Ecosyste.ms: Papers

10.1186/s12859-020-03952-1

DeepGRN: prediction of transcription factor binding site across cell-types using attention-based deep neural networks
Cited by: 33
Author(s): Chen Chen, Jie Hou, Xiaowen Shi, Hua Yang, James A. Birchler
Software Mentions: 2
Published: over 3 years ago

10.3389/fnins.2016.00313

Systemic Low-Frequency Oscillations in BOLD Signal Vary with Tissue Type
Cited by: 25
Author(s): Yunjie Tong, Lia M. Hocke, Kimberly P. Lindsey, Sinem Burcu Erdoğan, Gordana Vitaliano, Carolyn E. Caine, Blaise deB. Frederick
Software Mentions: 2
Published: almost 8 years ago

10.3389/fnins.2019.00705

Influence of EEG References on N170 Component in Human Facial Recognition
Cited by: 5
Author(s): Yi Wang, Hua Huang, Hao Yang, Xie Jian, Site Mo, Hongyu Lai, Ting Wu, Junpeng Zhang
Software Mentions: 2
Published: almost 5 years ago

10.18632/aging.202763

Gut microbiota from mice with cerebral ischemia-reperfusion injury affects the brain in healthy mice
Cited by: 10
Author(s): Wang Hong-ru, Shangjun Ren, Hailing Lv, Lili Cao
Software Mentions: 2
Published: about 3 years ago

10.3389/fnins.2019.00221

Graph Theoretical Characteristics of EEG-Based Functional Brain Networks in Patients With Epilepsy: The Effect of Reference Choice and Volume Conduction
Cited by: 17
Author(s): Maria Anastasiadou, Manolis Christodoulakis, Eleftherios S. Papathanasiou, Savvas Papacostas, Avgis Hadjipapas, Georgios D. Mitsis
Software Mentions: 2
Published: about 5 years ago

10.3389/fnins.2017.00247

A Comparative Study of Average, Linked Mastoid, and REST References for ERP Components Acquired during fMRI
Cited by: 13
Author(s): Pei Yang, Chongyi Fan, Min Wang, Ling Li
Software Mentions: 2
Published: about 7 years ago

10.3389/fnins.2018.00250

The Scalp Time-Varying Networks of N170: Reference, Latency, and Information Flow
Cited by: 15
Author(s): Yin Tian, Wei Xu, Huiling Zhang, Kin Yip Tam, Haiyong Zhang, Li Yang, Zhangyong Li, Yu Pang
Software Mentions: 2
Published: about 6 years ago

10.1186/s12859-015-0797-4

Inferring intra-motif dependencies of DNA binding sites from ChIP-seq data
Cited by: 34
Author(s): Ralf Eggeling, Teemu Roos, Petri Myllymäki, Ivo Große
Software Mentions: 2
Published: over 8 years ago

10.3389/fnins.2019.01341

Editorial: Through a Glass, Darkly: The Influence of the EEG Reference on Inference About Brain Function and Disorders
Cited by: 5
Author(s): María Luisa Bringas Vega, Paul L. Nunez, Jorge J. Riera, Rui Zhang, Pedro A. Valdés‐Sosa
Software Mentions: 2
Published: over 4 years ago

10.1186/1471-2164-14-657

Targets of light signalling in Trichoderma reesei
Cited by: 67
Author(s): Doris Tisch, Monika Schmoll
Software Mentions: 2
Published: over 11 years ago

10.1186/s12991-018-0217-z

Resting-state brain activity in Chinese boys with low functioning autism spectrum disorder
Cited by: 13
Author(s): Gaizhi Li, Kathryn Rossbach, Wenqing Jiang, Yasong Du
Software Mentions: 2
Published: over 5 years ago

10.3389/fneur.2013.00043

Local Functional Connectivity as a Pre-Surgical Tool for Seizure Focus Identification in Non-Lesion, Focal Epilepsy
Cited by: 40
Author(s): Kurt E. Weaver, Wanpracha Art Chaovalitwongse, Edward J. Novotny, Andrew Poliakov, T. G. Grabowski, Jeffrey G. Ojemann
Software Mentions: 2
Published: over 11 years ago

10.3389/fnins.2018.00827

TPH-2 Gene Polymorphism in Major Depressive Disorder Patients With Early-Wakening Symptom
Cited by: 16
Author(s): Shiwan Tao, Mohammad Ridwan Chattun, Rui Yan, Jiting Geng, Rong Zhu, Junneng Shao, Qing Lü, Zhijian Yao
Software Mentions: 2
Published: over 5 years ago

10.3389/fnins.2017.00205

Understanding the Influences of EEG Reference: A Large-Scale Brain Network Perspective
Cited by: 62
Author(s): Xu Lei, Keren Liao
Software Mentions: 2
Published: about 7 years ago

10.3389/fnins.2013.00137

A multi-site resting state fMRI study on the amplitude of low frequency fluctuations in schizophrenia
Cited by: 134
Author(s): Jessica A. Turner, Eswar Damaraju, Theo G.M. van Erp, Daniel H. Mathalon, Judith M. Ford, James T. Voyvodic, Bryon A. Mueller, Ayşenil Belger, Juan Bustillo, Sarah McEwen, Steven G. Potkin, Fbirn, Vince D. Calhoun
Software Mentions: 2
Published: over 11 years ago

10.1016/j.pneurobio.2020.101790

MeCP2 mediates transgenerational transmission of chronic pain
Cited by: 10
Author(s): Wenjuan Tao, Changmao Chen, Yuping Wang, Wenjie Zhou, Yan Jin, Yu Mao, Haitao Wang, Likui Wang, Wen Xie, Xulai Zhang, Jie Li, Juan Li, Xiang-Yao Li, Zhen Quan Tang, Chenghua Zhou, Zhizhong Z. Pan, Zhi Zhang
Software Mentions: 2
Published: almost 4 years ago

10.3389/fmolb.2021.633130

Mutations of N1 Riboswitch Affect its Dynamics and Recognition by Neomycin Through Conformational Selection
Cited by: 8
Author(s): Piotr Chyży, Marta Kulik, Suyong Re, Yuji Sugita, Joanna Trylska
Software Mentions: 2
Published: over 3 years ago

10.3389/fmicb.2018.00268

The Small RNA RyhB Is a Regulator of Cytochrome Expression in Shewanella oneidensis
Cited by: 9
Author(s): Karin L. Meibom, Elena M. Cabello, Rizlan Bernier‐Latmani
Software Mentions: 2
Published: about 6 years ago

10.3389/fninf.2014.00053

Web based tools for visualizing imaging data and development of XNATView, a zero footprint image viewer
Cited by: 8
Author(s): David Gutman, William D. Dunn, Jake Cobb, Richard Martin Stoner, Jayashree Kalpathy‐Cramer, Bradley J. Erickson
Software Mentions: 2
Published: almost 10 years ago

10.3389/fimmu.2021.634497

In vitro Evaluation of Programmed Cell Death in the Immune System of Pacific Oyster Crassostrea gigas by the Effect of Marine Toxins
Cited by: 9
Author(s): Norma Estrada, Erick J. Núñez-Vázquez, Alejandra Palacios, Felipe Ascencio, Laura T. Guzmán-Villanueva, Rubén G. Contreras
Software Mentions: 2
Published: about 3 years ago

10.3389/fmicb.2014.00479

Pervasive effects of a dominant foliar endophytic fungus on host genetic and phenotypic expression in a tropical tree
Cited by: 72
Author(s): Luis C. Mejía, Edward Allen Herre, Jed P. Sparks, Klaus Winter, M. García, Sunshine A. Van Bael, Joseph P. Stitt, Zi Shi, Yufan Zhang, Mark J. Guiltinan, Siela N. Maximova
Software Mentions: 2
Published: over 9 years ago

10.3389/fimmu.2020.00630

Human Alveolar and Splenic Macrophage Populations Display a Distinct Transcriptomic Response to Infection With Mycobacterium tuberculosis
Cited by: 9
Author(s): Lelia Lavalett, Héctor Ortega, Luis F. Barrera
Software Mentions: 2
Published: about 4 years ago

10.3389/fnhum.2018.00279

Effects of the 2-Repeat Allele of the DRD4 Gene on Neural Networks Associated With the Prefrontal Cortex in Children With ADHD
Cited by: 9
Author(s): Andan Qian, Jiejie Tao, Xin Wang, Huiru Liu, Ling-Xiao Ji, Chuang Yang, Qiong Ye, Chengchun Chen, Jiance Li, Jingliang Cheng, Meihao Wang, Ke Zhao
Software Mentions: 2
Published: almost 6 years ago

10.3389/fnhum.2019.00365

Stereoscopic Rendering via Goggles Elicits Higher Functional Connectivity During Virtual Reality Gaming
Cited by: 9
Author(s): Caroline Garcia Forlim, Lukas Bittner, Fariba Mostajeran, Frank Steinicke, Jürgen Gallinat, Simone Kühn
Software Mentions: 2
Published: over 4 years ago

10.1186/s12864-015-1856-y

Large scale transcriptome analysis reveals interplay between development of forest trees and a beneficial mycorrhiza helper bacterium
Cited by: 27
Author(s): Florence Kurth, Lasse Feldhahn, Markus Bönn, Sylvie Herrmann, François Buscot, Mika Tarkka
Software Mentions: 2
Published: over 8 years ago

10.3389/fnhum.2015.00386

GRETNA: a graph theoretical network analysis toolbox for imaging connectomics
Cited by: 544
Author(s): Jinhui Wang, Xindi Wang, Mingrui Xia, Xuhong Liao, Alan C. Evans, Yong He
Software Mentions: 2
Published: almost 9 years ago

10.3389/fnhum.2020.585664

Increased Amygdala-Paracentral Lobule/Precuneus Functional Connectivity Associated With Patients With Mood Disorder and Suicidal Behavior
Cited by: 14
Author(s): Ran Zhang, Luheng Zhang, Shengnan Wei, Pengshuo Wang, Xiaowei Jiang, Yanqing Tang, Fei Wang
Software Mentions: 2
Published: over 3 years ago

10.3389/fnhum.2018.00322

Mapping the Spatiotemporal Evolution of Emotional Processing: An MEG Study Across Arousal and Valence Dimensions
Cited by: 11
Author(s): Charis Styliadis, Andreas A. Ioannides, Panagiotis D. Bamidis, Christos Papadelis
Software Mentions: 2
Published: almost 6 years ago

10.1186/s12864-020-06806-5

Oak displays common local but specific distant gene regulation responses to different mycorrhizal fungi
Cited by: 13
Author(s): Marie-Lara Bouffaud, Sylvie Herrmann, Mika Tarkka, Markus Bönn, Lasse Feldhahn, François Buscot
Software Mentions: 2
Published: almost 4 years ago

10.3389/fnhum.2014.00409

Network complexity as a measure of information processing across resting-state networks: evidence from the Human Connectome Project
Cited by: 101
Author(s): Ian M. McDonough, Kaoru Nashiro
Software Mentions: 2
Published: almost 10 years ago

10.3389/fnhum.2015.00074

Differential cerebral response to somatosensory stimulation of an acupuncture point vs. two non-acupuncture points measured with EEG and fMRI
Cited by: 27
Author(s): Till Nierhaus, Daniel Pach, Weixin Huang, Xiangyu Long, Vitaly Napadow, Stephanie Roll, Fanrong Liang, Burkhard Pleger, Arno Villringer, Claudia M. Witt
Software Mentions: 2
Published: over 9 years ago

10.1186/s12859-020-03928-1

Menoci: lightweight extensible web portal enhancing data management for biomedical research projects
Cited by: 7
Author(s): Markus Suhr, Christoph U. Lehmann, Christian R. Bauer, Theresa Bender, Cornelius Knopp, Luca Freckmann, Björn Öst Hansen, Christian Henke, Georg Aschenbrandt, Lea K Kühlborn, Sophia Rheinländer, Linus Weber, Bartlomiej Marzec, Marcel Hellkamp, Philipp Wieder, Harald Kusch, Ulrich Sax, Sara Y. Nussbeck
Software Mentions: 2
Published: over 3 years ago

10.3389/fnhum.2020.574148

Brain Responses to Food Odors Associated With BMI Change at 2-Year Follow-Up
Cited by: 6
Author(s): Pengfei Han, Hong Chen, Thomas Hummel
Software Mentions: 2
Published: over 3 years ago

10.1186/s12864-018-5039-5

Genome-wide transcriptome analysis using RNA-Seq reveals a large number of differentially expressed genes in a transient MCAO rat model
Cited by: 46
Author(s): Lyudmila V. Dergunova, Ivan B. Filippenkov, Vasily V. Stavchansky, Alina E. Denisova, Vadim V. Yuzhakov, С. А. Мозеров, Leonid V. Gubsky, Svetlana A. Limborska
Software Mentions: 2
Published: over 5 years ago

10.3389/fneur.2020.580408

Aberrant Hippocampal Network Connectivity Is Associated With Neurocognitive Dysfunction in Patients With Moderate and Severe Obstructive Sleep Apnea
Cited by: 19
Author(s): Liqun Zhou, Guiqian Liu, Hong Luo, Huabing Li, Yating Peng, Dandan Zong, Ruoyun Ouyang
Software Mentions: 2
Published: over 3 years ago

10.3389/fnagi.2014.00075

Deciphering the Molecular Profile of Plaques, Memory Decline and Neuron Loss in Two Mouse Models for Alzheimer’s Disease by Deep Sequencing
Cited by: 71
Author(s): Yvonne Bouter, Tim Kacprowski, Robert Weißmann, Katharina Dietrich, Henning Borgers, Andreas Brauß, Christian Sperling, Oliver Wirths, Mario Albrecht, Lars Riff Jensen, Andreas W. Kuß, Thomas A. Bayer
Software Mentions: 2
Published: about 10 years ago

10.3389/fnbot.2017.00002

Connecting Artificial Brains to Robots in a Comprehensive Simulation Framework: The Neurorobotics Platform
Cited by: 86
Author(s): Egidio Falotico, Lorenzo Vannucci, Alessandro Ambrosano, Ugo Albanese, Stefan Ulbrich, J. Camilo Vasquez Tieck, Georg Hinkel, Jacques Kaiser, Igor Peric, Oliver Denninger, Nino Cauli, Murat Kırtay, Arne Roennau, Gudrun Klinker, Axel von Arnim, Luc Guyot, Daniel Peppicelli, Pablo Martínez‐Cañada, Eduardo Ros, Patrick Maier, Sandro Weber, Manuel Huber, David A. Plecher, Florian Röhrbein, Stefan Deser, Alina Roitberg, Patrick van der Smagt, R. Dillman, Paul Levi, Cecilia Laschi, Alois Knoll, Marc‐Oliver Gewaltig
Software Mentions: 2
Published: over 7 years ago

10.3389/fbioe.2019.00106

Cyberbiosecurity Challenges of Pathogen Genome Databases
Cited by: 15
Author(s): Boris A. Vinatzer, Lenwood S. Heath, Hussain M. J. Almohri, Michael J. Stulberg, Christopher J. Lowe, Song Li
Software Mentions: 2
Published: about 5 years ago

10.1186/1471-2164-11-582

Differential gene expression during the moult cycle of Antarctic krill (Euphausia superba)
Cited by: 43
Author(s): Paul J. Seear, Geraint A. Tarling, Gavin Burns, William P. Goodall‐Copestake, E. Gaten, Özge Özkaya, Ezio Rosato
Software Mentions: 2
Published: over 13 years ago

10.1186/s12864-015-1574-5

Key genes as stress indicators in the ubiquitous diatom Skeletonema marinoi
Cited by: 35
Author(s): Chiara Lauritano, Ida Orefice, Gabriele Procaccini, Giovanna Romano, Adrianna Ianora
Software Mentions: 2
Published: almost 9 years ago

10.3389/fnins.2018.00297

Unified Bayesian Estimator of EEG Reference at Infinity: rREST (Regularized Reference Electrode Standardization Technique)
Cited by: 21
Author(s): Shiang Hu, Dezhong Yao, Pedro A. Valdés‐Sosa
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0144937

From Insect to Man: Photorhabdus Sheds Light on the Emergence of Human Pathogenicity
Cited by: 28
Author(s): Geraldine Mulley, Michael L. Beeton, Paul Wilkinson, Isabella Vlisidou, Nina Ockendon-Powell, Alexia Hapeshi, Nicholas J. Tobias, Friederike I. Nollmann, Helge B. Bode, Jean M. H. van den Elsen, Richard H. ffrench-Constant, Nicholas R. Waterfield
Software Mentions: 2
Published: over 8 years ago

10.1186/s12863-018-0702-z

The transcription factor PRO44 and the histone chaperone ASF1 regulate distinct aspects of multicellular development in the filamentous fungus Sordaria macrospora
Cited by: 14
Author(s): David Immanuel Schumacher, Ramona Lütkenhaus, Florian Altegoer, Ines Teichert, Ulrich Kück, Minou Nowrousian
Software Mentions: 2
Published: over 5 years ago

10.1186/s12859-018-2016-6

BRCA-Pathway: a structural integration and visualization system of TCGA breast cancer data on KEGG pathways
Cited by: 18
Author(s): In-Young Kim, Saemi Choi, Sun Kim
Software Mentions: 2
Published: over 6 years ago

10.1016/j.exer.2019.03.024

Mutation in the mouse histone gene Hist2h3c1 leads to degeneration of the lens vesicle and severe microphthalmia
Cited by: 4
Author(s): Sharmilee Vetrivel, Natascia Tiso, Andrea Kügler, Martin Irmler, Marion Horsch, Johannes Beckers, Daniela Hladik, Florian Giesert, Valérie Gailus‐Durner, Helmut Fuchs, Sibylle Sabrautzki, Martin Hrabé de Angelis, Jochen Graw
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0050064

Differential Deactivation during Mentalizing and Classification of Autism Based on Default Mode Network Connectivity
Cited by: 92
Author(s): Donna L. Murdaugh, Svetlana V. Shinkareva, Hrishikesh R. Deshpande, Jing Wang, Mark R. Pennick, Rajesh K. Kana
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pone.0173289

Comparing resting state fMRI de-noising approaches using multi- and single-echo acquisitions
Cited by: 68
Author(s): Ottavia Dipasquale, Arjun Sethi, Maria Marcella Laganà, Francesca Baglio, Giuseppe Baselli, Prantik Kundu, Neil A. Harrison, Mara Cercignani
Software Mentions: 2
Published: about 7 years ago

10.1186/s12870-018-1244-2

Diel pattern of circadian clock and storage protein gene expression in leaves and during seed filling in cowpea (Vigna unguiculata)
Cited by: 13
Author(s): Julia Weiß, Marta I. Terry, Marina Martos-Fuentes, Lisa Letourneux, Victoria Ruiz-Hernández, Juan Antonio Fernández Hernández, Marcos Egea‐Cortines
Software Mentions: 2
Published: over 6 years ago

10.3389/fnins.2017.00509

A Comparative Study on the Dynamic EEG Center of Mass with Different References
Cited by: 11
Author(s): Yun Qin, Xiuwei Xin, Hao Zhu, Fali Li, Hongchuan Xiong, Tao Zhang, Yongxiu Lai
Software Mentions: 2
Published: over 6 years ago

10.3390/antiox9020180

Pharmacological Targets of Kaempferol Within Inflammatory Pathways—A Hint Towards the Central Role of Tryptophan Metabolism
Cited by: 15
Author(s): Stefanie Hofer, Simon Geisler, Rebecca Lisandrelli, Huu Tung Nguyen, Markus Ganzera, Harald Schennach, Dietmar Fuchs, Julian E. Fuchs, Johanna M. Gostner, Katharina Kurz
Software Mentions: 2
Published: about 4 years ago

10.1186/s12888-020-02831-6

Emotion reactivity-related brain network analysis in generalized anxiety disorder: a task fMRI study
Cited by: 12
Author(s): Jian Li, Yuan Zhong, Zijuan Ma, Yun Wu, Manlong Pang, Chiyue Wang, Na Liu, Chun Wang, Ning Zhang
Software Mentions: 2
Published: over 3 years ago

10.1186/s12888-016-1047-7

Association between abnormal default mode network activity and suicidality in depressed adolescents
Cited by: 125
Author(s): Shuang Zhang, Jianmei Chen, Li Kuang, Jian Cao, Han Zhang, Ming Ai, Wo Wang, Shudong Zhang, Suya Wang, Shijing Liu, Weidong Fang
Software Mentions: 2
Published: over 7 years ago

10.3389/fnins.2018.00148

Hearing the Sound in the Brain: Influences of Different EEG References
Cited by: 5
Author(s): Dan Wu
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0159563

Glutathione S-Transferase Regulation in Calanus finmarchicus Feeding on the Toxic Dinoflagellate Alexandrium fundyense
Cited by: 9
Author(s): Vittoria Roncalli, Michelle J. Jungbluth, Petra H. Lenz
Software Mentions: 2
Published: almost 8 years ago

10.3389/fnins.2017.00527

Electrophysiological Correlates of Change Detection during Delayed Matching Task: A Comparison of Different References
Cited by: 7
Author(s): Tengfei Liang, Zhonghua Hu, Yuchen Li, Ye C, Qiang Liu
Software Mentions: 2
Published: over 6 years ago

10.1186/1471-2164-14-607

RNA-seq analyses of gene expression in the microsclerotia of Verticillium dahliae
Cited by: 69
Author(s): Dechassa Duressa, Amy Anchieta, Dongquan Chen, Anna Klimes, Maria D. García-Pedrajas, Katherine F. Dobinson, Steven J. Klosterman
Software Mentions: 2
Published: over 10 years ago

10.1186/s12888-016-1190-1

Altered fractional amplitude of low frequency fluctuation associated with cognitive dysfunction in first-episode drug-naïve major depressive disorder patients
Cited by: 32
Author(s): Manli Huang, Shengyong Lu, Liang Yu, Lingjiang Li, Peng Zhang, Jianbo Hu, Weihua Zhou, Shaohua Hu, Ning Wei, Jinwen Huang, Jian Weng, Yi Xu
Software Mentions: 2
Published: over 7 years ago

10.1186/1471-2180-12-S1-S1

Feminizing Wolbachia: a transcriptomics approach with insights on the immune response genes in Armadillidium vulgare
Cited by: 45
Author(s): Frédéric D. Chevalier, Juline Herbinière-Gaboreau, Delphine Charif, Guillaume Mitta, Frédérick Gavory, Patrick Wincker, Pierre Grève, Christine Braquart‐Varnier, Didier Bouchon
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0243869

Evaluation of the impact of surgical aortic valve replacement on short-term cardiovascular and cerebrovascular controls through spontaneous variability analysis
Cited by: 6
Author(s): Alberto Porta, Angela Fantinato, Vlasta Bari, Francesca Gelpi, Beatrice Cairo, Beatrice De Maria, Enrico Giuseppe Bertoldo, Valentina Fiolo, Edward Callus, Carlo De Vincentiis, Marianna Volpe, Raffaella Molfetta, Marco Ranucci
Software Mentions: 2
Published: over 3 years ago

10.1186/1471-2180-12-S1-S14

Host gene response to endosymbiont and pathogen in the cereal weevil Sitophilus oryzae
Cited by: 38
Author(s): Aurélien Vigneron, Delphine Charif, Carole Vincent-Monégat, Agnès Vallier, Frédérick Gavory, Patrick Wincker, Abdelaziz Heddi
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0076234

NR4A2 Is Regulated by Gastrin and Influences Cellular Responses of Gastric Adenocarcinoma Cells
Cited by: 13
Author(s): Kristine Misund, Linn-Karina M. Selvik, Shalini Rao, Kristin G. Nørsett, Ingrid Bakke, Arne K. Sandvik, Astrid Lægreid, Torunn Bruland, Wenche S. Prestvik, Liv Thommesen
Software Mentions: 2
Published: over 10 years ago

10.1186/1472-6947-13-57

Applying representational state transfer (REST) architecture to archetype-based electronic health record systems
Cited by: 30
Author(s): Erik Sundvall, Mikael Nyström, Daniel Karlsson, Martin Eneling, Rong Chen, Håkan Örman
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.pone.0212089

In vitro evaluation of the protective effects of plant extracts against amyloid-beta peptide-induced toxicity in human neuroblastoma SH-SY5Y cells
Cited by: 23
Author(s): Ana Luiza Sereia, Marcelo Tempesta de Oliveira, Adrivânio Baranoski, Leila Larisa Medeiros Marques, Fabianne Martins Ribeiro, Raquel Garcia Isolani, Daniela Cristina de Medeiros Araújo, Danielly Chierrito, Danielle Lazarin-Bidóia, Acácio Antônio Ferreira Zielinski, Cláudio Roberto Novello, Celso Vataru Nakamura, Mário Mantovani, João Carlos Palazzo de Mello
Software Mentions: 2
Published: over 5 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

10.1093/jxb/erv285

The<i>IDA/IDA-LIKE</i>and<i>PIP/PIP-LIKE</i>gene families in<i>Arabidopsis</i>: phylogenetic relationship, expression patterns, and transcriptional effect of the PIPL3 peptide
Cited by: 64
Author(s): Ane Kjersti Vie, Javad Najafi, Bin Liu, Per Winge, Melinka A. Butenko, Karina S. Hornslien, Robert P. Kumpf, Reidunn B. Aalen, Atle M. Bones, Tore Brembu
Software Mentions: 2
Published: almost 9 years ago

10.3389/fcell.2017.00012

The Importance of REST for Development and Function of Beta Cells
Cited by: 21
Author(s): David Martín, Anne Grapin-Botton
Software Mentions: 2
Published: about 7 years ago

10.3389/fninf.2018.00056

Neuroscience Information Toolbox: An Open Source Toolbox for EEG–fMRI Multimodal Fusion Analysis
Cited by: 47
Author(s): Li Dong, Luo Chen, Xiaobo Liu, Sisi Jiang, Fali Li, Hongshuo Feng, Jianfu Li, Diankun Gong, Dezhong Yao
Software Mentions: 2
Published: over 5 years ago

10.1186/s12911-014-0123-5

A RESTful interface to pseudonymization services in modern web applications
Cited by: 54
Author(s): Martin Lablans, Andreas Borg, Frank Ückert
Software Mentions: 2
Published: over 9 years ago

10.1186/s12911-019-0794-z

QL4MDR: a GraphQL query language for ISO 11179-based metadata repositories
Cited by: 7
Author(s): Hans Ulrich, Jori Kern, Deniz Tas, Ann-Kristin Kock-Schoppenhauer, Frank Ückert, Josef Ingenerf, Martin Lablans
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0098346

Structural and Functional Brain Alterations in End Stage Renal Disease Patients on Routine Hemodialysis: A Voxel-Based Morphometry and Resting State Functional Connectivity Study
Cited by: 51
Author(s): Yingwei Qiu, Xiaofei Lv, Huanhuan Su, Guihua Jiang, Cheng Li, Tian Jian-guo
Software Mentions: 2
Published: almost 10 years ago

10.1371/journal.pone.0115867

Identification of Genes Associated with Reproduction in the Mud Crab (Scylla olivacea) and Their Differential Expression following Serotonin Stimulation
Cited by: 19
Author(s): Napamanee Kornthong, Scott F. Cummins, Charoonroj Chotwiwatthanakun, Kanjana Khornchatri, Attakorn Engsusophon, Peter Hanna, Prasert Sobhon
Software Mentions: 2
Published: over 9 years ago

10.3390/antiox9080662

Neuroprotective Effect of HIF Prolyl Hydroxylase Inhibition in an In Vitro Hypoxia Model
Cited by: 18
Author(s): Maria Savyuk, Mikhail Krivonosov, Tatiana A. Mishchenko, Irina G. Gazaryan, Mikhail Ivanchenko, A. Yu. Khristichenko, Andrey Poloznikov, Dmitry M. Hushpulian, С. В. Никулин, E. A. Tonevitsky, Guzal Abuzarova, Еlena V. Mitroshina, Maria V. Vedunova
Software Mentions: 2
Published: almost 4 years ago

10.1038/srep39049

Interactomic analysis of REST/NRSF and implications of its functional links with the transcription suppressor TRIM28 during neuronal differentiation
Cited by: 17
Author(s): Namgyu Lee, Sung Jin Park, Ghazal Haddad, Dae-Kyum Kim, Seon‐Min Park, Sang Ki Park, Kwan Yong Choi
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0089463

Effect of Age on Complexity and Causality of the Cardiovascular Control: Comparison between Model-Based and Model-Free Approaches
Cited by: 80
Author(s): Alberto Porta, Luca Faes, Vlasta Bari, Andrea Marchi, Tito Bassani, Giandomenico Nollo, Natália Maria Perseguini, Juliana Cristina Milan, Vinícius Minatel, Audrey Borghi‐Silva, Anielle Cristhine de Medeiros Takahashi, Aparecida Maria Catai
Software Mentions: 2
Published: about 10 years ago

10.1038/s41598-017-07236-2

Integration of miRNA and mRNA expression profiles reveals microRNA-regulated networks during muscle wasting in cardiac cachexia
Cited by: 37
Author(s): Leonardo Nazário de Moraes, Geysson Javier Fernández, Ivan J. Vechetti, Paula Paccielli Freire, Rodrigo Wagner Alves de Souza, Rolando A R Villacis, Sílvia Regina Rogatto, Patrícia P. Reis, Maeli Dal-Pai-Silva, Robson Francisco Carvalho
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-017-12092-1

De novo transcriptome of the cosmopolitan dinoflagellate Amphidinium carterae to identify enzymes with biotechnological potential
Cited by: 51
Author(s): Chiara Lauritano, Danièle De Luca, Alberto Ferrarini, C. Avanzato, Andrea Minio, Francesco Esposito, Adrianna Ianora
Software Mentions: 2
Published: over 6 years ago

10.1186/1746-6148-9-12

Detection and comparison of microRNA expression in the serum of Doberman Pinschers with dilated cardiomyopathy and healthy controls
Cited by: 28
Author(s): Carola Steudemann, Stefan Bauersachs, Karin Weber, Gerhard Wess
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pone.0175415

An oil containing EPA and DHA from transgenic Camelina sativa to replace marine fish oil in feeds for Atlantic salmon (Salmo salar L.): Effects on intestinal transcriptome, histology, tissue fatty acid profiles and plasma biochemistry
Cited by: 64
Author(s): Mónica B. Betancor, Keshuai Li, Matthew Sprague, Tora Bardal, Olga Sayanova, Sarah Usher, Lihua Han, Kjell Måsøval, Ole Torrissen, Johnathan A. Napier, Douglas R. Tocher, Rolf Erik Olsen
Software Mentions: 2
Published: about 7 years ago

10.1128/mSystems.00124-16

Direct Heme Uptake by Phytoplankton-Associated <i>Roseobacter</i> Bacteria
Cited by: 23
Author(s): Shane L. Hogle, Bianca Brahamsha, Katherine A. Barbeau
Software Mentions: 2
Published: about 7 years ago

10.1186/1471-2164-12-423

Testing the importance of jasmonate signalling in induction of plant defences upon cabbage aphid (Brevicoryne brassicae) attack
Cited by: 57
Author(s): Anna Kuśnierczyk, Diem Hong Tran, Per Winge, Tommy S Jørstad, John C. Reese, Joanna Troczyńska, Atle M. Bones
Software Mentions: 2
Published: almost 13 years ago

10.1371/journal.pone.0124681

Frequency Dependent Topological Patterns of Resting-State Brain Networks
Cited by: 32
Author(s): Long Qian, Yi Zhang, Li Zheng, Yuqing Shang, Jia‐Hong Gao, Yijun Liu
Software Mentions: 2
Published: about 9 years ago

10.1186/1755-8794-5-33

The effects of MicroRNA transfections on global patterns of gene expression in ovarian cancer cells are functionally coordinated
Cited by: 29
Author(s): Shubin Shahab, Lilya V. Matyunina, Christopher G. Hill, Limin Wang, Roman Mezencev, L. DeEtte Walker, John F. McDonald
Software Mentions: 2
Published: almost 12 years ago

10.1186/1755-8794-2-65

Gene expression profiling in sinonasal adenocarcinoma
Cited by: 32
Author(s): Dominique Tripodi, Sylvia Quéméner, Karine Renaudin, Christophe Ferron, O. Malard, Isabelle Guisle‐Marsollier, Véronique Sebille, Christian Verger, C. Géraut, Catherine Gratas
Software Mentions: 2
Published: over 14 years ago

10.1371/journal.pone.0215729

Reference genes selection for Calotropis procera under different salt stress conditions
Cited by: 6
Author(s): Maria Reis Valois Coêlho, Rebeca Rivas, José Ribamar Costa Ferreira‐Neto, Valesca Pandolfi, João Pacífico Bezerra-Neto, Ana Maria Benko‐Iseppon, Mariana Santos
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0028949

Proteome Changes Driven by Phosphorus Deficiency and Recovery in the Brown Tide-Forming Alga Aureococcus anophagefferens
Cited by: 60
Author(s): Louie L. Wurch, Erin M. Bertrand, Mak A. Saito, Benjamin A. S. Van Mooy, Sonya T. Dyhrman
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0085364

Knocking-Down Meloidogyne incognita Proteases by Plant-Delivered dsRNA Has Negative Pleiotropic Effect on Nematode Vigor
Cited by: 50
Author(s): José Dijair Antonino de Souza Júnior, Roberta Ramos Coelho, Isabela Tristan Lourenço, Rodrigo da Rocha Fragoso, Antônio Américo Barbosa Viana, Leonardo Lima Pepino Macedo, Maria Cristina Mattar da Silva, Regina Maria Gomes Carneiro, Gilbert Engler, Janice de Almeida-Engler, Maria Fátima Grossi‐de‐Sá
Software Mentions: 2
Published: over 10 years ago

10.1007/s12551-016-0234-6

Analytical methods for structural ensembles and dynamics of intrinsically disordered proteins
Cited by: 15
Author(s): Marieke Schor, Antonia S. J. S. Mey, Cait E. MacPhee
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0182407

Protective effects on the retina after ranibizumab treatment in an ischemia model
Cited by: 23
Author(s): Stephanie C. Joachim, Marina Renner, Jacqueline Reinhard, Carsten Theiß, Caroline May, Stephanie Lohmann, Sabrina Reinehr, Gesa Stute, Andréas Faissner, Katrin Marcus, H. Burkhard Dick
Software Mentions: 2
Published: almost 7 years ago

10.3390/ijms12128581

Effects of Conjugated Linoleic Acid, Fish Oil and Soybean Oil on PPARs (α &amp; γ) mRNA Expression in Broiler Chickens and Their Relation to Body Fat Deposits
Cited by: 28
Author(s): Maryam Royan, Yong Meng Goh, Fauziah Othman, Awis Qurni Sazili, Bahman Navidshad
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0228680

Comparative transcriptome provides molecular insight into defense-associated mechanisms against spider mite in resistant and susceptible common bean cultivars
Cited by: 13
Author(s): Abdul Hadi Hoseinzadeh, Aboozar Soorni, Marie Shoorooei, Masoud Torkzadeh Mahani, R Maali Amiri, Hossein Allahyari, Reza Mohammadi
Software Mentions: 2
Published: over 4 years ago

10.3390/biom10050743

Targeting Intrinsically Disordered Proteins through Dynamic Interactions
Cited by: 30
Author(s): Jianlin Chen, Xiaorong Liu, Jianhan Chen
Software Mentions: 2
Published: about 4 years ago

10.3390/ijms21239124

Amino Acid and Carbohydrate Metabolism Are Coordinated to Maintain Energetic Balance during Drought in Sugarcane
Cited by: 23
Author(s): Augusto Lima Diniz, Danielle Izilda Rodrigues da Silva, Carolina Gimiliani Lembke, Maximiller Dal-Bianco, Felipe Ten Caten, Forrest Li, Romel Duarte Vilela, Marcelo Menossi, Doreen Ware, Laurício Endres, Gláucia Mendes Souza
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0035549

Transcriptional Portrait of Actinobacillus pleuropneumoniae during Acute Disease - Potential Strategies for Survival and Persistence in the Host
Cited by: 32
Author(s): Kirstine Klitgaard, Carsten Friis, Tim Kåre Jensen, Øystein Angen, Mette Boye
Software Mentions: 2
Published: about 12 years ago

10.3390/ijms22084263

Targeting of Deregulated Wnt/β-Catenin Signaling by PRI-724 and LGK974 Inhibitors in Germ Cell Tumor Cell Lines
Cited by: 9
Author(s): Silvia Schmidtova, Katarína Kalavska, Veronika Lišková, Jana Plavá, Svetlana Miklikova, Lucia Kučerová, Miroslava Matúšková, Lucia Rojikova, Zuzana Čierna, Adriana L. Rogozea, Heiko König, Costantine Albany, Michal Mego, Michal Chovanec
Software Mentions: 2
Published: about 3 years ago

10.1371/journal.pone.0013450

Chronic Hypoxia Impairs Muscle Function in the Drosophila Model of Duchenne's Muscular Dystrophy (DMD)
Cited by: 17
Author(s): Matías Mosqueira, Gabriel Willmann, Hannele Ruohola‐Baker, Tejvir S. Khurana
Software Mentions: 2
Published: over 13 years ago

10.1371/journal.pone.0063081

Early-Stage Psychotherapy Produces Elevated Frontal White Matter Integrity in Adult Major Depressive Disorder
Cited by: 29
Author(s): Tao Wang, Xiaolan Huang, Peiyu Huang, Dan Li, Fajin Lv, Yong Zhang, Linke Zhou, Deyu Yang, Peng Xie
Software Mentions: 2
Published: about 11 years ago

10.3390/ijms221810054

Antistress Action of Melanocortin Derivatives Associated with Correction of Gene Expression Patterns in the Hippocampus of Male Rats Following Acute Stress
Cited by: 8
Author(s): Ivan B. Filippenkov, Vasily V. Stavchansky, N. Yu. Glazova, Е. А. Себенцова, Julia A. Remizova, Liya V Valieva, N. G. Levitskaya, N. F. Myasoedov, Svetlana A. Limborska, Lyudmila V. Dergunova
Software Mentions: 2
Published: over 2 years ago

10.1371/journal.pone.0108200

Comparative Transcriptome Analysis Reveals the Genetic Basis of Skin Color Variation in Common Carp
Cited by: 72
Author(s): Yanliang Jiang, Songhao Zhang, Jian Xu, Jianxin Feng, Shahid Mahboob, Khalid A. Al‐Ghanim, Xin Sun, Peng Xu
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0065224

The Enterococcus faecium Enterococcal Biofilm Regulator, EbrB, Regulates the esp Operon and Is Implicated in Biofilm Formation and Intestinal Colonization
Cited by: 28
Author(s): Janetta Top, Fernanda L. Paganelli, Xinglin Zhang, Willem van Schaik, Helen L. Leavis, Miranda van Luit-Asbroek, Tom van der Poll, Masja Leendertse, Marc J. M. Bonten, Rob J. L. Willems
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pone.0159934

Nutritional Evaluation of an EPA-DHA Oil from Transgenic Camelina sativa in Feeds for Post-Smolt Atlantic Salmon (Salmo salar L.)
Cited by: 63
Author(s): Mónica B. Betancor, Matthew Sprague, Olga Sayanova, Sarah Usher, Christoforos Metochis, Patrick Campbell, Johnathan A. Napier, Douglas R. Tocher
Software Mentions: 2
Published: almost 8 years ago