Scientific Papers with Software Mentions

10.12688/f1000research.9762.1

Viewing RNA-seq data on the entire human genome
Cited by: 2
Author(s): Eric Weitz, Lorena Pantano, Jingzhi Zhu, Bennett Upton, Ben Busby
Software Mentions: 1
Published: about 7 years ago

10.12688/f1000research.1-2.v2

Considerations for clinical read alignment and mutational profiling using next-generation sequencing
Cited by: 6
Author(s): Gavin R. Oliver
Software Mentions: 1
Published: over 11 years ago

Distinct gene expression profiles in ovarian cancer linked to Lynch syndrome
Cited by: 17
Author(s): Jenny-Maria Jönsson, Katarina Bartuma, Mev Dominguez‐Valentin, Katja Harbst, Zohreh Ketabi, Susanne Malander, Mats Jönsson, Ana Carneiro, Anna Måsbäck, Göran Jönsson, Mef Nilbert
Software Mentions: 1
Published: almost 10 years ago

10.3389/fnagi.2017.00395

Salicylate-Induced Suppression of Electrically Driven Activity in Brain Slices from the Auditory Cortex of Aging Mice
Cited by: 6
Author(s): Minoru Namikawa, Sano Ayaka, Toshitake Tateno
Software Mentions: 1
Published: over 6 years ago

10.3389/fnagi.2016.00040

Identifying Dysfunctional Cortex: Dissociable Effects of Stroke and Aging on Resting State Dynamics in MEG and fMRI
Cited by: 51
Author(s): Aneta Kielar, Tiffany Deschamps, Ron Chu, Regina Jokel, Yasha B. Khatamian, Jean Chen, Jed A. Meltzer
Software Mentions: 1
Published: about 8 years ago

10.3389/fnbeh.2014.00121

Neuropeptide S and BDNF gene expression in the amygdala are influenced by social decision-making under stress
Cited by: 32
Author(s): Justin Smith, Justin K. Achua, Tangi R. Summers, Patrick J. Ronan, Cliff H. Summers
Software Mentions: 1
Published: about 10 years ago

10.3389/fnbeh.2018.00225

Frontal EEG Asymmetry and Middle Line Power Difference in Discrete Emotions
Cited by: 73
Author(s): Guoguang Zhao, Yulin Zhang, Yan Ge
Software Mentions: 1
Published: over 5 years ago

10.3389/fbioe.2020.00268

Identification of Pan-Cancer Prognostic Biomarkers Through Integration of Multi-Omics Data
Cited by: 20
Author(s): Ning Zhao, Maozu Guo, Kuanquan Wang, Chunlong Zhang, Xiaoyan Liu
Software Mentions: 1
Published: about 4 years ago

10.3389/fbioe.2018.00146

Hydrogen Peroxide-Based Fluorometric Assay for Real-Time Monitoring of SAM-Dependent Methyltransferases
Cited by: 8
Author(s): M. Kalim Akhtar, Dhanya Vijay, Saima Umbreen, Chris McLean, Yizhi Cai, Dominic J. Campopiano, Gary J. Loake
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2021.690373

Oleic Acid Protects Caenorhabditis Mothers From Mating-Induced Death and the Cost of Reproduction
Cited by: 9
Author(s): Leo Sungwong Choi, Cheng Shi, Jasmine Ashraf, Salman Sohrabi, Coleen T. Murphy
Software Mentions: 1
Published: almost 3 years ago

10.3389/fchem.2018.00068

How Diverse Are the Protein-Bound Conformations of Small-Molecule Drugs and Cofactors?
Cited by: 7
Author(s): Nils-Ole Friedrich, Méliné Simsir, Johannes Kirchmair
Software Mentions: 1
Published: about 6 years ago

10.3389/fncom.2015.00149

Neural Network Model of Memory Retrieval
Cited by: 29
Author(s): Stefano Recanatesi, Mikhail Katkov, Sandro Romani, Misha Tsodyks
Software Mentions: 1
Published: over 8 years ago

10.3389/fendo.2020.574662

Genetic and Clinical Profiles of Pheochromocytoma and Paraganglioma: A Single Center Study
Cited by: 11
Author(s): Xiaosen Ma, Ming Li, Anli Tong, Fen Wang, Yunying Cui, Xuebin Zhang, Yushi Zhang, Shi Chen, Yuxiu Li
Software Mentions: 1
Published: over 3 years ago

10.3389/fendo.2018.00678

Integration of Proteomics and Metabolomics Revealed Metabolite–Protein Networks in ACTH-Secreting Pituitary Adenoma
Cited by: 22
Author(s): Jiaxuan Feng, Qi Zhang, Yang Zhou, Shenyuan Yu, Liu Hong, Sida Zhao, Jingjing Yang, Hong Wan, Guowang Xu, Yazhou Zhang, Chuzhong Li
Software Mentions: 1
Published: over 5 years ago

10.3389/fgene.2021.683255

Report of the Largest Chinese Cohort With SLC19A3 Gene Defect and Literature Review
Cited by: 8
Author(s): Jia-Ping Wang, Junling Wang, Xiudi Han, Zhimei Liu, Yanli Ma, Chen Guo-hong, Haoya Zhang, Dan Sun, Ruifeng Xu, Yi Liu, Yuqin Zhang, Yongxin Wen, Xinhua Bao, Qian Chen, Fang Fang
Software Mentions: 1
Published: almost 3 years ago

10.3390/ijerph18179417

Long-Term Assessment of Surface Water Quality in a Highly Managed Estuary Basin
Cited by: 4
Author(s): Angelica Moncada, Assefa M. Melesse, Jagath Vithanage, René M. Price
Software Mentions: 1
Published: over 2 years ago

10.3390/bios10040035

Flexible and Printed Electrochemical Immunosensor Coated with Oxygen Plasma Treated SWCNTs for Histamine Detection
Cited by: 33
Author(s): Bajramshahe Shkodra, Biresaw Demelash Abera, Giuseppe Cantarella, Ali Douaki, Enrico Avancini, Luisa Petti, Paolo Lugli
Software Mentions: 1
Published: about 4 years ago

10.3390/polym13081327

Preparation and Characterization of Nanofibrous Scaffolds of Ag/Vanadate Hydroxyapatite Encapsulated into Polycaprolactone: Morphology, Mechanical, and In Vitro Cells Adhesion
Cited by: 15
Author(s): Hany El‐Hamshary, Mehrez E. El‐Naggar, Ayman El‐Faham, M. A. Abu‐Saied, M.K. Ahmed, Mosaed Al-Sahly
Software Mentions: 1
Published: about 3 years ago

10.1186/1471-2148-14-149

Allopolyploidy and the evolution of plant virus resistance
Cited by: 4
Author(s): John Gottula, Ramsey S. Lewis, Seiya Saito, Marc Fuchs
Software Mentions: 1
Published: over 10 years ago

10.1186/1471-2105-8-348

PADB : Published Association Database
Cited by: 4
Author(s): Hwanseok Rhee, Jin Sung Lee
Software Mentions: 1
Published: over 16 years ago

10.1186/s13036-017-0079-y

A simplified microwave-based motion detector for home cage activity monitoring in mice
Cited by: 21
Author(s): Andreas Genewsky, D. E. Heinz, Paul M. Kaplick, Kasyoka Kilonzo, Carsten T. Wotjak
Software Mentions: 1
Published: over 6 years ago

10.1038/sdata.2016.126

An extensive dataset of eye movements during viewing of complex images
Cited by: 32
Author(s): Niklas Wilming, Selim Onat, José P. Ossandón, Alper Açık, Tim C. Kietzmann, Kai Kaspar, Ricardo Ramos Gameiro, Vormberg Alexandra, Peter König
Software Mentions: 1
Published: over 7 years ago

10.1155/2016/4237523

Improving Patient Safety through Simulation Training in Anesthesiology: Where Are We?
Cited by: 45
Author(s): Michael Green, Rayhan Tariq, Parmis Green
Software Mentions: 1
Published: over 8 years ago

10.1155/2018/7847014

Dynamic Balance Gait for Walking Assistance Exoskeleton
Cited by: 24
Author(s): Qiming Chen, Hong Cheng, Chunfeng Yue, Rui Huang, Hongliang Guo
Software Mentions: 1
Published: almost 6 years ago

10.3389/fgene.2014.00207

Exposure to hycanthone alters chromatin structure around specific gene functions and specific repeats in Schistosoma mansoni
Cited by: 13
Author(s): David Roquis, Julie M. J. Lepesant, Emanuel Villafán, Jã©Rã ́Me Boissier, Cristina Vieira, Cã©Line Cosseau, Christoph Grunau
Software Mentions: 1
Published: almost 10 years ago

10.1186/1471-2105-13-S11-S6

Semantically linking molecular entities in literature through entity relationships
Cited by: 13
Author(s): Sofie Van Landeghem, Jari Björne, Thomas Abeel, Bernard De Baets, Tapio Salakoski, Yves Van de Peer
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pcbi.1007961

Mathematical modelling reveals cellular dynamics within tumour spheroids
Cited by: 51
Author(s): Joshua A. Bull, Franziska Mech, Tom Quaiser, Sarah L. Waters, Helen M. Byrne
Software Mentions: 1
Published: almost 4 years ago

10.3389/fgene.2017.00057

Non-coding RNAs in the Ovarian Follicle
Cited by: 19
Author(s): Rosalia Battaglia, Marilena Vento, Placido Borzì, Marco Ragusa, Davide Barbagallo, Desirée Arena, Michele Purrello, Cinzia Di Pietro
Software Mentions: 1
Published: about 7 years ago

10.3389/fpsyt.2021.617751

The Tuberculosis-Depression Syndemic and Evolution of Pharmaceutical Therapeutics: From Ancient Times to the Future
Cited by: 6
Author(s): Martie van der Walt, Karen Keddy
Software Mentions: 1
Published: almost 3 years ago

10.1186/2041-1480-2-1

Protein interaction sentence detection using multiple semantic kernels
Cited by: 11
Author(s): Tamara Polajnar, Theodoros Damoulas, Mark Girolami
Software Mentions: 1
Published: over 13 years ago

10.1186/s13643-017-0421-y

RevManHAL: towards automatic text generation in systematic reviews
Cited by: 11
Author(s): Mercedes Torres Torres, Clive E Adams
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0122786

Sex Differences in Liver Toxicity—Do Female and Male Human Primary Hepatocytes React Differently to Toxicants In Vitro?
Cited by: 50
Author(s): Milena Mennecozzi, Brigitte Landesmann, Tarja Palosaari, G.C. Harris, Maurice Whelan
Software Mentions: 1
Published: about 9 years ago

10.1155/2015/829126

Effective Filtering of Query Results on Updated User Behavioral Profiles in Web Mining
Cited by: 0
Author(s): S. Sadesh, R.C. Suganthe
Software Mentions: 1
Published: over 9 years ago

10.1534/g3.117.040204

Unstable Inheritance of 45S rRNA Genes in<i>Arabidopsis thaliana</i>
Cited by: 43
Author(s): Fernando A. Rabanal, Viktoria Nizhynska, Terezie Mandáková, Polina Yu. Novikova, Martin A. Lysak, Richard Mott, Magnus Nordborg
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-021-92991-6

Antifungal activity of dendritic cell lysosomal proteins against Cryptococcus neoformans
Cited by: 5
Author(s): Benjamin N. Nelson, Savannah G. Beakley, Sierra Posey, Brittney Conn, Emma Maritz, J. Seshu, Karen L. Wozniak
Software Mentions: 1
Published: almost 3 years ago

10.3389/fgene.2019.00685

TDNAscan: A Software to Identify Complete and Truncated T-DNA Insertions
Cited by: 20
Author(s): Liang Sun, Yinbing Ge, Jeffrey A. Sparks, Zachary T. Robinson, Xiaofei Cheng, Jiangqi Wen, Elison B. Blancaflor
Software Mentions: 1
Published: almost 5 years ago

10.3389/fgene.2018.00686

SIRT1 Allele Frequencies in Depressed Patients of European Descent in Russia
Cited by: 6
Author(s): Lyubomir I. Aftanas, М. С. Анисименко, Darya A Berdyugina, Aleksandr Yu Garanin, В. Н. Максимов, М. И. Воевода, N. Vyalova, Н. А. Бохан, Svetlana A. Ivanova, Konstantin V. Danilenko, Sergei Kovalenko
Software Mentions: 1
Published: over 5 years ago

10.3389/fgene.2015.00271

Characterization of circulating transfer RNA-derived RNA fragments in cattle
Cited by: 22
Author(s): Eduardo Casas, Guohong Cai, John D. Neill
Software Mentions: 1
Published: over 8 years ago

10.3389/fnhum.2014.00975

Cerebral oscillatory activity during simulated driving using MEG
Cited by: 12
Author(s): Kotoe Sakihara, Masayuki Hirata, Koji Ebe, Kenji Kimura, Seong Yi Ryu, Yoshiyuki Kono, Nozomi Muto, Masako Yoshioka, Toshiki Yoshimine, Shiro Yorifuji
Software Mentions: 1
Published: over 9 years ago

10.3389/fnhum.2013.00582

Mindfulness-induced selflessness: a MEG neurophenomenological study
Cited by: 110
Author(s): Yair Dor-Ziderman, Aviva Berkovich‐Ohana, Joseph Glicksohn, Abraham Goldstein
Software Mentions: 1
Published: over 11 years ago

10.3389/fnhum.2014.00410

The role of the frontal cortex in memory: an investigation of the Von Restorff effect
Cited by: 16
Author(s): Anat Elhalal, Eddy J. Davelaar, Marius Usher
Software Mentions: 1
Published: almost 10 years ago

10.3389/fnhum.2013.00933

Temporal sampling in vision and the implications for dyslexia
Cited by: 19
Author(s): Kristen Pammer
Software Mentions: 1
Published: over 10 years ago

10.3389/fnhum.2017.00477

Walking through Architectural Spaces: The Impact of Interior Forms on Human Brain Dynamics
Cited by: 95
Author(s): Maryam Banaei, Javad Hatami, Abbas Yazdanfar, Klaus Gramann
Software Mentions: 1
Published: over 6 years ago

10.3389/fnhum.2013.00362

Gamma oscillatory amplitude encodes stimulus intensity in primary somatosensory cortex
Cited by: 39
Author(s): Holly E. Rossiter, Siân F. Worthen, Caroline Witton, Stephen D Hall, Paul L. Furlong
Software Mentions: 1
Published: over 11 years ago

10.3389/fnhum.2013.00132

A Multimodal Perspective on the Composition of Cortical Oscillations
Cited by: 24
Author(s): Kim C. Rönnqvist, Craig McAllister, Gavin L. Woodhall, Ian M. Stanford, Stephen D. Hall
Software Mentions: 1
Published: over 11 years ago

10.3389/fnhum.2013.00876

Tough doughnuts: affect and the modulation of attention
Cited by: 7
Author(s): Janani Dhinakaran, Maarten De Vos, Jeremy D. Thorne, Niclas Braun, Jolanda Janson, Cornelia Kranczioch
Software Mentions: 1
Published: over 11 years ago

10.3389/fimmu.2019.01243

High TLR7 Expression Drives the Expansion of CD19+CD24hiCD38hi Transitional B Cells and Autoantibody Production in SLE Patients
Cited by: 43
Author(s): Ting Wang, John S. Marken, Janice Chen, Van Bao Tran, Quan Zhen Li, Mengtao Li, Karen Cerosaletti, Keith B. Elkon, Xiaofeng Zeng, Natalia V. Giltiay
Software Mentions: 1
Published: almost 5 years ago

10.3389/fimmu.2015.00304

Emergent Transcriptomic Technologies and Their Role in the Discovery of Biomarkers of Liver Transplant Tolerance
Cited by: 10
Author(s): Sotiris Mastoridis, Marc Martínez‐Llordella, Alberto Sánchez–Fueyo
Software Mentions: 1
Published: almost 9 years ago

10.3389/fimmu.2018.00544

Neutralizing Anti-Cytokine Autoantibodies Against Interferon-α in Immunodysregulation Polyendocrinopathy Enteropathy X-Linked
Cited by: 37
Author(s): Jacob M. Rosenberg, Maria Elena Maccari, Federica Barzaghi, Eric J. Allenspach, Claudio Pignata, Giovanna Weber, Troy R. Torgerson, Paul J. Utz, Rosa Bacchetta
Software Mentions: 1
Published: about 6 years ago

10.3389/fimmu.2021.738388

Literature Mining and Mechanistic Graphical Modelling to Improve mRNA Vaccine Platforms
Cited by: 4
Author(s): Lorena Leonardelli, Giuseppe Lofano, Gianluca Selvaggio, Silvia Parolo, Stefano Giampiccolo, Danilo Tomasoni, Enrico Domenici, Corrado Priami, Haifeng Song, Duccio Medini, Luca Marchetti, Emilio Siena
Software Mentions: 1
Published: over 2 years ago

10.18632/aging.102323

Gomisin M2 from Baizuan suppresses breast cancer stem cell proliferation in a zebrafish xenograft model
Cited by: 21
Author(s): Yeguo Yang, Erhong Hao, Xinliang Pan, Darren Qiancheng Tan, Zhenhong Du, Jinling Xie, Xin Hou, Jiagang Deng, Kun Wei
Software Mentions: 1
Published: over 4 years ago

10.1128/AAC.02373-19

Screening of Natural Extracts for Inhibitors against Japanese Encephalitis Virus Infection
Cited by: 26
Author(s): Jiao Guo, Xiaoying Jia, Yang Liu, Shaobo Wang, Jiashu Cao, Bo Zhang, Gengfu Xiao, Wei Wang
Software Mentions: 1
Published: about 4 years ago

10.3390/antiox10020266

Oxidative Stress Boosts the Uptake of Cerium Oxide Nanoparticles by Changing Brain Endothelium Microvilli Pattern
Cited by: 4
Author(s): Roberta Dal Magro, Agostina Vitali, Stefano Fagioli, Alberto Casu, Andrea Falqui, Beatrice Formicola, Lorenzo Taiarol, Valeria Cassina, Claudia Adriana Marrano, Francesco Mantegazza, Umberto Anselmi‐Tamburini, Patrizia Sommi, Francesca Re
Software Mentions: 1
Published: over 3 years ago

10.3390/antiox9121193

Identification of Dietary Phytochemicals Capable of Enhancing the Autophagy Flux in HeLa and Caco-2 Human Cell Lines
Cited by: 5
Author(s): Kohta Ohnishi, Satoshi Yano, Moe Fujimoto, Maiko Sakai, Erika Harumoto, Airi Furuichi, Masashi Masuda, Hirokazu Ohminami, Hisami Yamanaka-Okumura, Taichi Hara, Yutaka Taketani
Software Mentions: 1
Published: over 3 years ago

10.3389/fmicb.2020.537935

New Conjugated Compound T5 Epidioxy-Sterol-ANB Inhibits the Growth of Mycobacterium tuberculosis Affecting the Cholesterol and Folate Pathways
Cited by: 0
Author(s): Andrés Baena, Emanuel Vasco, Manuel Pastrana, Juan F. Alzate, Luis F. Barrera, Alejandro Martínez Martínez
Software Mentions: 1
Published: over 3 years ago

10.3389/fmicb.2020.01232

Robust Virome Profiling and Whole Genome Reconstruction of Viruses and Viroids Enabled by Use of Available mRNA and sRNA-Seq Datasets in Grapevine (Vitis vinifera L.)
Cited by: 19
Author(s): V. Kavi Sidharthan, Amitha Mithra Sevanthi, Sarika Jaiswal, V. K. Baranwal
Software Mentions: 1
Published: almost 4 years ago

10.3389/fmicb.2017.01622

Inhabited or Uninhabited? Pitfalls in the Interpretation of Possible Chemical Signatures of Extraterrestrial Life
Cited by: 16
Author(s): S. W. Fox, Henry Strasdeit
Software Mentions: 1
Published: over 6 years ago

10.3389/fmicb.2020.01037

Honey Bee Suppresses the Parasitic Mite Vitellogenin by Antimicrobial Peptide
Cited by: 9
Author(s): Yunfei Wu, Qiushi Liu, Benjamin Weiß, Martin Kaltenpoth, Tatsuhiko Kadowaki
Software Mentions: 1
Published: almost 4 years ago

10.3389/fmicb.2017.02187

miR-194 Inhibits Innate Antiviral Immunity by Targeting FGF2 in Influenza H1N1 Virus Infection
Cited by: 27
Author(s): Keyu Wang, Lai Chen, Huiying Gu, Lingna Zhao, Min Xia, Peng Yang, Xiliang Wang
Software Mentions: 1
Published: over 6 years ago

10.3389/fmicb.2015.00309

How much territory can a single E. coli cell control?
Cited by: 26
Author(s): Ziad W. El-Hajj, E. B. Newman
Software Mentions: 1
Published: about 9 years ago

10.3389/fmolb.2020.564005

Identification of Tamoxifen-Resistant Breast Cancer Cell Lines and Drug Response Signature
Cited by: 3
Author(s): Qingzhou Guan, Xuekun Song, Zhenzhen Zhang, Yizhi Zhang, Yating Chen, Jing Li
Software Mentions: 1
Published: over 3 years ago

10.3389/fneur.2021.633397

Clinical and Genetic Characteristics of Mitochondrial Encephalopathy Due to FOXRED1 Mutations: Two Chinese Case Reports and a Review of the Literature
Cited by: 0
Author(s): Chaoping Hu, Qiong Xu, Jin Shen, Yi Wang
Software Mentions: 1
Published: over 3 years ago

10.3389/fneur.2014.00244

Localization of Interictal Epileptiform Activity Using Magnetoencephalography with Synthetic Aperture Magnetometry in Patients with a Vagus Nerve Stimulator
Cited by: 4
Author(s): Jennifer R. Stapleton-Kotloski, Robert J. Kotloski, Jane G. Boggs, Gautam Popli, Cormac A. O’Donovan, Daniel E. Couture, Cassandra Cornell, Dwayne W. Godwin
Software Mentions: 1
Published: over 9 years ago

10.1038/s41598-021-98548-x

Broad scale proteomic analysis of heat-destabilised symbiosis in the hard coral Acropora millepora
Cited by: 18
Author(s): Katherina Petrou, Brook L. Nunn, Matthew P. Padula, David J. Miller, Daniel A. Nielsen
Software Mentions: 1
Published: over 2 years ago

10.1186/s12872-020-01478-1

Omentin-1 is associated with atrial fibrillation in patients with cardiac valve disease
Cited by: 14
Author(s): Yubin Chen, Fen Liu, Fei Han, Li-Zhi Lv, Cui Tang, Zhongshang Xie, Fanyan Luo
Software Mentions: 1
Published: about 4 years ago