10.1186/s12936-017-2120-5

Malaria early warning tool: linking inter-annual climate and malaria variability in northern Guadalcanal, Solomon Islands
Cited by: 14
Author(s): Jason B. Smith, Lloyd Tahani, Albino Bobogare, Hugo Bugoro, Francis Otto, George Fafale, David Hiriasa, Adna Kazazic, G. R. Beard, Amanda Amjadali, Isabelle Jeanne
Software Mentions: 4
Published: over 8 years ago

10.1080/21505594.2020.1768018

Transcriptional host–pathogen responses of <i>Pseudogymnoascus destructans</i> and three species of bats with white-nose syndrome
Cited by: 19
Author(s): Christina M. Davy, Michael E. Donaldson, Hana Banďouchová, Ana M. Breit, Nicole Dorville, Yvonne A. Dzal, Veronika Kováčová, Emma L. Kunkel, Natália Martínková, Kaleigh J. O. Norquay, James E. Paterson, Jan Zukal, Jiří Pikula, Craig K. R. Willis, Christopher J. Kyle
Software Mentions: 4
Published: about 6 years ago

10.1016/j.molcel.2021.04.028

Unrestrained poly-ADP-ribosylation provides insights into chromatin regulation and human disease
Cited by: 46
Author(s): Evgeniia Prokhorova, Thomas Agnew, Anne R. Wondisford, Michael Tellier, Nicole Kaminski, Danique Beijer, James Holder, Joséphine Groslambert, Marcin Suskiewicz, Kang Zhu, Julia M Reber, Sarah C. Krassnig, Luca Palazzo, Shona Murphy, Michael L. Nielsen, Aswin Mangerich, Dragana Ahel, Jonathan Baets, Roderick J. O’Sullivan, Ivan Ahel
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pgen.1005457

Runx1 Transcription Factor Is Required for Myoblasts Proliferation during Muscle Regeneration
Cited by: 65
Author(s): Kfir Baruch Umansky, Yael Gruenbaum-Cohen, Michael Tsoory, Ester Feldmesser, Dalia Goldenberg, Ori Brenner, Yoram Groner
Software Mentions: 4
Published: almost 11 years ago

10.1534/g3.118.200789

Dynamic Interactions Between the Genome and an Endogenous Retrovirus: <i>Tirant</i> in <i>Drosophila simulans</i> Wild-Type Strains
Cited by: 4
Author(s): Marie Fablet, Angelo Jacquet, Rita Rebollo, Annabelle Haudry, Colette Rey, Judit Salces-Ortiz, Prajakta Bajad, Nelly Burlet, Michael F. Jantsch, Maria Pilar García Guerreiro, Cristina Vieira
Software Mentions: 4
Published: over 7 years ago

10.1038/s41598-020-73307-6

Exhaustive identification of conserved upstream open reading frames with potential translational regulatory functions from animal genomes
Cited by: 6
Author(s): Hiro Takahashi, Shido Miyaki, Hitoshi Onouchi, Taichiro Motomura, Nobuo Idesako, Atsushi Takahashi, Masataka Murase, Shuichi Fukuyoshi, Toshinori Endo, Kenji Satou, Shuichi Naito, Motoyuki Itoh
Software Mentions: 4
Published: almost 6 years ago

10.1155/2019/8912961

Curcumin Inhibits ERK/c-Jun Expressions and Phosphorylation against Endometrial Carcinoma
Cited by: 25
Author(s): Zhenxue Zhang, Pengfei Yi, Changchun Tu, Jiejie Zhan, Liping Jiang, Fanglin Zhang
Software Mentions: 4
Published: almost 7 years ago

10.1038/s41598-019-47454-4

Glial gene networks associated with alcohol dependence
Cited by: 38
Author(s): Emma K. Erickson, Yuri A. Blednov, R. Adron Harris
Software Mentions: 4
Published: about 7 years ago

10.1128/mSystems.00729-19

Global Network Analysis of Neisseria gonorrhoeae Identifies Coordination between Pathways, Processes, and Regulators Expressed during Human Infection
Cited by: 7
Author(s): Ryan McClure, Ashwini Sunkavalli, Phillip M. Balzano, Paola Massi, Christine Cho, William M. Nauseef, Michael A. Apicella, Caroline A. Genco
Software Mentions: 4
Published: over 6 years ago

10.1534/g3.118.200516

Using Next-Generation Sequencing Transcriptomics To Determine Markers of Post-traumatic Symptoms: Preliminary Findings from a Post-deployment Cohort of Soldiers
Cited by: 6
Author(s): Cathy Boscarino, Thomas Nalpathamkalam, Giovanna Pellecchia, Weili Li, Bhooma Thiruvahindrapuram, Daniele Merico
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pgen.1007905

Tissue- and sex-specific small RNAomes reveal sex differences in response to the environment
Cited by: 21
Author(s): Alexandra Bezler, Fabian Braukmann, Sean M. West, Arthur Duplan, Raffaella Conconi, Frédéric Schütz, Pierre Gönczy, Fabio Piano, Kristin C. Gunsalus, Eric A. Miska, Laurent Keller
Software Mentions: 4
Published: over 7 years ago

10.3390/ijerph16050746

Comparison of Frequentist and Bayesian Generalized Additive Models for Assessing the Association Between Daily Exposure to Fine Particles and Respiratory Mortality: A Simulation Study
Cited by: 8
Author(s): Xin Fang, Bo Fang, Chunfang Wang, Tian Xia, Matteo Bottai, Fang Fang, Yang Cao
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pone.0207952

RNA-sequencing analysis of umbilical cord plasma microRNAs from healthy newborns
Cited by: 8
Author(s): Gary P. Brennan, Dimitrios Vitsios, Sophie Casey, Ann-Marie Looney, Boubou Hallberg, David C. Henshall, Geraldine B. Boylan, Deirdre M. Murray, Catherine Mooney
Software Mentions: 4
Published: over 7 years ago

10.1080/21505594.2017.1342910

<i>Pseudogymnoascus destructans</i> transcriptome changes during white-nose syndrome infections
Cited by: 22
Author(s): Sophia Reeder, Jonathan M. Palmer, Jenni M. Prokkola, Thomas M. Lilley, DeeAnn M. Reeder, Kenneth A. Field
Software Mentions: 4
Published: about 9 years ago

10.1098/rsos.181453

Behavioural and transcriptional changes in post-mating females of an egg parasitoid wasp species
Cited by: 19
Author(s): Pengcheng Liu, Dejun Hao
Software Mentions: 4
Published: over 7 years ago

10.1186/s42523-021-00098-0

The microbiota of healthy dogs demonstrates individualized responses to synbiotic supplementation in a randomized controlled trial
Cited by: 6
Author(s): Jirayu Tanprasertsuk, Aashish R. Jha, Justin Shmalberg, Roshonda B. Jones, Lee M. Perry, Heather Maughan, Ryan W. Honaker
Software Mentions: 4
Published: about 5 years ago

10.1007/s13238-019-0623-2

Rescue of premature aging defects in Cockayne syndrome stem cells by CRISPR/Cas9-mediated gene correction
Cited by: 42
Author(s): Si Wang, Zheying Min, Qianzhao Ji, Li Geng, Yao Su, Zunpeng Liu, Huifang Hu, Lixia Wang, Weiqi Zhang, Keiichiro Suzuiki, Yu Huang, Pu-Yao Zhang, Tie-Shan Tang, Jing Qu, Yang Yu, Guanghui Liu, Jie Qiao
Software Mentions: 4
Published: over 7 years ago

10.1016/j.dib.2016.05.007

Whole transcriptome data analysis of zebrafish mutants affecting muscle development
Cited by: 7
Author(s): Olivier Armant, Victor Gourain, Christelle Etard, Uwe Strähle
Software Mentions: 4
Published: almost 10 years ago

10.1371/journal.pcbi.1008734

Evolution of heterogeneous perceptual limits and indifference in competitive foraging
Cited by: 2
Author(s): Richard P. Mann
Software Mentions: 4
Published: over 5 years ago

10.3389/fcimb.2020.00073

Household Pet Ownership and the Microbial Diversity of the Human Gut Microbiota
Cited by: 29
Author(s): Ashley E. Kates, Omar Jarrett, Joseph H. Skarlupka, Ajay K. Sethi, Megan Duster, Lauren Watson, Garret Suen, Keith P. Poulsen, Nasia Safdar
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-021-90720-7

Benthic estuarine communities' contribution to bioturbation under the experimental effect of marine heatwaves
Cited by: 3
Author(s): Marina Dolbeth, O. Babe, Dimitri Araujo Costa, Ana P. Mucha, P.G. Cardoso, Francisco Arenas
Software Mentions: 4
Published: about 5 years ago

10.1007/s00442-016-3729-8

Temporal effects of hunting on foraging behavior of an apex predator: Do bears forego foraging when risk is high?
Cited by: 65
Author(s): Anne G. Hertel, Andreas Zedrosser, Atle Mysterud, Ole‐Gunnar Støen, Sam M. J. G. Steyaert, Jon E. Swenson
Software Mentions: 4
Published: almost 10 years ago

10.1186/s12864-016-2950-5

The influence of trematode parasite burden on gene expression in a mammalian host
Cited by: 9
Author(s): Bhagya K. Wijayawardena, Dennis J. Minchella, J. Andrew DeWoody
Software Mentions: 4
Published: almost 10 years ago

10.1186/s12865-021-00415-x

Predicting the allergenicity of legume proteins using a PBMC gene expression assay
Cited by: 2
Author(s): Mark Smits, Marjolein Meijerink, Thuy‐My Le, André C. Knulst, Aard de Jong, Martinus Petrus Maria Caspers, Everton Souto Lima, Lilia M. Babé, Gregory S. Ladics, Scott McClain, Geert F. Houben, Kitty Verhoeckx
Software Mentions: 4
Published: over 5 years ago

10.1016/j.celrep.2020.107748

Chromatin Priming Renders T Cell Tolerance-Associated Genes Sensitive to Activation below the Signaling Threshold for Immune Response Genes
Cited by: 20
Author(s): Sarah L Bevington, Sky T. H. Ng, Graham J. Britton, Peter Keane, David C. Wraith, Peter N. Cockerill
Software Mentions: 4
Published: about 6 years ago

10.3390/biology10070665

FLAME: A Web Tool for Functional and Literature Enrichment Analysis of Multiple Gene Lists
Cited by: 22
Author(s): Foteini Thanati, Evangelos Karatzas, Fotis A. Baltoumas, Dimitrios J. Stravopodis, Aristides G. Eliopoulos, Georgios A. Pavlopoulos
Software Mentions: 4
Published: about 5 years ago

10.1007/s13238-017-0480-9

TDP-43 regulates cancer-associated microRNAs
Cited by: 28
Author(s): Xiaowei Chen, Zhen Fan, W Ambrose McGee, Mengmeng Chen, Ruirui Kong, Pushuai Wen, Tengfei Xiao, Xiaomin Chen, Jianghong Liu, Li Zhu, Runsheng Chen, Jane Y. Wu
Software Mentions: 4
Published: almost 9 years ago

10.1371/journal.pntd.0005973

Developing a dengue forecast model using machine learning: A case study in China
Cited by: 141
Author(s): Pi Guo, Tao Liu, Qin Zhang, Li Wang, Jianpeng Xiao, Qingying Zhang, Ganfeng Luo, Zhihao Li, Jianfeng He, Yonghui Zhang
Software Mentions: 4
Published: almost 9 years ago

10.1038/s41598-019-38900-4

Fine scale spatial variability in the influence of environmental cycles on the occurrence of dolphins at coastal sites
Cited by: 8
Author(s): Oihane Fernandez-Betelu, Isla M. Graham, Thomas Cornulier, Paul M. Thompson
Software Mentions: 4
Published: over 7 years ago

10.1534/g3.118.200560

Mushroom Body Specific Transcriptome Analysis Reveals Dynamic Regulation of Learning and Memory Genes After Acquisition of Long-Term Courtship Memory in <i>Drosophila</i>
Cited by: 28
Author(s): Spencer G. Jones, Kevin C.J. Nixon, Melissa C. Chubak, Jamie M. Kramer
Software Mentions: 4
Published: over 7 years ago

10.3390/ani11041002

Differentially Expressed Gene Patterns in Ascarid-Infected Chickens of Higher- or Lower-Performing Genotypes
Cited by: 0
Author(s): Isabel Kilic, Manuel Stehr, Mark Hennies, C. C. Metges, Sören Franzenburg, Clemens Falker‐Gieske, Jens Tetens, Gürbüz Daş
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0115964

A Note on an Exon-Based Strategy to Identify Differentially Expressed Genes in RNA-Seq Experiments
Cited by: 12
Author(s): Asta Laiho, Laura L. Elo
Software Mentions: 4
Published: over 11 years ago

10.7717/peerj.6222

LiBiNorm: an htseq-count analogue with improved normalisation of Smart-seq2 data and library preparation diagnostics
Cited by: 21
Author(s): Nigel P. Dyer, Vahid Shahrezaei, Daniel Hebenstreit
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pgen.1008361

An osteocalcin-deficient mouse strain without endocrine abnormalities
Cited by: 74
Author(s): Cassandra R. Diegel, Steven Hann, Ugur M. Ayturk, Jennifer C. W. Hu, Kyung-Eun Lim, Casey J. Droscha, Zachary Madaj, Gabrielle E. Foxa, Isaac Izaguirre, Vai Vivarium And Transgenics Core, Noorulain Paracha, Bohdan Pidhaynyy, Terry L. Dowd, Alexander G. Robling, Matthew L. Warman, Bart O. Williams
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0217306

Molecular analysis of the endobronchial stent microbial biofilm reveals bacterial communities that associate with stent material and frequent fungal constituents
Cited by: 13
Author(s): John E. McGinniss, Ize Imai, Áurea Simón-Soro, Melanie C. Brown, Vincent R. Knecht, Laura Frye, Priyanka M. Ravindran, Marisol I. Dothard, Dylan A. Wadell, Michael B. Sohn, Hongzhe Li, Jason D. Christie, Joshua M. Diamond, Andrew R. Haas, Anthony R. Lanfranco, David M. DiBardino, Frederic D. Bushman, Ronald G. Collman
Software Mentions: 4
Published: about 7 years ago

10.1371/journal.pgen.1006903

Krox20 hindbrain regulation incorporates multiple modes of cooperation between cis-acting elements
Cited by: 17
Author(s): Elodie Thierion, Johan Le Men, Samuel Collombet, Céline Hernandez, Fanny Coulpier, Patrick Torbey, Morgane Thomas‐Chollier, Daan Noordermeer, Patrick Charnay, Pascale Gilardi-Hebenstreit
Software Mentions: 4
Published: about 9 years ago

10.1186/s10020-021-00311-5

Taxonomic variations in the gut microbiome of gout patients with and without tophi might have a functional impact on urate metabolism
Cited by: 27
Author(s): Eder Orlando Méndez-Salazar, Janitzia Vázquez‐Mellado, Carlos S. Casimiro-Soriguer, Joaquín Dopazo, Cankut Çubuk, Yessica Zamudio-Cuevas, Adriana Francisco-Balderas, Karina Martínez-Flores, Javier Fernández‐Torres, Carlos Lozada, Carlos Pineda, Austreberto Sánchez-González, Luis H. Silveira, Ana I. Burguete-García, Citlalli Orbe-Orihuela, Alfredo Lagunas‐Martínez, Alonso Vazquez-Gomez, Alberto López‐Reyes, Berenice Palacios‐González, Gabriela Angélica Martínez‐Nava
Software Mentions: 4
Published: about 5 years ago

10.1038/s41598-019-39615-2

Multiple molecular defense strategies in Brachypodium distachyon surmount Hessian fly (Mayetiola destructor) larvae-induced susceptibility for plant survival
Cited by: 9
Author(s): Subhashree Subramanyam, Jill A. Nemacheck, Andrea M. Hargarten, Nagesh Sardesai, Brandon J. Schemerhorn, Christie E. Williams
Software Mentions: 4
Published: over 7 years ago

10.1186/s12862-018-1288-9

Evolutionary diversity and novelty of DNA repair genes in asexual Bdelloid rotifers
Cited by: 16
Author(s): Bette Hecox-Lea, David B. Mark Welch
Software Mentions: 4
Published: over 7 years ago

10.7554/eLife.52621

FMRP promotes RNA localization to neuronal projections through interactions between its RGG domain and G-quadruplex RNA sequences
Cited by: 78
Author(s): Raeann Goering, Laura I. Hudish, Bryan B. Guzman, Nisha Raj, Gary J. Bassell, Holger A. Russ, Daniel Domínguez, J. Matthew Taliaferro
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0209313

Mangroves in the Galapagos islands: Distribution and dynamics
Cited by: 16
Author(s): Nicolás Moity, Byron Delgado, Pelayo Salinas‐de‐León
Software Mentions: 4
Published: over 7 years ago

10.1186/s13068-015-0248-5

Genome-wide analysis of the endoplasmic reticulum stress response during lignocellulase production in Neurospora crassa
Cited by: 52
Author(s): Fan Feng, Guoli Ma, Jingen Li, Qian Liu, J. Philipp Benz, Chaoguang Tian, Yanhe Ma
Software Mentions: 4
Published: over 11 years ago

10.1177/2325958219835786

In-Clinic Adolescent Peer Group Support for Engagement in Sub-Saharan Africa: A Feasibility and Acceptability Trial
Cited by: 13
Author(s): David H. Barker, Anthony Enimil, Omar Galárraga, Dennis Bosomtwe, Nicholas Karikari Mensah, Sneha Thamotharan, Esther Henebeng, Larry K. Brown, Awewura Kwara
Software Mentions: 4
Published: over 7 years ago

10.1186/s12916-020-01724-5

Antibody responses to a suite of novel serological markers for malaria surveillance demonstrate strong correlation with clinical and parasitological infection across seasons and transmission settings in The Gambia
Cited by: 20
Author(s): Lindsey Wu, Julia Mwesigwa, Muna Affara, Mamadou Bah, Simon Correa, Tom Hall, Susheel K. Singh, James G. Beeson, Kevin K. A. Tetteh, Immo Kleinschmidt, Umberto D’Alessandro, Chris Drakeley
Software Mentions: 4
Published: almost 6 years ago

10.1128/AEM.01003-19

Genomic and Seasonal Variations among Aquatic Phages Infecting the Baltic Sea Gammaproteobacterium <i>Rheinheimera</i> sp. Strain BAL341
Cited by: 20
Author(s): Emelie Nilsson, K. Li, Jimmy Fridlund, Sigitas Šulčius, Carina Bunse, Christofer M. G. Karlsson, Markus V. Lindh, Daniel Lundin, Jarone Pinhassi, Karin Holmfeldt
Software Mentions: 4
Published: almost 7 years ago

10.1002/ece3.5388

Plant community responses to environmentally friendly piste management in northeast Iran
Cited by: 10
Author(s): Mohammad Bagher Erfanian, Hamid Ejtehadi, Jamil Vaezi, Hamid Moazzeni, Farshid Memariani, Mohammad Firouz‐Jahantigh
Software Mentions: 4
Published: about 7 years ago

10.1186/s12859-018-2371-3

Integrating omics datasets with the OmicsPLS package
Cited by: 48
Author(s): Said el Bouhaddani, Hae‐Won Uh, Geurt Jongbloed, Caroline Hayward, Lucija Klarić, Szymon M. Kiełbasa, Jeanine J. Houwing‐Duistermaat
Software Mentions: 4
Published: almost 8 years ago

10.1093/database/baz156

RBPTD: a database of cancer-related RNA-binding proteins in humans
Cited by: 9
Author(s): Kun Li, Zhiwei Guo, Xiang-Ming Zhai, Xiaobo Yang, Yangyang Wu, Tiancai Liu
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-019-46303-8

Study of the impact of long-duration space missions at the International Space Station on the astronaut microbiome
Cited by: 132
Author(s): Alexander A. Voorhies, C. Mark Ott, Satish K. Mehta, Duane L. Pierson, Brian Crucian, Alan H. Feiveson, Cherie Oubre, Manolito Torralba, Kelvin Moncera, Yun Zhang, Eduardo Zurek, Hernán Lorenzi
Software Mentions: 4
Published: about 7 years ago

10.3389/fvets.2017.00244

Drivers of Live Cattle Price in the Livestock Trading System of Central Cameroon
Cited by: 3
Author(s): Paolo Carlo Motta, Ian Handel, Gustaf Rydevik, Saidou M. Hamman, Victor Ngu Ngwa, Vincent N. Tanya, K. L. Morgan, Barend M. deC. Bronsvoort, Thibaud Porphyre
Software Mentions: 4
Published: over 8 years ago

10.1371/journal.pcbi.1003130

Hierarchical Modeling for Rare Event Detection and Cell Subset Alignment across Flow Cytometry Samples
Cited by: 74
Author(s): Andrew Cron, Cécile Gouttefangeas, Jacob Frelinger, Lin Lin, Satwinder Singh, Cedrik M. Britten, Marij J.P. Welters, Sjoerd H. van der Burg, Mike West, Cliburn Chan
Software Mentions: 4
Published: about 13 years ago

10.1371/journal.pone.0211705

Little cigars and cigarillos harbor diverse bacterial communities that differ between the tobacco and the wrapper
Cited by: 11
Author(s): Suhana Chattopadhyay, Eoghan M. Smyth, Prachi Kulkarni, Kelsey R. Babik, Molly C. Reid, Lauren E. Hittle, Pamela I. Clark, Emmanuel F. Mongodin, Amy R. Sapkota
Software Mentions: 4
Published: over 7 years ago

10.7554/eLife.38190

A kinematic synergy for terrestrial locomotion shared by mammals and birds
Cited by: 26
Author(s): Giovanna Catavitello, Yuri P. Ivanenko, Francesco Lacquaniti
Software Mentions: 4
Published: almost 8 years ago

10.1038/sdata.2018.89

A collection of public transport network data sets for 25 cities
Cited by: 58
Author(s): Rainer Kujala, Christoffer Weckström, Richard K. Darst, Miloš N. Mladenović, Jari Saramäki
Software Mentions: 4
Published: about 8 years ago

10.1038/s41598-017-08065-z

The impact of human population pressure on flying fox niches and the potential consequences for Hendra virus spillover
Cited by: 29
Author(s): Michael Walsh, Anke Wiethoelter, M. A. Haseeb
Software Mentions: 4
Published: almost 9 years ago

10.3390/healthcare8040558

Impact of the COVID-19 Pandemic on Manual Therapy Service Utilization within the Australian Private Healthcare Setting
Cited by: 17
Author(s): Reidar P. Lystad, Benjamin T. Brown, M. V. Swain, Roger Engel
Software Mentions: 4
Published: over 5 years ago

10.1016/j.heliyon.2021.e07258

EEG signal analysis using classification techniques: Logistic regression, artificial neural networks, support vector machines, and convolutional neural networks
Cited by: 34
Author(s): María C. M. de Guerrero, Juan Sebastián Parada, Helbert Eduardo Espitia
Software Mentions: 4
Published: about 5 years ago

10.3390/s21030772

Multi-Layer Blockchain-Based Security Architecture for Internet of Things
Cited by: 58
Author(s): Houshyar Honar Pajooh, M. A. Rashid, Fakhrul Alam, Serge Demidenko
Software Mentions: 4
Published: over 5 years ago

10.1007/s13592-019-00716-6

Assessing virulence of Varroa destructor mites from different honey bee management regimes
Cited by: 9
Author(s): Travis L. Dynes, Jennifer A. Berry, Keith S. Delaplane, Jacobus C. de Roode, Berry J. Brosi
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0071145

Optic Neuritis Is Associated with Inner Nuclear Layer Thickening and Microcystic Macular Edema Independently of Multiple Sclerosis
Cited by: 100
Author(s): Falko Kaufhold, Hanna Zimmermann, Eric Schneider, Klemens Ruprecht, Friedemann Paul, Timm Oberwahrenbrock, Alexander U. Brandt
Software Mentions: 4
Published: almost 13 years ago

10.1186/s13059-017-1277-0

stageR: a general stage-wise method for controlling the gene-level false discovery rate in differential expression and differential transcript usage
Cited by: 72
Author(s): Koen Van den Berge, Charlotte Soneson, Mark D. Robinson
Software Mentions: 4
Published: almost 9 years ago

10.1371/journal.pbio.3000849

In vivo antiviral host transcriptional response to SARS-CoV-2 by viral load, sex, and age
Cited by: 203
Author(s): Nicole A P Lieberman, Vikas Peddu, Hong Xie, Lasata Shrestha, Meei Li Huang, Megan Mears, Maria N.B. Cajimat, Dennis A. Bente, Pei Yong Shi, Francesca T. Bovier, Pavitra Roychoudhury, Keith R. Jerome, Anne Moscona, Matteo Porotto, Alexander L. Greninger
Software Mentions: 4
Published: almost 6 years ago

10.3389/fmicb.2020.00912

Microbial Composition and Functional Diversity Differ Across Urban Green Infrastructure Types
Cited by: 25
Author(s): Amanjit Gill, Kai Purnell, Matthew I. Palmer, Jaime A. Stein, Krista L. McGuire
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0245243

Potential role of the skin and gut microbiota in premenarchal vulvar lichen sclerosus: A pilot case-control study
Cited by: 13
Author(s): Suhana Chattopadhyay, Justin D. Arnold, Leena Malayil, Lauren E. Hittle, Emmanuel F. Mongodin, Kalyani Marathe, Veronica Gómez-Lobo, Amy R. Sapkota
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pgen.1009734

Recovery from heat shock requires the microRNA pathway in Caenorhabditis elegans
Cited by: 10
Author(s): Delaney C Pagliuso, Devavrat M Bodas, Amy E. Pasquinelli
Software Mentions: 4
Published: almost 5 years ago

10.1093/database/baw052

ToxDB: pathway-level interpretation of drug-treatment data
Cited by: 18
Author(s): Christopher Hardt, Moritz Emanuel Beber, Axel Rasche, Atanas Kamburov, Dennie G. A. J. Hebels, Jos Kleinjans, Ralf Herwig
Software Mentions: 4
Published: over 10 years ago

10.1371/journal.pone.0223397

Brief communication: Long-term absence of Langerhans cells alters the gene expression profile of keratinocytes and dendritic epidermal T cells
Cited by: 10
Author(s): Qingtai Su, Aurélie Bouteau, Jacob Cardenas, Uthra Balaji, Yuanyaun Wang, Cynthia Smitherman, Jin Gu, Botond Z. Igyártó
Software Mentions: 4
Published: over 6 years ago

10.1186/s12864-017-4411-1

A multi-omics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees
Cited by: 22
Author(s): Ogonna Obudulu, Niklas Mähler, Tomas Skotare, Joakim Bygdell, Ilka Nacif Abreu, Maria Ahnlund, Madhavi Latha Gandla, Anna Petterle, Thomas Moritz, Torgeir R. Hvidsten, Leif J. Jönsson, Gunnar Wingsle, Johan Trygg, Hannele Tuominen
Software Mentions: 4
Published: over 8 years ago

10.7717/peerj.8583

A comparative study of machine learning algorithms for predicting acute kidney injury after liver cancer resection
Cited by: 19
Author(s): Lei Lei, Ying Wang, Qingyun Xue, Jianhua Tong, Chengmao Zhou, Jianjun Yang
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0201690

Strap associates with Csde1 and affects expression of select Csde1-bound transcripts
Cited by: 5
Author(s): Kat Moore, Nurcan Yağcı, Floris van Alphen, Alexander B. Meijer, Peter A.C. ’t Hoen, Marieke von Lindern
Software Mentions: 4
Published: almost 8 years ago

10.3390/cancers13051007

A Lung Organotypic Coculture Reveals a Role for TFEB-Lysosomal Axis in the Survival of Disseminated Dormant Cancer Cells
Cited by: 5
Author(s): Manuela Zangrossi, Probir Chakravarty, Patrizia Romani, Sirio Dupont, Steven Hooper, Erik Sahai, Marco Montagner
Software Mentions: 4
Published: over 5 years ago

10.3390/ani10010002

Atmospheric Ammonia Affects Myofiber Development and Lipid Metabolism in Growing Pig Muscle
Cited by: 10
Author(s): Shouwei Tang, Jingjing Xie, Sheng Zhang, Weida Wu, Bao Yi, Hongfu Zhang
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-021-95000-y

Rodent host population dynamics drive zoonotic Lyme Borreliosis and Orthohantavirus infections in humans in Northern Europe
Cited by: 3
Author(s): Mahdi Aminikhah, Jukka T. Forsman, Esa Koskela, Tapio Mappes, Jussi Sane, Jukka Ollgren, Sami M. Kivelä, Eva R. Kallio
Software Mentions: 4
Published: almost 5 years ago

10.1186/s12920-020-00800-2

TOP2A and CENPF are synergistic master regulators activated in cervical cancer
Cited by: 17
Author(s): Beiwei Yu, Long Chen, Weina Zhang, Yue Li, Yibiao Zhang, Yuan Gao, Xianlin Teng, Libo Zou, Qian Wang, Huiying Jia, Xiangtao Liu, Hui Zheng, Ping Hou, Hongyan Yu, Ying Sun, Zhiqin Zhang, Ping Zhang, Liqin Zhang
Software Mentions: 4
Published: almost 6 years ago

10.3390/vaccines9060664

In Vitro Characterization of the Innate Immune Pathways Engaged by Live and Inactivated Tick-Borne Encephalitis Virus
Cited by: 3
Author(s): Aurora Signorazzi, Jeroen L. A. Pennings, Marilena P. Etna, Malou Noya, Eliana M. Coccia, Anke Huckriede
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0218899

Hybrid gene misregulation in multiple developing tissues within a recent adaptive radiation of Cyprinodon pupfishes
Cited by: 16
Author(s): Joseph A. McGirr, Christopher H. Martin
Software Mentions: 4
Published: about 7 years ago

10.1128/mSystems.00161-21

Rapid Response of Nitrogen Cycling Gene Transcription to Labile Carbon Amendments in a Soil Microbial Community
Cited by: 17
Author(s): Peter F. Chuckran, Viacheslav Y. Fofanov, Bruce A. Hungate, Ember M. Morrissey, Egbert Schwartz, Jeth Walkup, Paul Dijkstra
Software Mentions: 4
Published: about 5 years ago

10.1002/pld3.241

Control of translation during the unfolded protein response in maize seedlings: Life without PERKs
Cited by: 9
Author(s): Pulkit Kanodia, Paramasivan Vijayapalani, Renu Srivastava, Ran Bi, Peng Liu, W. Allen Miller, Stephen H. Howell
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0216286

Reduced density and visually complex apiaries reduce parasite load and promote honey production and overwintering survival in honey bees
Cited by: 28
Author(s): Travis L. Dynes, Jennifer A. Berry, Keith S. Delaplane, Berry J. Brosi, Jacobus C. de Roode
Software Mentions: 4
Published: about 7 years ago

10.1371/journal.pone.0247534

Lettuce (Lactuca sativa) productivity influenced by microbial inocula under nitrogen-limited conditions in aquaponics
Cited by: 9
Author(s): Jessica A. Day, Christian Diener, Anne E. Otwell, Kourtney E. Tams, Brad M. Bebout, Angela M. Detweiler, Michael Lee, Madeline T. Scott, Wilson Ta, Monica Ha, Shienna A. Carreon, Kenny Tong, Abdirizak A. Ali, Sean M. Gibbons, Nitin S. Baliga
Software Mentions: 4
Published: over 5 years ago

10.3389/fgene.2020.608325

Comparative Transcriptome Analysis During the Seven Developmental Stages of Channel Catfish (Ictalurus punctatus) and Tra Catfish (Pangasianodon hypophthalmus) Provides Novel Insights for Terrestrial Adaptation
Cited by: 1
Author(s): Xiaoli Ma, Mei Shang, Baofeng Su, Anne A. Wiley, Max R. Bangs, Veronica Alston, Rhoda Mae C. Simora, Mai Thi Thanh Nguyen, Nathan J. C. Backenstose, Anthony G. Moss, Dương Thúy Yên, Xiaozhu Wang, Rex A. Dunham
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pgen.1008617

Inhibition of the oligosaccharyl transferase in Caenorhabditis elegans that compromises ER proteostasis suppresses p38-dependent protection against pathogenic bacteria
Cited by: 8
Author(s): Dae‐Eun Jeong, Yujin Lee, Seokjin Ham, Dong-Yeop Lee, Sujeong Kwon, Hae‐Eun H. Park, Sunyoung Hwang, Joo‐Yeon Yoo, Tae-Young Roh, Seung-Jae Lee
Software Mentions: 4
Published: over 6 years ago

10.1186/s12864-020-6524-1

Transcriptome sequencing and whole genome expression profiling of hexaploid sweetpotato under salt stress
Cited by: 17
Author(s): Mohamed Hamed Arisha, Hesham Aboelnasr, Muhammad Qadir Ahmad, Yaju Liu, Wei Tang, Runfei Gao, Hui Yan, Meng Kou, Xin Wang, Yungang Zhang, Qiang Li
Software Mentions: 4
Published: over 6 years ago

10.1186/1471-2164-14-87

The transcriptome of the invasive eel swimbladder nematode parasite Anguillicola crassus
Cited by: 8
Author(s): Emanuel Heitlinger, Stephen Bridgett, Anna Montazam, Horst Taraschewski, Mark Blaxter
Software Mentions: 4
Published: over 13 years ago

10.1186/s12920-020-00785-y

Transcriptome analysis of peripheral whole blood identifies crucial lncRNAs implicated in childhood asthma
Cited by: 12
Author(s): Peiyan Zheng, Chen Huang, Dongliang Leng, Baoqing Sun, Xiaohua Douglas Zhang
Software Mentions: 4
Published: almost 6 years ago

10.3390/jcm8091424

Nutritional Therapy Modulates Intestinal Microbiota and Reduces Serum Levels of Total and Free Indoxyl Sulfate and P-Cresyl Sulfate in Chronic Kidney Disease (Medika Study)
Cited by: 73
Author(s): Biagio Raffaele Di Iorio, Maria Teresa Rocchetti, Maria De Angelis, Carmela Cosola, Stefania Marzocco, Lucia Di Micco, Ighli di Bari, Matteo Accetturo, Mirco Vacca, Marco Gobbetti, Mattia Di Iorio, Antonio Bellasi, Loreto Gesualdo
Software Mentions: 4
Published: almost 7 years ago

10.1155/2013/873595

A Gradient Boosting Algorithm for Survival Analysis via Direct Optimization of Concordance Index
Cited by: 57
Author(s): Yifei Chen, Zhenyu Jia, Dan Mercola, Xiaohui Xie
Software Mentions: 4
Published: over 13 years ago

10.1038/s41598-020-72296-w

Sex-related impacts on clinical outcomes after percutaneous coronary intervention
Cited by: 6
Author(s): Hyun Woo Park, Seungbong Han, Gyung‐Min Park, Soe Hee Ann, Jon Suh, Yong-Giun Kim, Seung-Whan Lee
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pgen.1007530

Powerful gene set analysis in GWAS with the Generalized Berk-Jones statistic
Cited by: 31
Author(s): Ryan Sun, Shirley Hui, Gary D. Bader, Xihong Lin, Peter Kraft
Software Mentions: 4
Published: over 7 years ago

10.3389/fcimb.2021.622550

Comparison of Two Approaches for the Metataxonomic Analysis of the Human Milk Microbiome
Cited by: 7
Author(s): Lorena Ruíz, Claudio Alba, Cristina García-Carral, Esther Jiménez, Kimberly A. Lackey, Michelle K. McGuire, Courtney L. Meehan, James A. Foster, Daniel Sellen, Elizabeth Kamau-Mbuthia, Egidioh W. Kamundia, Samwel Mbugua, Sophie E. Moore, Andrew M. Prentice, Debela Gindola K, Gloria E. Otoo, Rossina G. Pareja, Lars Bode, Mark A. McGuire, Janet E. Williams, Juan M. Rodríguez
Software Mentions: 4
Published: over 5 years ago

10.1186/s12864-019-6204-1

Transcriptome profiling of ‘Kyoho’ grape at different stages of berry development following 5-azaC treatment
Cited by: 7
Author(s): Da‐Long Guo, Qiong Li, Xiao-Ru Ji, Zhenguang Wang, Yi‐He Yu
Software Mentions: 4
Published: over 6 years ago

10.3390/cancers12102844

Target Enrichment Enables the Discovery of lncRNAs with Somatic Mutations or Altered Expression in Paraffin-Embedded Colorectal Cancer Samples
Cited by: 6
Author(s): Susana Iraola-Guzmán, Anna Brunet-Vega, Cinta Pegueroles, Ester Saus, Hrant Hovhannisyan, Àlex Casalots, Carles Pericay, Toni Gabaldón
Software Mentions: 4
Published: almost 6 years ago

10.1111/1755-0998.13012

Have the cake and eat it: Optimizing nondestructive DNA metabarcoding of macroinvertebrate samples for freshwater biomonitoring
Cited by: 40
Author(s): Filipa M. S. Martins, Mafalda Galhardo, Ana Filipa Filipe, Amílcar Teixeira, Paulo D. P. Pinheiro, Joana Paupério, Paulo C. Alves, Pedro Beja
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.ppat.1009789

Pulmonary mesenchymal stem cells are engaged in distinct steps of host response to respiratory syncytial virus infection
Cited by: 5
Author(s): Melanie Brügger, Thomas Démoulins, G. Tuba Barut, Béatrice Zumkehr, Blandina I. Oliveira Esteves, Kemal Mehinagic, Quentin Haas, Aline Schögler, Marie‐Anne Rameix‐Welti, Jean François Eléouët, Ueli Moehrlen, Thomas Marti, Ralph A. Schmid, Artur Summerfield, Horst Posthaus, Nicolas Ruggli, Sean Hall, Marco P. Alves
Software Mentions: 4
Published: about 5 years ago

10.7554/eLife.56720

CARD14E138A signalling in keratinocytes induces TNF-dependent skin and systemic inflammation
Cited by: 14
Author(s): Joan Manils, Louise V. Webb, Ashleigh Howes, Julia Janzen, Stefan Boeing, Anne M. Bowcock, Steven C. Ley
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0175528

The integrative omics of white-rot fungus Pycnoporus coccineus reveals co-regulated CAZymes for orchestrated lignocellulose breakdown
Cited by: 61
Author(s): Shingo Miyauchi, David Navarro, Sacha Grisel, Didier Chevret, Jean‐Guy Berrin, Marie Noelle Rosso
Software Mentions: 4
Published: over 9 years ago

10.1038/s41438-021-00566-3

Sex-biased genes and metabolites explain morphologically sexual dimorphism and reproductive costs in Salix paraplesia catkins
Cited by: 8
Author(s): Zeyu Cai, Congcong Yang, Jianchun Liao, Haifeng Song, Sheng Zhang
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pgen.1009770

The genetics and evolution of eye color in domestic pigeons (Columba livia)
Cited by: 5
Author(s): Si Si, Xiao Xu, Yan Zhuang, Xiao‐Dong Gao, Honghai Zhang, Zhengting Zou, Shu‐Jin Luo
Software Mentions: 4
Published: almost 5 years ago

10.1016/j.devcel.2020.09.025

Functional Diversification of SRSF Protein Kinase to Control Ubiquitin-Dependent Neurodevelopmental Signaling
Cited by: 27
Author(s): Francisco Bustos, Anna Segarra-Fas, Gino Nardocci, Andrew Cassidy, Odetta Antico, L. S. P. Davidson, Lennart Brandenburg, Thomas Macartney, Rachel Toth, Claire Hastie, Jennifer L. Moran, Robert Gourlay, Joby Varghese, Renata Soares, Martín Montecino, Greg M. Findlay
Software Mentions: 4
Published: over 5 years ago

10.1186/s40168-018-0446-z

Reproducible protocols for metagenomic analysis of human faecal phageomes
Cited by: 127
Author(s): Andrey N. Shkoporov, Feargal J. Ryan, Lorraine A. Draper, Amanda Forde, Stephen R. Stockdale, Karen Daly, Siobhan A. McDonnell, James A. Nolan, Thomas D.S. Sutton, Marion Dalmasso, A. McCann, R. Paul Ross, Colin Hill
Software Mentions: 4
Published: over 8 years ago