Ecosyste.ms: Papers

10.1128/mBio.02691-19

Modeling of the Coral Microbiome: the Influence of Temperature and Microbial Network
Cited by: 25
Author(s): Laís Farias Oliveira Lima, Maya Weissman, Micheal Reed, Bhavya Papudeshi, Amanda T. Alker, Megan M. Morris, Robert A. Edwards, Samantha J. de Putron, Naveen K. Vaidya, Elizabeth A. Dinsdale
Software Mentions: 5
Published: over 4 years ago

10.1038/s41598-020-58103-6

Automatic vocal tract landmark localization from midsagittal MRI data
Cited by: 10
Author(s): Mohammad Eslami, Christiane Neuschaefer‐Rube, Antoine Serrurier
Software Mentions: 5
Published: almost 5 years ago

10.3389/fimmu.2020.607314

Genetic Dissection of the Regulatory Mechanisms of Ace2 in the Infected Mouse Lung
Cited by: 11
Author(s): Fuyi Xu, Jun Gao, Silke Bergmann, Amy C. Sims, David G. Ashbrook, Ralph S. Baric, Yan Cui, Colleen B. Jonsson, Kui Li, Robert W. Williams, Klaus Schughart, Lu Lu
Software Mentions: 5
Published: almost 4 years ago

10.1186/1471-2164-13-591

Copynumber: Efficient algorithms for single- and multi-track copy number segmentation
Cited by: 229
Author(s): Gro Nilsen, Knut Liestøl, Peter Van Loo, Hans Kristian Moen Vollan, Marianne Brodtkorb Eide, Oscar M. Rueda, Suet Feung Chin, Roslin Russell, Lars Oliver Baumbusch, Carlos Caldas, Anne Lise Børresen-Dale, Ole Christian Lingjærde
Software Mentions: 4
Published: about 12 years ago

10.1186/s12859-017-1663-3

“gnparser”: a powerful parser for scientific names based on Parsing Expression Grammar
Cited by: 10
Author(s): Dmitry Mozzherin, Alexander A. Myltsev, David J. Patterson
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pone.0205668

Comprehensive evaluation of candidate reference genes for real-time quantitative PCR (RT-qPCR) data normalization in nutri-cereal finger millet [Eleusine Coracana (L.)]
Cited by: 10
Author(s): Palakolanu Sudhakar Reddy, Mahamaya G. Dhaware, D. Srinivas Reddy, Bommineni Pradeep Reddy, Kummari Divya, Kiran K. Sharma, Pooja Bhatnagar‐Mathur
Software Mentions: 4
Published: about 6 years ago

10.3389/fcimb.2020.594778

Biliary Microbial Structure of Gallstone Patients With a History of Endoscopic Sphincterotomy Surgery
Cited by: 6
Author(s): Haikang Shen, Juanjuan Zhu, Fuqiang Ye, Danyi Xu, Liang Fang, Jianfeng Yang, Huijie Lv, Qifeng Lou, Hangbin Jin, Ming Ni, Xiaofeng Zhang
Software Mentions: 4
Published: almost 4 years ago

10.1186/1471-2105-12-S8-S2

The gene normalization task in BioCreative III
Cited by: 109
Author(s): Zhiyong Lu, Hung-Yu Kao, Chih-Hsuan Wei, Minlie Huang, Jingchen Liu, Chung‐Hao Kuo, Chun‐Nan Hsu, Richard Tzong-Han Tsai, Hong-Jie Dai, Naoaki Okazaki, Han-Cheol Cho, Martin Gerner, Illés Solt, Shashank Agarwal, Feifan Liu, Dina Vishnyakova, Patrick Ruch, Martin Romacker, Fabio Rinaldi, Sanmitra Bhattacharya, Padmini Srinivasan, Hongfang Liu, Manabu Torii, Sérgio Matos, David Campos, Karin Verspoor, Kevin Livingston, W. John Wilbur
Software Mentions: 3
Published: about 13 years ago

10.1186/s13059-018-1552-8

Comparative genomics reveals the distinct evolutionary trajectories of the robust and complex coral lineages
Cited by: 56
Author(s): Hua Ying, Ira Cooke, Susanne Sprungala, Weiwen Wang, David C. Hayward, Yurong Tang, Gavin A. Huttley, Eldon E. Ball, Sylvain Forêt, David J. Miller
Software Mentions: 3
Published: about 6 years ago

10.1016/j.mec.2021.e00177

mfapy: An open-source Python package for 13C-based metabolic flux analysis
Cited by: 9
Author(s): Fumio Mizutani, Kousuke Maeda, Takeo Taniguchi, Yuya Kondo, Futa Yatabe, Nobuyuki Okahashi, Hiroshi Shimizu
Software Mentions: 3
Published: almost 3 years ago

10.1186/1471-2105-12-S8-S6

Soft tagging of overlapping high confidence gene mention variants for cross-species full-text gene normalization
Cited by: 4
Author(s): Chung‐Hao Kuo, Maurice Ht Ling, Chun‐Nan Hsu
Software Mentions: 3
Published: about 13 years ago

10.1371/journal.pone.0204493

Assessing the severity of positive valence symptoms in initial psychiatric evaluation records: Should we use convolutional neural networks?
Cited by: 12
Author(s): Hong-Jie Dai, Jitendra Jonnagaddala
Software Mentions: 3
Published: about 6 years ago

10.1186/s12911-019-0996-4

Family member information extraction via neural sequence labeling models with different tag schemes
Cited by: 11
Author(s): Hong-Jie Dai
Software Mentions: 3
Published: almost 5 years ago

10.1038/s41598-020-80430-x

DNA sequences performs as natural language processing by exploiting deep learning algorithm for the identification of N4-methylcytosine
Cited by: 18
Author(s): Abdul Wahab, Hilal Tayara, Zhenyu Xuan, Kil To Chong
Software Mentions: 3
Published: almost 4 years ago

10.1038/s41598-021-93122-x

Quantum inspired community detection for analysis of biodiversity change driven by land-use conversion and climate change
Cited by: 2
Author(s): Sana Akbar, Sri Khetwat Saritha
Software Mentions: 3
Published: over 3 years ago

10.3390/ijerph18062918

A Data Augmentation-Based Evaluation System for Regional Direct Economic Losses of Storm Surge Disasters
Cited by: 7
Author(s): Haiyan Sun, Jin Wang, Wentao Ye
Software Mentions: 3
Published: over 3 years ago

10.1371/journal.pone.0253200

Detection of myocardial ischemia by intracoronary ECG using convolutional neural networks
Cited by: 5
Author(s): Marius Reto Bigler, Christian Seiler
Software Mentions: 2
Published: over 3 years ago

10.1186/gb-2008-9-s2-s1

Evaluation of text-mining systems for biology: overview of the Second BioCreative community challenge
Cited by: 176
Author(s): Martin Krallinger, Alexander A. Morgan, Larry Smith, Florian Leitner, Lorraine Tanabe, W. John Wilbur, Lynette Hirschman, Alfonso Valencia
Software Mentions: 2
Published: almost 17 years ago

10.1093/database/baw111

NTTMUNSW BioC modules for recognizing and normalizing species and gene/protein mentions
Cited by: 4
Author(s): Hong Jie Dai, Onkar Singh, Jitendra Jonnagaddala, Emily Chia Yu Su
Software Mentions: 2
Published: almost 9 years ago

10.1186/s12870-021-03061-y

Mapping QTL for spike fertility and related traits in two doubled haploid wheat (Triticum aestivum L.) populations
Cited by: 8
Author(s): Nicole Pretini, Leonardo Sebastián Vanzetti, Ignacio Ismael Terrile, Guillermo Manuel Donaire, Fernanda G. González
Software Mentions: 2
Published: over 3 years ago

10.1186/s12884-021-03686-9

Maternal and neonatal data collection systems in low- and middle-income countries for maternal vaccines active safety surveillance systems: A scoping review
Cited by: 6
Author(s): Mabel Berrueta, Agustín Ciapponi, Ariel Bardach, Federico Rodríguez Cairoli, Fabricio J. Castellano, Xu Xiong, Andy Stergachis, Sabra Zaraa, Ajoke Sobanjo-ter Meulen, Pierre Buekens, Judith Absalon, Steve Anderson, Fernando Althabe, Shabir А. Madhi, Elizabeth M. McClure, Flor M. Muñoz, Kissa W. Mwamwitwa, Annettee Nakimuli, Jennifer C. Nelson, Lisa Noguchi, Lakshmi Panagiotakopoulos, Esperança Sevene, Patrick L. F. Zuber, María Belizán, Eduardo Bergel, Álvaro Ciganda, Daniel Comandé, Verónica Pingray
Software Mentions: 2
Published: over 3 years ago

10.1186/1747-5333-3-1

An open-source framework for large-scale, flexible evaluation of biomedical text mining systems
Cited by: 40
Author(s): William A. Baumgartner, K. Bretonnel Cohen, Lawrence Hunter
Software Mentions: 2
Published: almost 17 years ago

10.1371/journal.pone.0038695

Group Normalization for Genomic Data
Cited by: 5
Author(s): Mahmoud Ghandi, M Beer
Software Mentions: 2
Published: about 12 years ago

10.3390/s18041205

Big Data Clustering via Community Detection and Hyperbolic Network Embedding in IoT Applications
Cited by: 8
Author(s): Vasileios Karyotis, Konstantinos Tsitseklis, Konstantinos Sotiropoulos, Symeon Papavassiliou
Software Mentions: 2
Published: over 6 years ago

10.1186/1471-2202-10-44

The genetic control of neocortex volume and covariation with neocortical gene expression in mice
Cited by: 30
Author(s): Shiv M Gaglani, Lu Lu, Robert W. Williams, Glenn D. Rosen
Software Mentions: 2
Published: over 15 years ago

10.3390/s20195559

Fusing Visual Attention CNN and Bag of Visual Words for Cross-Corpus Speech Emotion Recognition
Cited by: 22
Author(s): Minjie Seo, Myung Ho Kim
Software Mentions: 2
Published: about 4 years ago

10.3390/s21061950

LOCATE-US: Indoor Positioning for Mobile Devices Using Encoded Ultrasonic Signals, Inertial Sensors and Graph-Matching
Cited by: 16
Author(s): David Gualda, María Carmen Pérez-Rubio, J. Ureña, Sergio Pérez-Bachiller, J.M. Villadangos, Álvaro Hernández, J.J. Garcı́a, A. Jiménez
Software Mentions: 2
Published: over 3 years ago

10.1186/1471-2164-11-614

Female-biased expression of long non-coding RNAs in domains that escape X-inactivation in mouse
Cited by: 75
Author(s): Björn Reinius, Chengxi Shi, Liu Hengshuo, Kuljeet Singh Sandhu, Katarzyna J. Radomska, Glenn D. Rosen, Lu Lu, Klas Kullander, Robert W. Williams, Elena Jazin
Software Mentions: 2
Published: almost 15 years ago

10.1371/journal.pone.0148451

Identification and Validation of Reference Genes and Their Impact on Normalized Gene Expression Studies across Cultivated and Wild Cicer Species
Cited by: 37
Author(s): D. Srinivas Reddy, Pooja Bhatnagar‐Mathur, Palakolanu Sudhakar Reddy, Katamreddy Sri Cindhuri, Adusumalli Sivaji Ganesh, Kiran K. Sharma
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0252422

The role of endoplasmic reticulum in in vivo cancer FDG kinetics
Cited by: 3
Author(s): Sara Sommariva, Mara Scussolini, Vanessa Cossu, Cecilia Marini, Gianmario Sambuceti, Michele Piana
Software Mentions: 2
Published: over 3 years ago

10.1186/1475-2875-12-290

Examining the impact of larval source management and insecticide-treated nets using a spatial agent-based model of Anopheles gambiae and a landscape generator tool
Cited by: 19
Author(s): Samsul Arifin, Gregory R. Madey, Frank H. Collins
Software Mentions: 2
Published: about 11 years ago

10.3390/e22040425

Identifying Communities in Dynamic Networks Using Information Dynamics
Cited by: 8
Author(s): Zejun Sun, Jinfang Sheng, Bin Wang, Aman Ullah, Faiza Riaz Khawaja
Software Mentions: 2
Published: over 4 years ago

10.1186/s40793-015-0032-y

High quality draft genome sequence of Flavobacterium rivuli type strain WB 3.3-2T (DSM 21788T), a valuable source of polysaccharide decomposing enzymes
Cited by: 13
Author(s): Richard L. Hahnke, Erko Stackebrandt, Jan P. Meier‐Kolthoff, Brian J. Tindall, Sixing Huang, Manfred Rohde, Alla Lapidus, James Han, Stephan Trong, Matthew Haynes, T. B. K. Reddy, Marcel Huntemann, Amrita Pati, Natalia Ivanova, Konstantinos Mavromatis, Victor Markowitz, Tanja Woyke, Markus Göker, Nikos C. Kyrpides, Hans‐Peter Klenk
Software Mentions: 2
Published: over 9 years ago

10.1038/srep26914

Self-Assembly of Hydrofluorinated Janus Graphene Monolayer: A Versatile Route for Designing Novel Janus Nanoscrolls
Cited by: 17
Author(s): Yakang Jin, Qingzhong Xue, Lei Zhu, Xiaofang Li, Xin Pan, Jianqiang Zhang, Xing Wang, Tiantian Wu, Zilong Liu
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0054325

Evaluation of Physical and Functional Protein-Protein Interaction Prediction Methods for Detecting Biological Pathways
Cited by: 13
Author(s): Vijaykumar Yogesh Muley, Akash Ranjan
Software Mentions: 2
Published: almost 12 years ago

10.1186/gb-2008-9-s2-s10

Automating curation using a natural language processing pipeline
Cited by: 17
Author(s): Beatrice Alex, Claire Grover, Barry Haddow, Mijail Kabadjov, Ewan Klein, Michael Matthews, Richard Tobin, Xinglong Wang
Software Mentions: 2
Published: almost 17 years ago

10.1155/2020/8861110

Study on Network Pharmacological Analysis and Preliminary Validation to Understand the Mechanisms of Plantaginis Semen in Treatment of Gouty Nephropathy
Cited by: 3
Author(s): Hong Zhao, Gao Qi, Lingzhou Kong, Weiwei Tang, Yingying Jiao, Yuliang Wang, Yu Zhang, Yao Feng
Software Mentions: 1
Published: almost 4 years ago

10.1002/fsn3.870

Skin anti‐inflammatory activity of rose petal extract (<i>Rosa gallica</i>) through reduction of <scp>MAPK</scp> signaling pathway
Cited by: 31
Author(s): Myung-hee Lee, Tae Gyu Nam, Inil Lee, Eun Ju Shin, Ahram Han, Pomjoo Lee, Sung‐Young Lee, Tae‐Gyu Lim
Software Mentions: 1
Published: about 6 years ago

10.3389/fbioe.2017.00067

Identification of Directed Interactions in Kinematic Data during Running
Cited by: 0
Author(s): Giovana Yuko Nakashima, Theresa Helissa Nakagawa, Ademir dos Santos, Fábio Viadanna Serrão, Michel Bessani, Carlos Dias Maciel
Software Mentions: 1
Published: about 7 years ago

10.3389/fcvm.2020.582949

The Genetic Dissection of Ace2 Expression Variation in the Heart of Murine Genetic Reference Population
Cited by: 9
Author(s): Fuyi Xu, Jun Gao, Undral Munkhsaikhan, Ning Li, Qun Gu, Joseph F. Pierre, Athena Starlard‐Davenport, Jeffrey A. Towbin, Yan Cui, Enkhsaikhan Purevjav, Lu Lu
Software Mentions: 1
Published: almost 4 years ago

10.3389/fgene.2021.659012

Genetic Modulation of Initial Sensitivity to Δ9-Tetrahydrocannabinol (THC) Among the BXD Family of Mice
Cited by: 1
Author(s): Cory Parks, Chris M. Rogers, Pjotr Prins, Robert W. Williams, Hao Chen, Byron C. Jones, Bob M. Moore, Megan K. Mulligan
Software Mentions: 1
Published: over 3 years ago

10.3389/fgene.2018.00370

Genetic Contribution to Initial and Progressive Alcohol Intake Among Recombinant Inbred Strains of Mice
Cited by: 15
Author(s): Megan K. Mulligan, Wenyuan Zhao, Morgan Dickerson, Danny Arends, Pjotr Prins, Sonia A. Cavigelli, Elena Terenina, Pierre Mormède, Lu Lu, Byron C. Jones
Software Mentions: 1
Published: about 6 years ago

10.3389/fnmol.2019.00128

Comparison and Functional Genetic Analysis of Striatal Protein Expression Among Diverse Inbred Mouse Strains
Cited by: 12
Author(s): Cory Parks, Francesco Giorgianni, Byron C. Jones, Šárka Beranová-Giorgianni, Bob M. Moore, Megan K. Mulligan
Software Mentions: 1
Published: over 5 years ago

10.3389/fneur.2021.683275

Genetic Polymorphisms in Enzymes Involved in One-Carbon Metabolism and Anti-epileptic Drug Monotherapy on Homocysteine Metabolism in Patients With Epilepsy
Cited by: 6
Author(s): Shaofang Zhu, Guanzhong Ni, Lisen Sui, Yiran Zhao, Xiaoxu Zhang, Qilin Dai, Aohan Chen, Wanrong Lin, Yinchao Li, Min Huang, Liemin Zhou
Software Mentions: 1
Published: over 3 years ago

10.3389/fpls.2021.695110

Modeling Agrobacterium-Mediated Gene Transformation of Tobacco (Nicotiana tabacum)—A Model Plant for Gene Transformation Studies
Cited by: 18
Author(s): Gniewko Niedbała, Mohsen Niazian, Paolo Sabbatini
Software Mentions: 1
Published: over 3 years ago

10.3389/fpsyt.2018.00204

Korsakoff Syndrome in Non-alcoholic Psychiatric Patients. Variable Cognitive Presentation and Impaired Frontotemporal Connectivity
Cited by: 4
Author(s): Georgios Nikolakaros, Timo Kurki, Janina Paju, Sokratis G. Papageorgiou, Risto Vataja, Tuula Ilonen
Software Mentions: 1
Published: over 6 years ago

10.3389/fpsyg.2013.00160

A Cross-Species Study of Gesture and Its Role in Symbolic Development: Implications for the Gestural Theory of Language Evolution
Cited by: 22
Author(s): Kristen Gillespie-Lynch, Patricia M. Greenfield, Yunping Feng, Sue Savage‐Rumbaugh, Heidi Lyn
Software Mentions: 1
Published: almost 12 years ago

10.1186/gb-2008-9-s2-s13

OntoGene in BioCreative II
Cited by: 48
Author(s): Fabio Rinaldi, Thomas Kappeler, Kaarel Kaljurand, Gerold Schneider, Manfred Klenner, Simon Clematide, Michael Heß, Jean-Marc von Allmen, Pierre Parisot, Martin Romacker, Thérèse Vachon
Software Mentions: 1
Published: almost 17 years ago

10.1186/gb-2008-9-s2-s9

Concept recognition for extracting protein interaction relations from biomedical text
Cited by: 43
Author(s): William A. Baumgartner, Zhiyong Lu, H. L. Johnson, J. Gregory Caporaso, Jesse Paquette, Anna Lindemann, Elizabeth K. White, Olga Medvedeva, K. Bretonnel Cohen, Lawrence Hunter
Software Mentions: 1
Published: about 16 years ago

10.1186/1745-7580-6-2

Coregulation mapping based on individual phenotypic variation in response to virus infection
Cited by: 3
Author(s): German Nudelman, Yongchao Ge, Jianzhong Hu, Manish Kumar, Jeremy Seto, Jamie L. Duke, Steven H. Kleinstein, F. Hayot, Stuart C. Sealfon, James G. Wetmur
Software Mentions: 1
Published: almost 15 years ago

10.1002/jbm4.10241

Genetic Dissection of Femoral and Tibial Microarchitecture
Cited by: 6
Author(s): Lu Lu, Jinsong Huang, Fuyi Xu, Zhousheng Xiao, Jing Wang, Bing Zhang, Nicolae Valentin David, Danny Arends, Weikuan Gu, Cheryl Ackert‐Bicknell, Olivia L. Sabik, Charles R. Farber, L. Darryl Quarles, Robert W. Williams
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.ppat.1000042

An Unbiased Systems Genetics Approach to Mapping Genetic Loci Modulating Susceptibility to Severe Streptococcal Sepsis
Cited by: 32
Author(s): Nourtan F. Abdeltawab, Ramy K. Aziz, Rita G. Kansal, Sarah Rowe, Yin Su, Lidia A. Gardner, Charity Brannen, Mohammed M. Nooh, Ramy R. Attia, Hossam Abdelsamed, William L. Taylor, Lu Lu, Robert W. Williams, Malak Kotb
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.ppat.1005732

Genetic Architecture of Group A Streptococcal Necrotizing Soft Tissue Infections in the Mouse
Cited by: 28
Author(s): Karthickeyan Chella Krishnan, Santhosh Mukundan, Jeyashree Alagarsamy, Junguk Hur, Suba Nookala, Nikolai Siemens, Mattias Svensson, Ole Hyldegaard, Anna Norrby‐Teglund, Malak Kotb
Software Mentions: 1
Published: over 8 years ago

10.1098/rspb.2017.1059

Offspring genes indirectly influence sibling and maternal behavioural strategies over resource share
Cited by: 19
Author(s): David G. Ashbrook, Naorin Sharmin, Reinmar Hager
Software Mentions: 1
Published: about 7 years ago

10.1186/s12978-020-01009-3

Looking beyond the numbers: quality assurance procedures in the Global Network for Women’s and Children’s Health Research Maternal Newborn Health Registry
Cited by: 5
Author(s): Ana Garcés, Emily MacGuire, Holly Franklin, Norma Alfaro, Gustavo Arroyo, Lester Figueroa, Shivaprasad S. Goudar, Sarah Saleem, Fabian Esamai, Archana Patel, Elwyn Chomba, Antoinette Tshefu, Rashidul Haque, Jacquelyn Patterson, Edward A. Liechty, Richard Derman, Waldemar A. Carlo, William A. Petri, Elizabeth M McClure, Robert L. Goldenberg, Patricia L. Hibberd, Nancy F. Krebs
Software Mentions: 1
Published: about 4 years ago

10.1038/s41597-019-0049-y

A dataset of egg size and shape from more than 6,700 insect species
Cited by: 24
Author(s): Samuel H. Church, Seth Donoughe, Bruno A. S. de Medeiros, Cassandra G. Extavour
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-017-00587-w

Improving the Efficiency and Effectiveness of Community Detection via Prior-Induced Equivalent Super-Network
Cited by: 11
Author(s): Liang Yang, Di Jin, Dongxiao He, Huazhu Fu, Xiaochun Cao, Françoise Fogelman‐Soulié
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-017-07727-2

A Post-Processing Method for Three-Dimensional Electrical Impedance Tomography
Cited by: 42
Author(s): Sébastien Martin
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-017-13925-9

Reference genes validation in Phenacoccus solenopsis under various biotic and abiotic stress conditions
Cited by: 32
Author(s): Shashi Arya, Gourav Jain, Santosh Kumar Upadhyay, . Sarita, Harpal Singh, S. K. Dixit, Praveen Chandra Verma
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-018-25153-w

Artifact Removal using Improved GoogLeNet for Sparse-view CT Reconstruction
Cited by: 105
Author(s): Sihong Xie, Xinyu Zheng, Yang Chen, Lizhe Xie, Jin Liu, Yudong Zhang, Jun Yan, Hu Zhu, Yining Hu
Software Mentions: 1
Published: over 6 years ago

10.1155/2014/540679

Gene Network Biological Validity Based on Gene-Gene Interaction Relevance
Cited by: 6
Author(s): Francisco Gómez-Vela, Norberto Díaz–Díaz
Software Mentions: 1
Published: almost 11 years ago

10.3390/s110201489

Estimating Three-Dimensional Orientation of Human Body Parts by Inertial/Magnetic Sensing
Cited by: 258
Author(s): A.M. Sabatini
Software Mentions: 1
Published: almost 14 years ago

10.3390/s20154237

Geometric Nonlinear Model for Prediction of Frequency–Temperature Behavior of SAW Devices for Nanosensor Applications
Cited by: 6
Author(s): Zhenglin Chen, Qiaozhen Zhang, Congcong Li, Sulei Fu, Xiaojun Qiu, Xiaoyu Wang, Haodong Wu
Software Mentions: 1
Published: over 4 years ago

10.3390/s21134558

The Quadrature Method: A Novel Dipole Localisation Algorithm for Artificial Lateral Lines Compared to State of the Art
Cited by: 2
Author(s): Daniël M. Bot, Ben J. Wolf, Sietse M. van Netten
Software Mentions: 1
Published: over 3 years ago

10.3390/s21134556

Esophagus Segmentation in CT Images via Spatial Attention Network and STAPLE Algorithm
Cited by: 4
Author(s): Minh-Trieu Tran, Soo-Hyung Kim, Hyung-Jeong Yang, Guee-Sang Lee, Il‐Seok Oh, Sae-Ryung Kang
Software Mentions: 1
Published: over 3 years ago

10.1155/2021/5528160

Bayesian Fully Convolutional Networks for Brain Image Registration
Cited by: 5
Author(s): Kunpeng Cui, Panpan Fu, Yinghao Li, Yusong Lin
Software Mentions: 1
Published: over 3 years ago

10.7554/eLife.51061

Coordination of tissue cell polarity by auxin transport and signaling
Cited by: 53
Author(s): Carla Verna, Sree Janani Ravichandran, Megan G. Sawchuk, Nguyễn Mạnh Linh, Enrico Scarpella
Software Mentions: 1
Published: almost 5 years ago

10.18632/oncotarget.21243

Near-infrared photothermal therapy using anti-EGFR-gold nanorod conjugates for triple negative breast cancer
Cited by: 29
Author(s): Meihua Zhang, Hoe Suk Kim, Tiefeng Jin, Jisu Woo, Yin Ji Piao, Woo Kyung Moon
Software Mentions: 1
Published: about 7 years ago

10.1111/acel.12911

Identification of stable senescence‐associated reference genes
Cited by: 29
Author(s): Alejandra Hernandez‐Segura, Richard Rubingh, Marco Demaria
Software Mentions: 1
Published: almost 6 years ago

10.1177/20556683211021527

Dartanan: Prototype evaluations of a serious game to engage children in the calibration of their hearing aid functionalities
Cited by: 1
Author(s): Madeline Hallewell, Davide Salanitri, Mirabelle D’Cruz, Sue Cobb, Lorenzo Picinali, Emily Frost, Stefano Tamascelli, Harshada Patel
Software Mentions: 1
Published: almost 4 years ago

10.1186/1471-2105-12-S8-S7

Multi-stage gene normalization for full-text articles with context-based species filtering for dynamic dictionary entry selection
Cited by: 4
Author(s): Richard Tzong-Han Tsai, Po‐Ting Lai
Software Mentions: 1
Published: about 13 years ago

10.1186/1471-2105-12-60

Dynamic programming re-ranking for PPI interactor and pair extraction in full-text articles
Cited by: 4
Author(s): Richard Tzong-Han Tsai, Po‐Ting Lai
Software Mentions: 1
Published: over 13 years ago

10.1186/1471-2105-16-S4-S3

The relative vertex clustering value - a new criterion for the fast discovery of functional modules in protein interaction networks
Cited by: 3
Author(s): Zina Ibrahim, Alioune Ngom
Software Mentions: 1
Published: over 9 years ago

10.1186/1471-2105-12-S8-S1

Overview of the BioCreative III Workshop
Cited by: 83
Author(s): Cecilia N. Arighi, Zhiyong Lu, Martin Krallinger, K. Bretonnel Cohen, W. John Wilbur, Alfonso Valencia, Lynette Hirschman, Cathy H. Wu
Software Mentions: 1
Published: about 13 years ago

10.1186/1471-2164-15-193

Sex-dependent genetic effects on immune responses to a parasitic nematode
Cited by: 15
Author(s): Kelly S. Hayes, Reinmar Hager, Richard K. Grencis
Software Mentions: 1
Published: over 10 years ago

10.1186/s12864-015-2127-7

Mapping of genetic loci that modulate differential colonization by Escherichia coli O157:H7 TUV86-2 in advanced recombinant inbred BXD mice
Cited by: 10
Author(s): Lisa M. Russo, Nourtan F. Abdeltawab, A D O'Brien, Malak Kotb, Angela R. Melton‐Celsa
Software Mentions: 1
Published: almost 9 years ago

10.1186/1752-0509-4-137

Signaling network of dendritic cells in response to pathogens: a community-input supported knowledgebase
Cited by: 33
Author(s): Sangita Patil, Hanna Pinças, Jeremy Seto, German Nudelman, Irina Nudelman, Stuart C. Sealfon
Software Mentions: 1
Published: about 14 years ago

10.3897/BDJ.4.e8080

Challenges with using names to link digital biodiversity information
Cited by: 40
Author(s): David J. Patterson, Dmitry Mozzherin, David Shorthouse, Anne E. Thessen
Software Mentions: 1
Published: over 8 years ago

10.1186/1745-6150-8-23

Recognizing short coding sequences of prokaryotic genome using a novel iteratively adaptive sparse partial least squares algorithm
Cited by: 6
Author(s): Chen Sun, Chunying Zhang, Kai Song
Software Mentions: 1
Published: about 11 years ago

10.1155/2013/871941

Molybdate Reduction to Molybdenum Blue by an Antarctic Bacterium
Cited by: 27
Author(s): Siti Aqlima Ahmad, Mohd Yunus Shukor, Nor Aripin Shamaan, Walter P. Mac Cormack, Mohd Arif Syed
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pcbi.1004797

Annealed Importance Sampling for Neural Mass Models
Cited by: 11
Author(s): Will D. Penny, Biswa Sengupta
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pgen.0020063

Genome Network and FANTOM3: Assessing the Complexity of the Transcriptome
Cited by: 29
Author(s): Yoshihide Hayashizaki, Piero Carninci
Software Mentions: 1
Published: over 18 years ago

10.1371/journal.pone.0188993

A novel post-processing scheme for two-dimensional electrical impedance tomography based on artificial neural networks
Cited by: 12
Author(s): Sébastien Martin
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pone.0012912

From Knockouts to Networks: Establishing Direct Cause-Effect Relationships through Graph Analysis
Cited by: 75
Author(s): Andréa Pinna, Nicola Soranzo, Alberto de la Fuente
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0103302

Online Spatial Normalization for Real-Time fMRI
Cited by: 3
Author(s): Xiaofei Li, Li Yao, Qing Ye, Xiaojie Zhao
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0256753

Testing silicone digit extensions as a way to suppress natural sensation to evaluate supplementary tactile feedback
Cited by: 0
Author(s): Leonard F. Engels, Leonardo Cappello, Anke Fischer, Christian Cipriani
Software Mentions: 1
Published: about 3 years ago

10.1371/journal.pone.0092342

A Forward Phenotypically Driven Unbiased Genetic Analysis of Host Genes That Moderate Herpes Simplex Virus Virulence and Stromal Keratitis in Mice
Cited by: 17
Author(s): Richard Thompson, Robert W. Williams, Malak Kotb, Nancy Sawtell
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0222911

Multidrug-resistant profile and prevalence of extended spectrum β-lactamase and carbapenemase production in fermentative Gram-negative bacilli recovered from patients and specimens referred to National Reference Laboratory, Addis Ababa, Ethiopia
Cited by: 42
Author(s): Degefu Beyene, Adane Bitew, Surafel Fantew, Adane Mihret, Martin Evans
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0018612

Identifying Human Disease Genes through Cross-Species Gene Mapping of Evolutionary Conserved Processes
Cited by: 17
Author(s): Martin Poot, Alexandra Badea, Robert W. Williams, Martien Kas
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0200196

The quantitative measure and statistical distribution of fame
Cited by: 5
Author(s): Edward Ramirez, Stephen J. Hagen
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0228396

Clinical characteristics of peripheral venous catheter-associated gram-negative bloodstream infection among patients with malignancy
Cited by: 8
Author(s): Teikichi A. Sasaki, Sohei Harada, Shungo Yamamoto, Daisuke Ohkushi, Brian Hayama, Koichi Takeda, Kosuke Hoashi, Joji Shiotani, Kazumi Takehana, Yohei Doi
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0182215

Effects of individualized electrical impedance tomography and image reconstruction settings upon the assessment of regional ventilation distribution: Comparison to 4-dimensional computed tomography in a porcine model
Cited by: 12
Author(s): Florian Thürk, Stefan Boehme, Daniel Mudrak, Stefan Kampusch, Alice Wielandner, Helmut Prosch, Christina Braun, Frédéric P. R. Toemboel, Johannes Hofmanninger, Eugenijus Kaniušas
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0197337

Public reaction to Chikungunya outbreaks in Italy—Insights from an extensive novel data streams-based structural equation modeling analysis
Cited by: 21
Author(s): Naim Mahroum, Mohammad Adawi, Κassem Sharif, Roy Waknin, Hussein Mahagna, Bishara Bisharat, Mahmud Mahamid, Arsalan Abu‐Much, Howard Amital, Nicola Luigi Bragazzi, Abdulla Watad
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0178029

Exploring the roles of cannot-link constraint in community detection via Multi-variance Mixed Gaussian Generative Model
Cited by: 7
Author(s): Liang Yang, Meng Ge, Di Jin, Dongxiao He, Huazhu Fu, Jing Wang, Xiaochun Cao
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0135305

pGenN, a Gene Normalization Tool for Plant Genes and Proteins in Scientific Literature
Cited by: 11
Author(s): Ruoyao Ding, Cecilia N. Arighi, Jinkee Lee, Cathy H. Wu, K. Vijay‐Shanker
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0038460

SR4GN: A Species Recognition Software Tool for Gene Normalization
Cited by: 75
Author(s): Chih Hsuan Wei, Hung Yu Kao, Zhiyong Lu
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0090838

Auditory and Visual Health after Ten Years of Exposure to Metal-on-Metal Hip Prostheses: A Cross-Sectional Study Follow Up
Cited by: 8
Author(s): Jennifer R. Prentice, Christopher S. Blackwell, Naz Raoof, Paul Bacon, Jaydip Ray, Simon J. Hickman, JM Wilkinson
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0079517

Collective Instance-Level Gene Normalization on the IGN Corpus
Cited by: 11
Author(s): Hong Jie Dai, Johnny Wu, Richard Tzong-Han Tsai
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0078555

Evaluation and Validation of Reference Genes for Normalization of Quantitative Real-Time PCR Based Gene Expression Studies in Peanut
Cited by: 63
Author(s): D. Srinivas Reddy, Pooja Bhatnagar‐Mathur, Katamreddy Sri Cindhuri, Kiran K. Sharma
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0044236

Systems Genetics of the Lateral Septal Nucleus in Mouse: Heritability, Genetic Control, and Covariation with Behavioral and Morphological Traits
Cited by: 15
Author(s): Aleksandr D Talishinsky, Glenn D. Rosen
Software Mentions: 1
Published: about 12 years ago