pypi: java | Projects | Ecosyste.ms: Papers

10.1186/s12864-021-07493-6

Chromosome-length genome assembly and structural variations of the primal Basenji dog (Canis lupus familiaris) genome
Cited by: 19
Author(s): Richard Edwards, Matthew A. Field, James M. Ferguson, Olga Dudchenko, Jens Keilwagen, Benjamin D. Rosen, Gary S. Johnson, Edward S. Rice, La Deanna Hillier, Jillian M. Hammond, Samuel G. Towarnicki, Arina D. Omer, Ruqayya Khan, Ksenia Skvortsova, Ozren Bogdanović, Robert A. Zammit, E Aiden, Wesley C. Warren, J. William O. Ballard
Software Mentions: 10
Published: over 3 years ago

10.1371/journal.pone.0253010

Community evolution on Stack Overflow
Cited by: 11
Author(s): Iraklis Moutidis, Hywel T. P. Williams
Software Mentions: 10
Published: over 3 years ago

10.3897/BDJ.5.e20530

red - an R package to facilitate species red list assessments according to the IUCN criteria
Cited by: 44
Author(s): Pedro Cardoso
Software Mentions: 8
Published: about 7 years ago

10.1038/s41598-021-94805-1

AnnoMiner is a new web-tool to integrate epigenetics, transcription factor occupancy and transcriptomics data to predict transcriptional regulators
Cited by: 4
Author(s): Arno Meiler, Fabio Marchianò, Margaux Haering, Manuela Weitkunat, Frank Schnorrer, Bianca Habermann
Software Mentions: 6
Published: over 3 years ago

10.1371/journal.pone.0246464

Is it feasible to detect FLOSS version release events from textual messages? A case study on Stack Overflow
Cited by: 0
Author(s): Artur Sokolovsky, Thomas Groß, Jaume Bacardit
Software Mentions: 6
Published: almost 4 years ago

10.1186/1477-5956-8-66

A comparison of imputation procedures and statistical tests for the analysis of two-dimensional electrophoresis data
Cited by: 7
Author(s): Jeffrey C. Miecznikowski, Srinivasan Damodaran, Kimberly F. Sellers, Richard A. Rabin
Software Mentions: 6
Published: almost 15 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

10.1186/1471-2105-12-S1-S43

HDX-Analyzer: a novel package for statistical analysis of protein structure dynamics
Cited by: 34
Author(s): Sanmin Liu, Lantao Liu, Uğur Uzuner, Xin Zhou, Manxi Gu, Weibing Shi, Yixiang Zhang, Susie Y. Dai, Joshua S. Yuan
Software Mentions: 5
Published: almost 14 years ago

10.1038/sdata.2019.30

Assessing data availability and research reproducibility in hydrology and water resources
Cited by: 56
Author(s): James H. Stagge, David E. Rosenberg, Adel M. Abdallah, Hadia Akbar, Nour A. Attallah, R.W. James
Software Mentions: 5
Published: almost 6 years ago

10.3390/s21113587

A Secure and Scalable Smart Home Gateway to Bridge Technology Fragmentation
Cited by: 3
Author(s): Ezequiel Simeoni, Eugenio Gaeta, Rebeca I. García-Betances, Dave Raggett, Alejandro Martín Medrano Gil, Diego F. Carvajal-Flores, Giuseppe Fico, María Fernanda Cabrera-Umpiérrez, María Teresa Arredondo
Software Mentions: 5
Published: over 3 years ago

10.1038/s41598-020-61158-0

Combining short and long read sequencing to characterize antimicrobial resistance genes on plasmids applied to an unauthorized genetically modified Bacillus
Cited by: 46
Author(s): Bas Berbers, Assia Saltykova, Cristina Garcı́a-Graells, Patrick Philipp, F Arella, Kathleen Marchal, Raf Winand, Kevin Vanneste, Nancy Roosens, Sigrid C. J. De Keersmaecker
Software Mentions: 5
Published: over 4 years ago

10.1002/1878-0261.12838

SIK2 represses AKT/GSK3β/β‐catenin signaling and suppresses gastric cancer by inhibiting autophagic degradation of protein phosphatases
Cited by: 17
Author(s): Xiaoman Dai, Yan‐hui Zhang, Xiaohong Lin, Xiaoxing Huang, Yi Zhang, Chaorong Xue, Wan-Nan Chen, Jian‐xin Ye, Xi Zhang Lin, Xu Lin
Software Mentions: 5
Published: about 4 years ago

10.1186/1471-2105-9-422

SIGMA2: A system for the integrative genomic multi-dimensional analysis of cancer genomes, epigenomes, and transcriptomes
Cited by: 32
Author(s): Raj Chari, Bradley P. Coe, Craig Wedseltoft, Marie Benetti, Ian M. Wilson, Emily A. Vucic, Calum MacAulay, Raymond T. Ng, Wan L. Lam
Software Mentions: 5
Published: about 16 years ago

10.1186/1471-2105-10-S10-S5

KA-SB: from data integration to large scale reasoning
Cited by: 3
Author(s): María del Mar Roldán‐García, Ismael Navas‐Delgado, Amine Kerzazi, Othmane Chniber, Joaquin J. Molina-Castro, José F. Aldana‐Montes
Software Mentions: 5
Published: about 15 years ago

10.1186/s12859-015-0670-5

QoRTs: a comprehensive toolset for quality control and data processing of RNA-Seq experiments
Cited by: 211
Author(s): Stephen W. Hartley, James C. Mullikin
Software Mentions: 5
Published: over 9 years ago

10.1371/journal.pone.0243105

Machine learning-based e-commerce platform repurchase customer prediction model
Cited by: 14
Author(s): Cheng-Ju Liu, Tienshou Huang, Ping-Tsan Ho, Jui-Chan Huang, Ching-Tang Hsieh
Software Mentions: 5
Published: about 4 years ago

10.1186/s12864-017-3810-7

The Cyprinodon variegatus genome reveals gene expression changes underlying differences in skull morphology among closely related species
Cited by: 27
Author(s): Ezra Lencer, Wesley C. Warren, Richard G. Harrison, Amy R. McCune
Software Mentions: 5
Published: over 7 years ago

10.1186/1752-0509-1-13

Systems biology by the rules: hybrid intelligent systems for pathway modeling and discovery
Cited by: 59
Author(s): William J. Bosl
Software Mentions: 4
Published: almost 18 years ago

10.1371/journal.pbio.3000333

Challenges and recommendations to improve the installability and archival stability of omics computational tools
Cited by: 53
Author(s): Serghei Mangul, Thiago Mosqueiro, Richard J. Abdill, Dat Duong, Keith Mitchell, Varuni Sarwal, Brian Hill, Jaqueline J. Brito, Russell Littman, Benjamin Statz, Angela Ka Mei Lam, Gargi Dayama, Laura Grieneisen, Lana S. Martin, Jonathan Flint, Eleazar Eskin, Ran Blekhman
Software Mentions: 4
Published: over 5 years ago

10.3390/s17061452

MinT: Middleware for Cooperative Interaction of Things
Cited by: 12
Author(s): Seongmin Jeon, Inhwa Jung
Software Mentions: 4
Published: over 7 years ago

10.1186/1471-2105-12-184

SuiteMSA: visual tools for multiple sequence alignment comparison and molecular sequence simulation
Cited by: 19
Author(s): Catherine L. Anderson, Cory L. Strope, Etsuko N. Moriyama
Software Mentions: 4
Published: over 13 years ago

10.1371/journal.ppat.1009552

Intraspecific variation in immune gene expression and heritable symbiont density
Cited by: 8
Author(s): Holly L. Nichols, Elliott B. Goldstein, Omid Saleh Ziabari, Benjamin J. Parker
Software Mentions: 4
Published: over 3 years ago

10.1002/ece3.2580

Sensitivity analysis of Repast computational ecology models with R/Repast
Cited by: 2
Author(s): Ángel Hernández García, Alfonso Rodríguez‐Patón
Software Mentions: 4
Published: about 8 years ago

10.1111/cmi.12397

The co‐transcriptome of uropathogenic<scp>E</scp>scherichia coli‐infected mouse macrophages reveals new insights into host–pathogen interactions
Cited by: 62
Author(s): Charalampos Harris Mavromatis, Nilesh J. Bokil, Makrina Totsika, Asha Kakkanat, Kolja Schaale, Carlo Vittorio Cannistraci, Tae Woo Ryu, Scott A. Beatson, Glen C. Ulett, Mark A. Schembri, Matthew J. Sweet, Timothy Ravasi
Software Mentions: 4
Published: almost 10 years ago

10.1186/1471-2105-6-219

Generalizations of Markov model to characterize biological sequences
Cited by: 12
Author(s): Junwen Wang, Sridhar Hannenhalli
Software Mentions: 3
Published: about 19 years ago

10.1186/1471-2105-6-47

Cited by: 13
Author(s): Guangjie Feng, Nick Burton, Bill Hill, Duncan Davidson, Janet Kerwin, Mark D. Scott, Susan Lindsay, Richard Baldock
Software Mentions: 3
Published: almost 20 years ago

10.3390/healthcare9030285

Multi-Parameter Vital Sign Telemedicine System Using Web Socket for COVID-19 Pandemics
Cited by: 2
Author(s): C. Pintavirooj, Tanapon Keatsamarn, Treesukon Treebupachatsakul
Software Mentions: 3
Published: over 3 years ago

10.1186/2047-2501-1-7

Dynamic integration of biological data sources using the data concierge
Cited by: 9
Author(s): Peng Gong
Software Mentions: 3
Published: almost 12 years ago

10.1186/1471-2105-13-75

Quantitatively integrating molecular structure and bioactivity profile evidence into drug-target relationship analysis
Cited by: 5
Author(s): Tianlei Xu, Ruixin Zhu, Qi Liu, Zhiwei Cao
Software Mentions: 3
Published: over 12 years ago

10.3389/fendo.2018.00666

An Optimized Approach to Perform Bone Histomorphometry
Cited by: 42
Author(s): Deeksha Malhan, Matthias Muelke, Sebastian Rosch, Annemarie B. Schaefer, Felix Merboth, David Weisweiler, Christian Heiß, Ignacio Arganda‐Carreras, Thaqif El Khassawna
Software Mentions: 3
Published: about 6 years ago

10.1038/s41389-020-00286-8

Functional screening identifies aryl hydrocarbon receptor as suppressor of lung cancer metastasis
Cited by: 21
Author(s): Silke Nothdurft, Clotilde Thumser-Henner, Frank Breitenbücher, Ross A. Okimoto, Madeleine Dorsch, Christiane A. Opitz, Ahmed Sadik, Charlotte Esser, Michael Hölzel, Saurabh Asthana, Jan Förster, Daniela Beißer, Sophie Kalmbach, Barbara M. Grüner, Trever G. Bivona, Alexander Schramm, Martin Schüler
Software Mentions: 3
Published: about 4 years ago

10.1186/1742-4682-3-13

A method for the generation of standardized qualitative dynamical systems of regulatory networks
Cited by: 212
Author(s): Luis Mendoza, Ioannis Xenarios
Software Mentions: 3
Published: over 18 years ago

10.1016/j.cels.2017.07.007

Fast, Quantitative and Variant Enabled Mapping of Peptides to Genomes
Cited by: 8
Author(s): Christoph N. Schlaffner, Georg J. Pirklbauer, Andreas Bender, Jyoti S. Choudhary
Software Mentions: 3
Published: over 7 years ago

10.1186/s12864-016-2376-0

Discovery and profiling of small RNAs responsive to stress conditions in the plant pathogen Pectobacterium atrosepticum
Cited by: 19
Author(s): Stanford Kwenda, Vladimir Gorshkov, Aiyagari Ramesh, Sanushka Naidoo, Enrico Rubagotti, Paul R. J. Birch, Lucy N. Moleleki
Software Mentions: 3
Published: almost 9 years ago

10.1016/j.cell.2013.06.040

Genome Sequencing Reveals Loci under Artificial Selection that Underlie Disease Phenotypes in the Laboratory Rat
Cited by: 148
Author(s): Santosh S. Atanur, Ana García Díaz, Klio Maratou, Allison B. Sarkis, Maxime Rotival, Laurence Gamé, Michael Tschannen, Pamela J. Kaisaki, G. Otto, Man Chun John, Thomas M. Keane, Oliver Hummel, Kathrin Saar, Weiwei Chen, Victor Guryev, Kathirvel Gopalakrishnan, Michael R. Garrett, Bina Joe, Lorena Citterio, Giuseppe Bianchi, Martin W. McBride, Anna F. Dominiczak, David J. Adams, Tadao Serikawa, Paul Flicek, Edwin Cuppen, Norbert Hübner, Enrico Petretto, Dominique Guyader, Anne E. Kwitek, Howard J. Jacob, Timothy J. Aitman
Software Mentions: 3
Published: over 11 years ago

10.1186/s12859-019-2935-x

Laboratory information management software for engineered mini-protein therapeutic workflow
Cited by: 0
Author(s): Mi-Youn Brusniak, Hector Ramos, Bernard T. Lee, James M. Olson
Software Mentions: 3
Published: over 5 years ago

10.7717/peerj-cs.532

Learner question’s correctness assessment and a guided correction method: enhancing the user experience in an interactive online learning system
Cited by: 0
Author(s): Saurabh Pal, Pijush Kanti Dutta Pramanik, Aranyak Maity, Prasenjit Choudhury
Software Mentions: 3
Published: over 3 years ago

10.1371/journal.pone.0153658

Infinity: An In-Silico Tool for Genome-Wide Prediction of Specific DNA Matrices in miRNA Genomic Loci
Cited by: 8
Author(s): Emmanuela Falcone, Luca Grandoni, Francesca Garibaldi, Isabella Manni, G. Filligoi, Giulia Piaggio, Aymone Gurtner
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.pone.0076265

Modeling the Neurovascular Niche: Unbiased Transcriptome Analysis of the Murine Subventricular Zone in Response to Hypoxic Insult
Cited by: 7
Author(s): Qi Li, Sandra Canosa, Kelly M. Flynn, Michael Michaud, Michael Krauthammer, Joseph A. Madri
Software Mentions: 3
Published: about 11 years ago

10.1186/2193-1801-2-204

A bibliometric analysis of global forest ecology research during 2002–2011
Cited by: 30
Author(s): Yajun Song, Tianzhong Zhao
Software Mentions: 3
Published: over 11 years ago

10.1007/978-3-030-51517-1_25

A Fuzzy-Ontology Based Diabetes Monitoring System Using Internet of Things
Cited by: 2
Author(s): Sondes Titi, Hadda Ben Elhadj, Lamia Chaari Fourati
Software Mentions: 3
Published: almost 5 years ago

10.1186/1471-2105-8-S1-S19

Biowep: a workflow enactment portal for bioinformatics applications
Cited by: 39
Author(s): Paolo Romano, Ezio Bartocci, G. Bertolini, Flavio De Paoli, Domenico Marra, Giancarlo Mauri, Emanuela Merelli, Luciano Milanesi
Software Mentions: 3
Published: almost 18 years ago

10.1371/journal.pone.0041541

Identification of Pathway Deregulation – Gene Expression Based Analysis of Consistent Signal Transduction
Cited by: 16
Author(s): Jakub Mieczkowski, Karolina Swiatek-Machado, Bożena Kamińska
Software Mentions: 3
Published: over 12 years ago

10.1371/journal.pone.0217631

QoS improvement with an optimum controller selection for software-defined networks
Cited by: 28
Author(s): Jehad Ali, Byeong‐hee Roh, Seungwoon Lee
Software Mentions: 3
Published: over 5 years ago

10.1186/s12862-015-0503-1

Comparing species tree estimation with large anchored phylogenomic and small Sanger-sequenced molecular datasets: an empirical study on Malagasy pseudoxyrhophiine snakes
Cited by: 53
Author(s): Sara Ruane, Christopher J. Raxworthy, Alan R. Lemmon, Emily Moriarty Lemmon, Frank T. Burbrink
Software Mentions: 3
Published: about 9 years ago

10.1186/1471-2164-10-98

SiPaGene: A new repository for instant online retrieval, sharing and meta-analyses of GeneChip® expression data
Cited by: 26
Author(s): Adriane Menßen, Götz Edinger, Joachim R. Grün, Ulrike Haase, Ria Baumgrass, Andreas Grützkau, Andreas Radbruch, G.-R. Burmester, Thomas Häupl
Software Mentions: 3
Published: almost 16 years ago

10.1186/s12859-019-2903-5

A comparison of three programming languages for a full-fledged next-generation sequencing tool
Cited by: 10
Author(s): Pascal Costanza, Charlotte Herzeel, Wilfried Verachtert
Software Mentions: 3
Published: over 5 years ago

10.1128/mSphere.00454-21

A Novel Phage Infecting Alteromonas Represents a Distinct Group of Siphophages Infecting Diverse Aquatic Copiotrophs
Cited by: 16
Author(s): Ruijie Ma, Jiayong Lai, Xiaowei Chen, Long Wang, Yue Yang, Shuzhen Wei, Nianzhi Jiao, Rui Zhang
Software Mentions: 3
Published: over 3 years ago

10.1186/s12864-016-2967-9

Genome-wide identification of potato long intergenic noncoding RNAs responsive to Pectobacterium carotovorum subspecies brasiliense infection
Cited by: 44
Author(s): Stanford Kwenda, Paul R. J. Birch, Lucy N. Moleleki
Software Mentions: 3
Published: over 8 years ago

10.1186/s13326-016-0052-6

Extracting drug-enzyme relation from literature as evidence for drug drug interaction
Cited by: 8
Author(s): Yaoyun Zhang, Hui Wu, Jingcheng Du, Jun Xu, Jingqi Wang, Cui Tao, Lang Li, Hua Xu
Software Mentions: 2
Published: over 8 years ago

10.1155/2018/9391635

Framework for Parallel Preprocessing of Microarray Data Using Hadoop
Cited by: 5
Author(s): Amirhossein Sahlabadi, Ravie Chandren Muniyandi, Mahdi Sahlabadi, Hossein Golshanbafghy
Software Mentions: 2
Published: over 6 years ago

10.1186/1471-2105-9-81

Visualizing and clustering high throughput sub-cellular localization imaging
Cited by: 15
Author(s): Nicholas A. Hamilton, Rohan D. Teasdale
Software Mentions: 2
Published: almost 17 years ago

10.1186/s12859-016-1000-2

The systems biology format converter
Cited by: 31
Author(s): Nicolás Rodríguez, Jean-Baptiste Pettit, Piero Dalle Pezze, Lü Li, Arnaud Henry, Martijn P. van Iersel, Gaël Jalowicki, Martina Kutmon, Kedar Nath Natarajan, David Tolnay, Melanie I. Stefan, Chris T. Evelo, Nicolas Le Novère
Software Mentions: 2
Published: over 8 years ago

10.1186/1471-2105-13-S17-S7

Sanjeevini: a freely accessible web-server for target directed lead molecule discovery
Cited by: 136
Author(s): B. Jayaram, Tanya Singh, Goutam Mukherjee, Abhinav Mathur, Shashank Shekhar, Vandana Shekhar
Software Mentions: 2
Published: about 12 years ago

10.1186/1471-2105-10-324

KEGGconverter: a tool for the in-silico modelling of metabolic networks of the KEGG Pathways database
Cited by: 34
Author(s): Κωνσταντίνος Μούτσελος, Ioannis Kanaris, Aristotelis Chatziioannou, Ilias Maglogiannis, Fragiskos N. Kolisis
Software Mentions: 2
Published: about 15 years ago

10.1186/1471-2105-12-78

ATAQS: A computational software tool for high throughput transition optimization and validation for selected reaction monitoring mass spectrometry
Cited by: 62
Author(s): Mi-Youn Brusniak, Sung-Tat Kwok, Mark Christiansen, D. S. Campbell, Lukas Reiter, Paola Picotti, Ulrike Kusebauch, Hector Ramos, Eric W. Deutsch, Jingchun Chen, Robert L. Moritz, Ruedi Aebersold
Software Mentions: 2
Published: over 13 years ago

10.1186/s12859-017-1953-9

HISEA: HIerarchical SEed Aligner for PacBio data
Cited by: 9
Author(s): Nilesh Khiste, Lucian Ilie
Software Mentions: 2
Published: about 7 years ago

10.1186/1471-2105-7-535

PageMan: An interactive ontology tool to generate, display, and annotate overview graphs for profiling experiments
Cited by: 309
Author(s): Björn Usadel, Axel Nagel, Dirk Steinhauser, Yves Gibon, Oliver E. Bläsing, Henning Redestig, Nese Sreenivasulu, Leonard Krall, Matthew A. Hannah, Fabien Porée, Alisdair R. Fernie, Mark Stitt
Software Mentions: 2
Published: about 18 years ago

10.1186/1471-2164-9-266

Transcriptome profiling of developmental and xenobiotic responses in a keystone soil animal, the oligochaete annelid Lumbricus rubellus
Cited by: 100
Author(s): Jennifer Owen, B Ann Hedley, Claus Svendsen, Jodie F Wren, Martijs J. Jonker, Peter K. Hankard, Linsey J Lister, Stephen R. Stürzenbaum, Andrew Morgan, David J. Spurgeon, Mark Blaxter, Peter Kille
Software Mentions: 2
Published: over 16 years ago

10.1186/1471-2164-12-506

The human genome: a multifractal analysis
Cited by: 39
Author(s): Pedro Moreno, Patricia Vélez, Ember Martínez, Luis Garreta, Néstor Fabián Díaz, Siler Amador, Irene Tischer, José Manuel Gutiérrez, Ashwinikumar K Naik, Fabián Tobar, Felipe Martínez García
Software Mentions: 2
Published: about 13 years ago

10.1186/s12864-015-2262-1

Transcriptome and proteome dynamics in larvae of the barnacle Balanus Amphitrite from the Red Sea
Cited by: 13
Author(s): Kondethimmanahalli H. Chandramouli, Sarah Al-Aqeel, Taewoo Ryu, Huoming Zhang, Loqmane Seridi, Yanal Ghosheh, Pei‐Yuan Qian, Timothy Ravasi
Software Mentions: 2
Published: about 9 years ago

10.1186/1471-2350-15-29

Expression analysis of genes and pathways associated with liver metastases of the uveal melanoma
Cited by: 30
Author(s): Yuanyuan Zhang, Yong Yang, Lei Chen, Jianhong Zhang
Software Mentions: 2
Published: over 10 years ago

10.1186/1756-0500-4-356

CastorDB: a comprehensive knowledge base for Ricinus communis
Cited by: 6
Author(s): Shalabh Thakur, Sanjay Jha, Bharat B. Chattoo
Software Mentions: 2
Published: about 13 years ago

10.1186/1752-0509-2-104

Arena3D: visualization of biological networks in 3D
Cited by: 98
Author(s): Georgios A. Pavlopoulos, Seán I. O’Donoghue, Venkata Satagopam, Theodoros Soldatos, Evangelos Pafilis, Reinhard Schneider
Software Mentions: 2
Published: about 16 years ago

10.1186/1745-6150-6-22

Evolutionary plasticity determination by orthologous groups distribution
Cited by: 9
Author(s): Rodrigo Juliani Siqueira Dalmolin, Mauro A. A. Castro, José Luiz Rybarczyk Filho, Luís Henrique Trentin de Souza, Rita Maria Cunha de Almeida, José Cláudio Fonseca Moreira
Software Mentions: 2
Published: almost 14 years ago

10.1186/s12934-020-01348-7

Gut microbial dysbiosis in individuals with Sjögren’s syndrome
Cited by: 46
Author(s): Roberto Méndez, Arjun Watane, Monika Farhangi, Kara M. Cavuoto, Tom Leith, Shrish Budree, Anat Galor, Santanu Banerjee
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pcbi.1008706

Up-down biphasic volume response of human red blood cells to PIEZO1 activation during capillary transits
Cited by: 14
Author(s): Simon Rogers, Virgilio L. Lew
Software Mentions: 2
Published: almost 4 years ago

10.1371/journal.pgen.1006245

The Contribution of Mosaic Variants to Autism Spectrum Disorder
Cited by: 96
Author(s): Donald Freed, Jonathan Pevsner
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.pone.0170210

Characterization of Dof Transcription Factors and Their Responses to Osmotic Stress in Poplar (Populus trichocarpa)
Cited by: 34
Author(s): Han Wang, Shicheng Zhao, Yuchi Gao, Jingli Yang
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pone.0163480

Enhancing Extraction of Drug-Drug Interaction from Literature Using Neutral Candidates, Negation, and Clause Dependency
Cited by: 16
Author(s): Behrouz Bokharaeian, Alberto Díaz, Hamidreza Chitsaz
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.pone.0003219

The Outcome of Phagocytic Cell Division with Infectious Cargo Depends on Single Phagosome Formation
Cited by: 15
Author(s): Yong Luo, Mauricio Alvarez, Lingchuan Xia, Arturo Casadevall
Software Mentions: 2
Published: about 16 years ago

10.1371/journal.pone.0048472

Transcriptome Sequencing and Annotation for the Jamaican Fruit Bat (Artibeus jamaicensis)
Cited by: 64
Author(s): Timothy I. Shaw, Anuj Srivastava, Wen‐Chi Chou, Liang Liu, Ann Hawkinson, Travis C. Glenn, Robert M. Adams, Tony Schountz
Software Mentions: 2
Published: about 12 years ago

10.1371/journal.pone.0003205

A Seriation Approach for Visualization-Driven Discovery of Co-Expression Patterns in Serial Analysis of Gene Expression (SAGE) Data
Cited by: 1
Author(s): Olena Morozova, Vyacheslav Morozov, Brad G. Hoffman, Cheryl D. Helgason, Marco A. Marra
Software Mentions: 2
Published: about 16 years ago

10.1371/journal.pone.0250259

Obfuscating encrypted threshold signature algorithm and its applications in cloud computing
Cited by: 1
Author(s): Yahong Li, Jian-Zhou Wei, Bin Wu, Chunli Wang, Caifen Wang, Yulei Zhang, Xiaodong Yang
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0250749

A Focal Adhesion Filament Cross-correlation Kit for fast, automated segmentation and correlation of focal adhesions and actin stress fibers in cells
Cited by: 9
Author(s): Lara Hauke, Shwetha Narasimhan, Andreas Primeßnig, Irina Kaverina, Florian Rehfeldt
Software Mentions: 2
Published: about 3 years ago

10.1371/journal.pone.0003670

Intergenic and Genic Sequence Lengths Have Opposite Relationships with Respect to Gene Expression
Cited by: 20
Author(s): Juliette Colinas, Scott C. Schmidler, Gil Bohrer, Borislav Iordanov, Philip N. Benfey
Software Mentions: 2
Published: about 16 years ago

10.1371/journal.pone.0143247

Learning Predictive Interactions Using Information Gain and Bayesian Network Scoring
Cited by: 18
Author(s): Xia Jiang, Jeremy Jao, Richard E. Neapolitan
Software Mentions: 2
Published: about 9 years ago

10.1371/journal.pone.0192812

Transcriptome-based signature predicts the effect of taxol in serous ovarian cancer
Cited by: 6
Author(s): Shunyu Hou, Jing Dai
Software Mentions: 2
Published: almost 7 years ago

10.3390/e21121196

A Survey on Using Kolmogorov Complexity in Cybersecurity
Cited by: 6
Author(s): João S. Resende, Rolando Martins, Luís Antunes
Software Mentions: 2
Published: almost 5 years ago

10.3389/fphys.2018.01605

BioLQM: A Java Toolkit for the Manipulation and Conversion of Logical Qualitative Models of Biological Networks
Cited by: 31
Author(s): Aurélien Naldi
Software Mentions: 2
Published: about 6 years ago

10.1186/2043-9113-2-1

A network flow approach to predict drug targets from microarray data, disease genes and interactome network - case study on prostate cancer
Cited by: 43
Author(s): Shih-Heng Yeh, Hsiang‐Yuan Yeh, Von-Wun Soo
Software Mentions: 2
Published: almost 13 years ago

10.1100/2012/315797

Pathway Detection from Protein Interaction Networks and Gene Expression Data Using Color-Coding Methods and A* Search Algorithms
Cited by: 8
Author(s): Cheng‐Yu Yeh, Hsiang‐Yuan Yeh, Carlos Roberto Arias, Von-Wun Soo
Software Mentions: 2
Published: almost 13 years ago

10.3390/s16122142

Evaluation of Google Glass Technical Limitations on Their Integration in Medical Systems
Cited by: 19
Author(s): Antonio Martínez-Millana, Jose-Luis Bayo-Monton, Aroa Lizondo, Carlos Fernández-Llatas
Software Mentions: 2
Published: almost 8 years ago

10.3390/s18051554

A Lightweight Protocol for Secure Video Streaming
Cited by: 20
Author(s): Algimantas Venčkauskas, Nerijus Morkevičius, Kazimieras Bagdonas, Robertas Damaševičius, Rytis Maskeliūnas
Software Mentions: 2
Published: over 6 years ago

10.3390/s18072208

A Review on Systems-Based Sensory Gloves for Sign Language Recognition State of the Art between 2007 and 2017
Cited by: 144
Author(s): Mohamed A. Ahmed, B. B. Zaidan, A. A. Zaidan, Mahmood Maher Salih, Muhammad Modi Lakulu
Software Mentions: 2
Published: over 6 years ago

10.3390/s19050992

Exploring IoT Location Information to Perform Point of Interest Recommendation Engine: Traveling to a New Geographical Region
Cited by: 6
Author(s): Xu Yang, Billy Zimba, Tingting Qiao, Keyan Gao, Xiaoya Chen
Software Mentions: 2
Published: almost 6 years ago

10.3390/s19061469

An IoT Surveillance System Based on a Decentralised Architecture
Cited by: 37
Author(s): Amilcare Francesco Santamaria, Pierfrancesco Raimondo, Mauro Tropea, Floriano De Rango, Carmine Aiello
Software Mentions: 2
Published: over 5 years ago

10.1186/s12976-015-0017-y

PDON: Parkinson’s disease ontology for representation and modeling of the Parkinson’s disease knowledge domain
Cited by: 27
Author(s): Erfan Younesi, Ashutosh Malhotra, Michaela Gündel, Philip Scordis, Alpha Tom Kodamullil, Matt Page, Burkhard Müller, Stephan Springstubbe, Ullrich Wüllner, D. Scheller, Martin Hofmann‐Apitius
Software Mentions: 2
Published: about 9 years ago

10.1186/1471-2105-9-258

A simple and robust method for connecting small-molecule drugs using gene-expression signatures
Cited by: 89
Author(s): Shudong Zhang, Timothy W. Gant
Software Mentions: 1
Published: over 16 years ago

10.1186/s40064-016-3732-x

Critical evaluation of reverse engineering tool Imagix 4D!
Cited by: 2
Author(s): Rashmi Yadav, Ravindra Patel, Abhay Kothari
Software Mentions: 1
Published: about 8 years ago

10.1186/1471-2148-8-118

Rooted triple consensus and anomalous gene trees
Cited by: 60
Author(s): Gregory Ewing, Ingo Ebersberger, Heiko A. Schmidt, Arndt von Haeseler
Software Mentions: 1
Published: almost 17 years ago

10.1371/journal.pone.0219658

A deterministic approach for rapid identification of the critical links in networks
Cited by: 4
Author(s): Rostislav Vodák, Michal Bíl, Tomáš Svoboda, Zuzana Křivánková, Jan Kubeček, Tomáš Rebok, Petr Hliněný
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2148-6-40

Cited by: 116
Author(s): Antonio Carvajal-Rodríguez, Emilio Rolán-Álvarez
Software Mentions: 1
Published: almost 19 years ago

10.1186/1471-2105-7-195

A database and tool, IM Browser, for exploring and integrating emerging gene and protein interaction data for Drosophila
Cited by: 29
Author(s): Svetlana Pacifico, Guozhen Liu, Stephen T. Guest, Jodi R. Parrish, Farshad Fotouhi, Russell L. Finley
Software Mentions: 1
Published: over 18 years ago

Projects: pypi: java

Papers Mentioning java 165