital holographic microscopy data
Cited by: 13
Author(s): Violeta L. Calin, Mona Mihăilescu, Eugen I. Scarlat, Alexandra Valentina Baluta, Daniel Călin, Eugenia Kovács, Tudor Savopol, Mihaela G. Moisescu
Software Mentions: 4
Published: over 7 years ago

10.1111/j.1574-6976.2008.00146.x

Genome-scale models of bacterial metabolism: reconstruction and applications
Cited by: 284
Author(s): Maxime Durot, Pierre-Yves Bourguignon, Vincent Schächter
Software Mentions: 4
Published: almost 16 years ago

10.1111/gcb.13357

Biodiversity in marine invertebrate responses to acute warming revealed by a comparative multi‐omics approach
Cited by: 75
Author(s): Melody S. Clark, Ulf Sommer, Jaspreet K Sihra, Michael A. S. Thorne, Simon A. Morley, Michelle King, Mark R. Viant
Software Mentions: 4
Published: over 8 years ago

10.1111/ejn.13442

Human tau increases amyloid β plaque size but not amyloid β-mediated synapse loss in a novel mouse model of Alzheimer's disease
Cited by: 72
Author(s): Rosemary J. Jackson, Nikita Rudinskiy, Abigail G. Herrmann, Shaun Croft, JeeSoo Monica Kim, Veselina Petrova, Juan José Ramos-Rodríguez, Rose Pitstick, Susanne Wegmann, Mónica García-Alloza, George A. Carlson, Bradley T. Hyman, Tara L. Spires‐Jones
Software Mentions: 4
Published: about 8 years ago

10.1093/emph/eou018

Phylogenetic tree shapes resolve disease transmission patterns
Cited by: 75
Author(s): Caroline Colijn, Jennifer L. Gardy
Software Mentions: 4
Published: almost 11 years ago

10.1007/s10618-016-0483-9

The great time series classification bake off: a review and experimental evaluation of recent algorithmic advances
Cited by: 864
Author(s): Anthony Bagnall, Jason Lines, Aaron Bostrom, James Large, Eamonn Keogh
Software Mentions: 4
Published: about 8 years ago

10.1111/2041-210X.12533

Shedding light on the ‘dark side’ of phylogenetic comparative methods
Cited by: 57
Author(s): Natalie Cooper, Gavin H. Thomas, Richard G. FitzJohn
Software Mentions: 4
Published: over 8 years ago

10.12688/f1000research.9682.1

CELL5M: A geospatial database of agricultural indicators for Africa South of the Sahara
Cited by: 5
Author(s): Jawoo Koo, Cindy M. Cox, Melanie Bacou, Carlo Azzarri, Zhe Guo, Ulrike Wood‐Sichra, Queenie Gong, Liangzhi You
Software Mentions: 4
Published: about 8 years ago

10.1186/s12859-018-2472-z

Automated generation of genome-scale metabolic draft reconstructions based on KEGG
Cited by: 55
Author(s): Emil Karlsen, Christian Schulz, Eivind Almaas
Software Mentions: 4
Published: about 6 years ago

10.3389/fninf.2017.00010

Automatic and Precise Localization and Cortical Labeling of Subdural and Depth Intracranial Electrodes
Cited by: 29
Author(s): Chaoyi Qin, Zheng Tan, Yali Pan, Yanyan Li, Lin Wang, Liqiang Ren, Wenjing Zhou, Liang Wang
Software Mentions: 4
Published: almost 8 years ago

10.1080/23311908.2018.1424680

Brain’s functional network clustering coefficient changes in response to instruction (RTI) in students with and without reading disabilities: Multi-leveled reading brain’s RTI
Cited by: 7
Author(s): Todd L. Richards, Virginia W. Berninger, Kevin Yagle, Robert D. Abbott, Dan Peterson
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pcbi.1008286

Breaking the circularity in circular analyses: Simulations and formal treatment of the flattened average approach
Cited by: 8
Author(s): Howard Bowman, Joseph Brooks, Omid Hajilou, Alexia Zoumpoulaki, Vladimir Litvak
Software Mentions: 4
Published: about 4 years ago

10.1002/hbm.25301

White matter integrity and structural brain network topology in cerebral small vessel disease: The Hamburg city health study
Cited by: 14
Author(s): Benedikt M. Frey, Marvin Petersen, Eckhard Schlemm, Christine M. Mayer, Uta Hanning, Kristin Engelke, Jens Fiehler, Katrin Borof, Annika Jagodzinski, Christian Gerloff, Götz Thomalla, Bastian Cheng
Software Mentions: 4
Published: about 4 years ago

10.1371/journal.pcbi.1008284

Dissecting the regulatory roles of ORM proteins in the sphingolipid pathway of plants
Cited by: 5
Author(s): Adil Alsiyabi, Ariadna González-Solís, Edgar B. Cahoon, Rajib Saha
Software Mentions: 4
Published: almost 4 years ago

10.1371/journal.pcbi.1008310

Graph neural fields: A framework for spatiotemporal dynamical models on the human connectome
Cited by: 12
Author(s): Marco Aqil, Selen Atasoy, Morten L. Kringelbach, Rikkert Hindriks
Software Mentions: 4
Published: almost 4 years ago

10.1371/journal.pone.0245589

Efficient neural spike sorting using data subdivision and unification
Cited by: 3
Author(s): Masood Hassan, Rakesh Veerabhadrappa, Asim Bhatti
Software Mentions: 4
Published: almost 4 years ago

10.1371/journal.pone.0114145

A GPU-Based Implementation of the Firefly Algorithm for Variable Selection in Multivariate Calibration Problems
Cited by: 16
Author(s): Lauro Cássio Martins de Paula, Anderson S. Soares, Telma Woerle de Lima, Alexandre C. B. Delbem, Clarimar J. Coelho, Arlindo Rodrigues Galvão Filho
Software Mentions: 3
Published: about 10 years ago

10.1371/journal.pone.0171440

How important is thermodynamics for identifying elementary flux modes?
Cited by: 21
Author(s): Sabine Pérès, Mario Jolicœur, C. Moulin, Philippe Dague, Stefan Schuster
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pone.0176769

Robust auto-weighted multi-view subspace clustering with common subspace representation matrix
Cited by: 16
Author(s): Wenzhang Zhuge, Chenping Hou, Yuling Jiao, Jia Yue, Tao Hong, Dongyun Yi
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.pone.0080479

Comparison of EEG-Features and Classification Methods for Motor Imagery in Patients with Disorders of Consciousness
Cited by: 44
Author(s): Yvonne Höller, Jürgen Bergmann, Aljoscha Thomschewski, Martin Kronbichler, Peter Höller, Julia Sophia Crone, Elisabeth Schmid, Kevin Butz, Raffaele Nardone, Eugen Trinka
Software Mentions: 3
Published: about 11 years ago

10.1371/journal.pone.0094694

FTSPlot: Fast Time Series Visualization for Large Datasets
Cited by: 3
Author(s): Michael Riss
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0135636

Obstructions to Sampling Qualitative Properties
Cited by: 3
Author(s): Arne C. Reimers
Software Mentions: 3
Published: over 9 years ago

10.1186/1471-2105-10-381

Prediction of protein binding sites in protein structures using hidden Markov support vector machine
Cited by: 43
Author(s): Bin Liu, Xiaolong Wang, Lei Lin, Buzhou Tang, Qian Dong, Xuan Wang
Software Mentions: 3
Published: about 15 years ago

10.1371/journal.pone.0237750

Prediction of hepatitis E using machine learning models
Cited by: 20
Author(s): Yanhui Guo, Yi Feng, Fuli Qu, Li Zhang, Bingyu Yan, Jingjing Lv
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pone.0170920

Fitting power-laws in empirical data with estimators that work for all exponents
Cited by: 48
Author(s): Rudolf Hanel, Bernat Corominas-Murtra, Bo Liu, Stefan Thurner
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pone.0235155

Learning to localize sounds in a highly reverberant environment: Machine-learning tracking of dolphin whistle-like sounds in a pool
Cited by: 3
Author(s): Sean Woodward, Diana Reiss, Marcelo O. Magnasco
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pone.0230405

Data-based analysis, modelling and forecasting of the COVID-19 outbreak
Cited by: 668
Author(s): Cleo Anastassopoulou, Lucía Russo, Athanasios Tsakris, Constantinos Siettos
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pone.0078011

Novel Multiscale Modeling Tool Applied to Pseudomonas aeruginosa Biofilm Formation
Cited by: 64
Author(s): Matthew B. Biggs, Jason A. Papin
Software Mentions: 3
Published: about 11 years ago

10.1371/journal.pone.0221541

Stimulus-specific adaptation to behaviorally-relevant sounds in awake rats
Cited by: 11
Author(s): Amit Yaron, Maciej M. Jankowski, Ruan Badrieh, Israel Nelken
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pone.0226869

Personal response to immune checkpoint inhibitors of patients with advanced melanoma explained by a computational model of cellular immunity, tumor growth, and drug
Cited by: 12
Author(s): D. Perlstein, Ofer Shlagman, Yuri Kogan, Karin Halevi-Tobias, Alexander Yakobson, Irena Lazarev, Zvia Agur
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pone.0098941

Spectroscopic Characterization of a Green Copper Site in a Single-Domain Cupredoxin
Cited by: 26
Author(s): Magali Roger, Frédéric Biaso, Cindy J. Castelle, Marielle Bauzan, Florence Chaspoul, Élisabeth Lojou, Giuliano Sciara, Stefano Caffarri, Marie‐Thérèse Giudici‐Orticoni, Marianne Ilbert
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0036024

White Matter Differences between Healthy Young ApoE4 Carriers and Non-Carriers Identified with Tractography and Support Vector Machines
Cited by: 17
Author(s): Laurence O’Dwyer, Franck Lamberton, Silke Matura, Monika Scheibe, Julia Miller, Dan Rujescu, David Prvulovic, Harald Hampel
Software Mentions: 3
Published: over 12 years ago

10.1371/journal.pone.0056883

Visualization of SNPs with t-SNE
Cited by: 78
Author(s): Alexander Platzer
Software Mentions: 3
Published: almost 12 years ago

10.1371/journal.pone.0149921

Surface Reconstruction from Parallel Curves with Application to Parietal Bone Fracture Reconstruction
Cited by: 8
Author(s): Abdul Majeed, Abd Rahni Mt Piah, Zainor Ridzuan Yahya
Software Mentions: 3
Published: almost 9 years ago

10.1371/journal.pone.0189931

A four-state Markov model of sleep-wakefulness dynamics along light/dark cycle in mice
Cited by: 18
Author(s): Leonel F. Pérez-Atencio, Nicolás García-Aracil, Eduardo Fernández, Luis C. Barrio, Juan A. Barios
Software Mentions: 3
Published: almost 7 years ago

10.1118/1.4955438

Technical Note: <scp>spektr</scp> 3.0-A computational tool for x-ray spectrum modeling and analysis
Cited by: 153
Author(s): Joshua Punnoose, Jennifer Xu, Alejandro Sisniega, Wojciech Zbijewski, Jeffrey H. Siewerdsen
Software Mentions: 3
Published: over 8 years ago

Projects: cran: matlab

Papers Mentioning matlab 666