cran: ggplot2 | Projects | Ecosyste.ms: Papers

10.1016/j.molmet.2020.101078

Wnt/β-catenin signaling regulates adipose tissue lipogenesis and adipocyte-specific loss is rigorously defended by neighboring stromal-vascular cells
Cited by: 44
Author(s): Devika P. Bagchi, Akira Nishii, Ziru Li, Jennifer B. DelProposto, Callie A.S. Corsa, Hiroyuki Mori, Julie Hardij, Brian S. Learman, Carey N. Lumeng, Ormond A. MacDougald
Software Mentions: 4
Published: over 5 years ago

10.1111/mmi.12977

<scp>K</scp>dm<scp>A</scp>, a histone<scp>H</scp>3 demethylase with bipartite function, differentially regulates primary and secondary metabolism in<scp>A</scp>spergillus nidulans
Cited by: 41
Author(s): Agnieszka Gacek‐Matthews, Luke M. Noble, Clemens Gruber, Harald Berger, Michael Sulyok, Ana T. Marcos, Joseph Strauss, Alex Andrianopoulos
Software Mentions: 4
Published: about 11 years ago

10.1111/mmi.14417

BactMAP: An R package for integrating, analyzing and visualizing bacterial microscopy data
Cited by: 23
Author(s): Renske van Raaphorst, Morten Kjos, Jan‐Willem Veening
Software Mentions: 4
Published: over 6 years ago

10.1007/s12035-020-02128-5

Molecular Regulatory Mechanism and Toxicology of Neurodegenerative Processes in MPTP/Probenecid-Induced Progressive Parkinson’s Disease Mice Model Revealed by Transcriptome
Cited by: 12
Author(s): Weiwei Yang, Wenwen Hao, Zhen Meng, Shuizi Ding, Xiaodi Li, Tao Zhang, Weixiao Huang, Liang Xu, Yu Zhang, Jian Yang, Xiaosong Gu
Software Mentions: 4
Published: over 5 years ago

10.1002/1878-0261.12369

Metabolomic profiling of human lung tumor tissues – nucleotide metabolism as a candidate for therapeutic interventions and biomarkers
Cited by: 37
Author(s): Paula Moreno, Carla Jiménez‐Jiménez, Martín Garrido‐Rodriguez, M. Calderón-Santiago, Susana Molina, Maribel Lara‐Chica, Feliciano Priego‐Capote, A. Salvatierra, Eduardo Muñóz, Marco A. Calzado
Software Mentions: 4
Published: almost 8 years ago

10.3390/ani10122271

Heritability of Teat Condition in Italian Holstein Friesian and Its Relationship with Milk Production and Somatic Cell Score
Cited by: 3
Author(s): Francesco Tiezzi, A Maisano, S. Chessa, M. Luini, Stefano Biffani
Software Mentions: 4
Published: over 5 years ago

10.1002/1878-0261.12073

Stromal SPOCK1 supports invasive pancreatic cancer growth
Cited by: 26
Author(s): Veronique L. Veenstra, Helene Damhofer, Cynthia Waasdorp, Anne Steins, Hemant M. Kocher, Jan Paul Medema, Hanneke W. M. van Laarhoven, Maarten F. Bijlsma
Software Mentions: 4
Published: about 9 years ago

10.1002/1878-0261.12312

N ‐glycan signatures identified in tumor interstitial fluid and serum of breast cancer patients: association with tumor biology and clinical outcome
Cited by: 21
Author(s): Thilde Terkelsen, Vilde Drageset Haakensen, Radka Saldova, Pavel Gromov, Morten Hansen, Henning Stöckmann, Ole Christian Lingjærde, Anne‐Lise Børresen‐Dale, Elena Papaleo, Åslaug Helland, Pauline M. Rudd, Irina Gromova
Software Mentions: 4
Published: about 8 years ago

10.1128/mSphere.00528-19

Antibody-Dependent Dengue Virus Entry Modulates Cell Intrinsic Responses for Enhanced Infection
Cited by: 19
Author(s): Chee-Yong Chan, John Z.H. Low, Esther S. Gan, Eugenia Z. Ong, Summer L. Zhang, Hwee Cheng Tan, Xiaoran Chai, Sujoy Ghosh, Eng Eong Ooi, Kap Luk Chan
Software Mentions: 4
Published: over 6 years ago

10.1128/mSphere.00088-19

Native and Invading Yellow Starthistle (Centaurea solstitialis) Microbiomes Differ in Composition and Diversity of Bacteria
Cited by: 18
Author(s): Patricia Lu‐Irving, Julia G. Harenčár, Hailey Sounart, Shana R. Welles, Sarah M. Swope, David A. Baltrus, Katrina M. Dlugosch
Software Mentions: 4
Published: about 7 years ago

10.3390/ani11041024

Effects of Dietary Protein Level on the Gut Microbiome and Nutrient Metabolism in Tilapia (Oreochromis niloticus)
Cited by: 20
Author(s): Changgeng Yang, Ming Jiang, Xin Lü, Wen Huang
Software Mentions: 4
Published: about 5 years ago

10.3390/ani11092682

Social Behaviour in Zoo Bachelor Groups: A Case Study of Related South American Fur Seals
Cited by: 0
Author(s): Christa Emmett, Mathilda Digby, J. H. Pope, Ellen Williams
Software Mentions: 4
Published: almost 5 years ago

10.1128/mSphere.00626-18

Decreased Snow Cover Stimulates Under-Ice Primary Producers but Impairs Methanotrophic Capacity
Cited by: 15
Author(s): Sarahi L. Garcia, Anna J. Székely, Christoffer Bergvall, Martha Schattenhofer, Sari Peura
Software Mentions: 4
Published: over 7 years ago

10.3390/ani11041175

Is There a Link between Suckling and Manipulation Behavior during Rearing in Pigs?
Cited by: 1
Author(s): Friederike K. Warns, Mehmet Gültaş, Astrid L. van Asten, Tobias Scholz, M. Gerken
Software Mentions: 4
Published: about 5 years ago

10.1128/mSphereDirect.00283-18

Ultrasensitive Capture of Human Herpes Simplex Virus Genomes Directly from Clinical Samples Reveals Extraordinarily Limited Evolution in Cell Culture
Cited by: 46
Author(s): Alexander L. Greninger, Pavitra Roychoudhury, Hong Xie, Amanda M. Casto, Anne Cent, Gregory Pepper, David M. Koelle, Meei‐Li Huang, Anna Wald, Christine Johnston, Keith R. Jerome
Software Mentions: 4
Published: almost 8 years ago

10.1186/s40462-019-0176-2

Mesoscale movement and recursion behaviors of Namibian black rhinos
Cited by: 10
Author(s): Dana Paige Seidel, Wayne L. Linklater, Werner Kilian, Pierre du Preez, Wayne M. Getz
Software Mentions: 4
Published: over 6 years ago

10.3390/vaccines9070731

Sero-Monitoring of Horses Demonstrates the Equivac® HeV Hendra Virus Vaccine to Be Highly Effective in Inducing Neutralising Antibody Titres
Cited by: 8
Author(s): Kim Halpin, Kerryne Graham, Peter A. Durr
Software Mentions: 4
Published: almost 5 years ago

10.3390/ani11082165

Comprehensive Transcriptomic Comparison between Porcine CD8− and CD8+ Gamma Delta T Cells Revealed Distinct Immune Phenotype
Cited by: 7
Author(s): Sang–Wook Kim, Bee-Oh Lim, Sameer-ul-Salam Mattoo, Eunyoung Oh, Chang-Gi Jeong, Won-Il Kim, Kyung-Tai Lee, Sang-Myeong Lee, Junmo Kim
Software Mentions: 4
Published: almost 5 years ago

10.1186/s13567-020-00772-2

Maternal and fetal thyroid dysfunction following porcine reproductive and respiratory syndrome virus2 infection
Cited by: 9
Author(s): J. Alex Pasternak, Daniel J. MacPhee, John C. S. Harding
Software Mentions: 4
Published: about 6 years ago

10.1021/acs.jproteome.0c00992

Human Bone Proteomes before and after Decomposition: Investigating the Effects of Biological Variation and Taphonomic Alteration on Bone Protein Profiles and the Implications for Forensic Proteomics
Cited by: 21
Author(s): Hayley L. Mickleburgh, Ed C. Schwalbe, Andrea Bonicelli, Haruka Mizukami, Federica Sellitto, Sefora Starace, Daniel J. Wescott, David Carter, Noemi Procopio
Software Mentions: 4
Published: over 5 years ago

10.14202/vetworld.2020.1245-1250

Effect of soybean expeller supplementation during the final phase of sow gestation on litter birth weight
Cited by: 0
Author(s): Santiago Masi Mignaco, Ana Alba-Casals, Alicia Carranza, Julián Parada
Software Mentions: 4
Published: over 6 years ago

10.1186/s12967-021-02991-3

Analysis of immune cell components and immune-related gene expression profiles in peripheral blood of patients with type 1 diabetes mellitus
Cited by: 7
Author(s): Jian Lin, Yuanhua Lu, Bizhou Wang, Peng Jiao, Jie Ma
Software Mentions: 4
Published: almost 5 years ago

10.1186/s12985-019-1211-z

The altered gut virome community in rhesus monkeys is correlated with the gut bacterial microbiome and associated metabolites
Cited by: 9
Author(s): Heng Li, Hongzhe Li, Jingjing Wang, Lei Guo, Haitao Fan, Huiwen Zheng, Zening Yang, Xing Huang, Manman Chu, Fengmei Yang, Zhanlong He, Nan Li, Jun Yang, Qiongwen Wu, Hongzhe Shi, Longding Liu
Software Mentions: 4
Published: almost 7 years ago

10.1128/mSphere.00226-16

Microbial Community Patterns Associated with Automated Teller Machine Keypads in New York City
Cited by: 22
Author(s): Holly M. Bik, Julia M. Maritz, Albert Luong, Hakdong Shin, Maria Gloria Domínguez-Bello, Jane M. Carlton
Software Mentions: 4
Published: over 9 years ago

10.1080/21505594.2020.1806665

Tobacco Hornworm (Manduca sexta) caterpillars as a novel host model for the study of fungal virulence and drug efficacy
Cited by: 9
Author(s): Naomi Lyons, Isabel Softley, Andrew Balfour, Carolyn Williamson, Heath O’Brien, Amol Shetty, Vincent M. Bruno, Stephanie Diezmann
Software Mentions: 4
Published: almost 6 years ago

10.1128/mBio.01937-21

Mucosal Bacteria Modulate Candida albicans Virulence in Oropharyngeal Candidiasis
Cited by: 16
Author(s): Martinna Bertolini, Roberto Vázquez-Muñoz, Linda Archambault, Siddharth Shah, João Gabriel Silva Souza, Raphael Cavalcante Costa, Angela Thompson, Yanjiao Zhou, Takanori Sobue, Anna Dongari-Bagtzoglou
Software Mentions: 4
Published: almost 5 years ago

10.1093/ve/vey033

Modeling site-specific amino-acid preferences deepens phylogenetic estimates of viral sequence divergence
Cited by: 11
Author(s): Sarah K Hilton, Jesse D. Bloom
Software Mentions: 4
Published: almost 8 years ago

10.1093/ve/veab034

Metagenomic sequencing reveals a lack of virus exchange between native and invasive freshwater fish across the Murray–Darling Basin, Australia
Cited by: 21
Author(s): Vincenzo A Costa, Jonathon C O Mifsud, Dean M. Gilligan, Jane E. Williamson, Edward C. Holmes, Jemma L. Geoghegan
Software Mentions: 4
Published: over 5 years ago

10.3390/v10120715

Seasonality Drives Microbial Community Structure, Shaping both Eukaryotic and Prokaryotic Host–Viral Relationships in an Arctic Marine Ecosystem
Cited by: 23
Author(s): Ruth‐Anne Sandaa, Julia E. Storesund, Emily Olesin, Maria Lund Paulsen, Aud Larsen, Gunnar Bratbak, Jessica L. Ray
Software Mentions: 4
Published: over 7 years ago

10.3390/v11070675

Δccr5 Genotype Is Associated with Mild Form of Nephropathia Epidemica
Cited by: 2
Author(s): Konstantin Kletenkov, Ekaterina Martynova, Yuriy Davidyuk, Emmanuel Kabwe, А Ф Шамсутдинов, Ekaterina Garanina, Venera Shakirova, И. М. Хаертынова, В. А. Анохин, Rachael Tarlinton, Albert A. Rizvanov, Svetlana F. Khaiboullina, Sergey P. Morzunov
Software Mentions: 4
Published: almost 7 years ago

10.3390/v11121159

Ecology of West Nile Virus in the Danube Delta, Romania: Phylogeography, Xenosurveillance and Mosquito Host-Feeding Patterns
Cited by: 18
Author(s): Alexandru Tomazatos, Stéphanie Jansen, Stefan Pfister, Edina Török, Iulia Maranda, Cintia Horváth, Lujza Keresztes, Marina Spînu, Egbert Tannich, Hanna Jöst, Jonas Schmidt‐Chanasit, Dániel Cadar, Renke Lühken
Software Mentions: 4
Published: over 6 years ago

10.3390/v12010107

Virus Metagenomics in Farm Animals: A Systematic Review
Cited by: 42
Author(s): Ka‐li Kwok, David F. Nieuwenhuijse, My V. T. Phan, Marion Koopmans
Software Mentions: 4
Published: over 6 years ago

10.1128/mBio.01229-21

Diverse Humoral Immune Responses in Younger and Older Adult COVID-19 Patients
Cited by: 18
Author(s): Jennifer Sasson, Joseph J. Campo, Rebecca Carpenter, Mary K. Young, Arlo Randall, Krista Trappl-Kimmons, Amit Oberai, Christopher Hung, Joshua Edgar, Andy Teng, Jozelyn Pablo, Xiaowu Liang, Angela Yee, William A. Petri, David Camerini
Software Mentions: 4
Published: almost 5 years ago

10.3390/v12090922

Impact of Viral Lysis on the Composition of Bacterial Communities and Dissolved Organic Matter in Deep-Sea Sediments
Cited by: 14
Author(s): Mara Elena Heinrichs, Dennis Alexander Tebbe, Bernd Wemheuer, Jutta Niggemann, Bert Engelen
Software Mentions: 4
Published: almost 6 years ago

10.3390/v12111255

Portable Rabies Virus Sequencing in Canine Rabies Endemic Countries Using the Oxford Nanopore MinION
Cited by: 22
Author(s): Crystal M. Gigante, Gowri Yale, Rene Edgar Condori, Niceta Cunha Costa, Nguyen Van Duc Long, Phạm Quang Minh, Vo Dinh Chuong, Nguyen Dang Tho, Nguyen Tat Thanh, Nguyen Xuan Thin, Nguyễn Thị Hồng Hạnh, Gati Wambura, Frederick Ade, Oscar Mito, Veronicah Chuchu, Mathew Muturi, Athman Mwatondo, Katie Hampson, Samuel M. Thumbi, Byron G Thomae, Victor Hugo de Paz, Sergio Meneses, Peninah Munyua, David Morán, Loren Cadena, Andrew D Gibson, Crystal M. Gigante, Emily G. Pieracci, Li Yu
Software Mentions: 4
Published: over 5 years ago

10.3390/v12111285

Bovine Coronavirus: Variability, Evolution, and Dispersal Patterns of a No Longer Neglected Betacoronavirus
Cited by: 15
Author(s): Giovanni Franzo, Michele Drigo, Matteo Legnardi, L. Grassi, Daniela Pasotto, Maria Luisa Menandro, Mattia Cecchinato, Claudia Maria Tucciarone
Software Mentions: 4
Published: over 5 years ago

10.1186/s12941-021-00428-9

The impact of urine microbiota in patients with lower urinary tract symptoms
Cited by: 15
Author(s): Hsiang Ying Lee, Jiunn‐Wei ‐W Wang, Yung Shun Juan, Ching Chia Li, Chung‐Jung Liu, Sung Yong Cho, Hsin Chih Yeh, Kuang Shun Chueh, Wen Jeng Wu, Deng‐Chyang Wu
Software Mentions: 4
Published: about 5 years ago

10.3390/v13010009

Characterization of a Novel Mitovirus of the Sand Fly Lutzomyia longipalpis Using Genomic and Virus–Host Interaction Signatures
Cited by: 14
Author(s): Paula Luize Camargos Fonseca, Flávia V Ferreira, Felipe Silva, Liliane Santana Oliveira, João Trindade Marques, Aristóteles Goés-Neto, Eric Roberto Guimarães Rocha Aguiar, Arthur Gruber
Software Mentions: 4
Published: over 5 years ago

10.1007/s10928-020-09730-z

Population pharmacokinetic modeling of intramuscular and oral dexamethasone and betamethasone in Indian women
Cited by: 8
Author(s): Wojciech Krzyzanski, Mark A. Milad, Alan H. Jobe, Thomas Peppard, Robert R. Bies, William J. Jusko
Software Mentions: 4
Published: over 5 years ago

10.1128/mBio.02318-20

Adaptation of Arginine Synthesis among Uropathogenic Branches of the Escherichia coli Phylogeny Reveals Adjustment to the Urinary Tract Habitat
Cited by: 11
Author(s): Michael E. Hibbing, Karen W. Dodson, Vasilios Kalas, Swaine L. Chen, Scott J. Hultgren
Software Mentions: 4
Published: over 5 years ago

10.1128/mBio.02254-20

CPSF6-Dependent Targeting of Speckle-Associated Domains Distinguishes Primate from Nonprimate Lentiviral Integration
Cited by: 27
Author(s): Wen Li, Parmit K. Singh, Gregory A. Sowd, Gregory J. Bedwell, Sungwoo Jang, Vasudevan Achuthan, Amarachi V. Oleru, Doris Wong, Hind J. Fadel, Kyeongeun Lee, Vineet N. KewalRamani, Eric M. Poeschla, Alon Herschhorn, Alan Engelman
Software Mentions: 4
Published: over 5 years ago

10.12688/wellcomeopenres.15590.1

Evolutionary analysis of the most polymorphic gene family in falciparum malaria
Cited by: 56
Author(s): Thomas D. Otto, Sammy A. Assefa, Ulrike Böhme, Mandy Sanders, Dominic Kwiatkowski, Matthew Berriman, Chris Newbold
Software Mentions: 4
Published: over 6 years ago

10.18632/aging.103859

Weighted gene coexpression network analysis identifies the key role associated with acute coronary syndrome
Cited by: 4
Author(s): Yong Wang, Miao Liu, Tao Lin, Jianhong Chen, Chuan-Meng Zhu, Ye Li, Bin Qi, Fei Liao, Rongshan Li
Software Mentions: 4
Published: over 5 years ago

10.1128/mBio.00766-20

Codon Usage Optimization in the Prokaryotic Tree of Life: How Synonymous Codons Are Differentially Selected in Sequence Domains with Different Expression Levels and Degrees of Conservation
Cited by: 9
Author(s): José Luis López, Mauricio Javier Lozano, María Laura Fabre, Antonio Lagares
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12957-020-02061-w

Development of prognosis model for colon cancer based on autophagy-related genes
Cited by: 9
Author(s): Xu Wang, Yihang Xu, Ting Li, Bin Chen, Wei Yang
Software Mentions: 4
Published: over 5 years ago

10.7717/peerj.5293

Variation in the leaf and root microbiome of sugar maple (Acer saccharum) at an elevational range limit
Cited by: 37
Author(s): Jessica G. Wallace, Isabelle Laforest‐Lapointe, Steven W. Kembel
Software Mentions: 4
Published: almost 8 years ago

10.3390/jpm11030235

Salivary Biomarkers for Dental Caries Detection and Personalized Monitoring
Cited by: 18
Author(s): Pune Nina Paqué, Christopher Herz, Daniel B. Wiedemeier, Konstantinos Mitsakakis, Thomas Attin, Kai Bao, Georgios N. Belibasakis, John P. Hays, Joël S Jenzer, Wendy E. Kaman, Michal Karpíšek, Philipp Körner, Johannes R. Peham, Patrick R. Schmidlin, Thomas Thurnheer, Florian J Wegehaupt, Nagihan Bostancı
Software Mentions: 4
Published: over 5 years ago

10.7717/peerj.4088

PlantCV v2: Image analysis software for high-throughput plant phenotyping
Cited by: 191
Author(s): Malia Gehan, Arash Abbasi, Jeffrey C. Berry, Steven T. Callen, Leonardo Chavez, Andrew N. Doust, Max Feldman, Kerrigan B. Gilbert, John G. Hodge, J. Steen Hoyer, Andy Lin, Suxing Liu, César Lizárraga, Argelia Lorence, Michael D. Miller, Éric Platon, Monica Tessman, Tony Sax
Software Mentions: 4
Published: over 8 years ago

10.7717/peerj.10140

Spatial modeling could not differentiate early SARS-CoV-2 cases from the distribution of humans on the basis of climate in the United States
Cited by: 6
Author(s): Robert S. Harbert, Seth W. Cunningham, Michael Tessler
Software Mentions: 4
Published: over 5 years ago

10.7717/peerj.4512

Playing by the rules? Phenotypic adaptation to temperate environments in an American marsupial
Cited by: 16
Author(s): Sergio Nigenda‐Morales, Ryan J. Harrigan, Robert K. Wayne
Software Mentions: 4
Published: over 8 years ago

10.7717/peerj.10572

Genomic diversity of Escherichia coli from healthy children in rural Gambia
Cited by: 7
Author(s): Ebenezer Foster-Nyarko, Nabil-Fareed Alikhan, Usman N. Ikumapayi, Golam Sarwar, Catherine Okoi, Peggy-Estelle Tientcheu, Marianne Defernez, Justin O’Grady, Martín Antonio, Mark J. Pallen
Software Mentions: 4
Published: over 5 years ago

10.7717/peerj.11948

Quantifying bite force in coexisting tayassuids and feral suids: a comparison between morphometric functional proxies and in vivo measurements
Cited by: 1
Author(s): Fernando Lencastre Sicuro, Luiz Flamarion B. Oliveira, Carla Deonísia Hendges, Carlos Fonseca
Software Mentions: 4
Published: almost 5 years ago

10.7717/peerj.6377

Disentangling the effect of host-genotype and environment on the microbiome of the coral Acropora tenuis
Cited by: 50
Author(s): Bettina Glasl, Caitlin E. Smith, David G. Bourne, Nicole S. Webster
Software Mentions: 4
Published: over 7 years ago

10.7717/peerj.11956

Small-scale variation in a pristine montane cloud forest: evidence on high soil fungal diversity and biogeochemical heterogeneity
Cited by: 1
Author(s): Patricia Vélez, Yunuen Tapia-Torres, Felipe Garcı́a-Oliva, Jaime Gasca-Pineda
Software Mentions: 4
Published: almost 5 years ago

10.7717/peerj.8133

The impact of storage conditions on human stool 16S rRNA microbiome composition and diversity
Cited by: 19
Author(s): Lauren V. Carruthers, Moses Arinaitwe, Moses Adriko, Christina L. Faust, Edridah M. Tukahebwa, Lindsay J. Hall, Lisa Ranford-Cartwright, Poppy H. L. Lamberton
Software Mentions: 4
Published: over 6 years ago

10.3390/antibiotics9110735

Pathogenic Escherichia coli Possess Elevated Growth Rates under Exposure to Sub-Inhibitory Concentrations of Azithromycin
Cited by: 4
Author(s): Tran Tuan-Anh, Ha Thanh Tuyen, Nguyen Ngoc Minh Chau, Nguyen Duc Toan, Tran Hanh Triet, Le Minh Triet, Nguyen Hoang Thu Trang, Nguyen Thi Nguyen To, Josefin Bartholdson Scott, Duy Pham Thanh, Hannah E. Clapham, Stephen Baker
Software Mentions: 4
Published: over 5 years ago

10.7717/peerj.3394

SIX4 promotes metastasis via activation of the PI3K-AKT pathway in colorectal cancer
Cited by: 26
Author(s): Guodong Li, Fang Hu, Xuelai Luo, Jian Hu, Yongzeng Feng
Software Mentions: 4
Published: about 9 years ago

10.7717/peerj.10231

Comparing sediment DNA extraction methods for assessing organic enrichment associated with marine aquaculture
Cited by: 22
Author(s): John K. Pearman, Nigel Keeley, Susanna A. Wood, Olivier Laroche, Anastasija Zaiko, Georgia Thomson‐Laing, Laura Biessy, Javier Atalah, Xavier Pochon
Software Mentions: 4
Published: over 5 years ago

10.1186/s13287-019-1218-9

Mesenchymal stem cells transplanted into spinal cord injury adopt immune cell-like characteristics
Cited by: 25
Author(s): Ramil Hakim, Ruxandra Covacu, Vasilios Zachariadis, Arvid Frostell, Sreenivasa Raghavan Sankavaram, Lou Brundin, Mikael Svensson
Software Mentions: 4
Published: about 7 years ago

10.3390/antibiotics9040208

Prevalence of Virulence Genes and Antimicrobial Resistances in E. coli Associated with Neonatal Diarrhea, Postweaning Diarrhea, and Edema Disease in Pigs from Austria
Cited by: 13
Author(s): René Renzhammer, Igor Loncaric, Franz-Ferdinand Roch, Beate Pinior, Annemarie Käsbohrer, Joachim Spergser, Andrea Ladinig, Christine Unterweger
Software Mentions: 4
Published: about 6 years ago

10.7717/peerj.8938

Diffusion tubes: a method for the mass culture of ctenophores and other pelagic marine invertebrates
Cited by: 11
Author(s): Wyatt L. Patry, MacKenzie M Bubel, Cypress Hansen, Thomas Knowles
Software Mentions: 4
Published: about 6 years ago

10.7717/peerj.5738

The relationship between social rank and spatial learning in pheasants, Phasianus colchicus: cause or consequence?
Cited by: 15
Author(s): Ellis J. G. Langley, Jayden O. van Horik, Mark Whiteside, Christine E. Beardsworth, Joah R. Madden
Software Mentions: 4
Published: over 7 years ago

10.1186/s13018-021-02658-1

Potential genes and pathways associated with heterotopic ossification derived from analyses of gene expression profiles
Cited by: 5
Author(s): Zhanyu Yang, Delong Liu, Rui Guan, Li X, Yiwei Wang, Bin Sheng
Software Mentions: 4
Published: almost 5 years ago

10.7717/peerj.9883

Mayfly emergence production and body length response to hydrology in a tropical lowland stream
Cited by: 4
Author(s): Pablo E. Gutiérrez‐Fonseca, Alonso Ramírez
Software Mentions: 4
Published: almost 6 years ago

10.7717/peerj.5583

Assessment of the bacterial community structure in shallow and deep sediments of the Perdido Fold Belt region in the Gulf of Mexico
Cited by: 22
Author(s): Ma. Fernanda Sánchez-Soto Jiménez, Daniel Cerqueda‐García, Jorge L. Montero-Muñoz, M. Leopoldina Aguirre-Macedo, José Q. García-Maldonado
Software Mentions: 4
Published: almost 8 years ago

10.7717/peerj.3766

The Plasmodium berghei RC strain is highly diverged and harbors putatively novel drug resistance variants
Cited by: 0
Author(s): Warangkhana Songsungthong, Supasak Kulawonganunchai, Alisa Wilantho, Sissades Tongsima, Pongpisid Koonyosying, Chairat Uthaipibull, Sumalee Kamchonwongpaisan, Philip Shaw
Software Mentions: 4
Published: over 8 years ago

10.7717/peerj.11074

Identification of a novel autophagy signature for predicting survival in patients with lung adenocarcinoma
Cited by: 6
Author(s): Jian Duan, Youming Lei, Guoli Lv, Yinqiang Liu, Zhao Wei, Qingmei Yang, Xin Su, Zhijian Song, Leilei Lu, Yunfei Shi
Software Mentions: 4
Published: about 5 years ago

10.7717/peerj.11421

nCov2019: an R package for studying the COVID-19 coronavirus pandemic
Cited by: 9
Author(s): Tianzhi Wu, Erqiang Hu, Xijin Ge, Yu Guo
Software Mentions: 4
Published: about 5 years ago

10.18632/oncotarget.27992

Human papilloma virus circulating tumor DNA assay predicts treatment response in recurrent/metastatic head and neck squamous cell carcinoma
Cited by: 31
Author(s): Catherine T. Haring, Chandan Bhambhani, Collin Brummel, Brittany M. Jewell, Emily L. Bellile, Molly Heft Neal, Erin Sandford, Ryan M Spengler, Apurva Bhangale, Matthew E. Spector, Jonathan B. McHugh, Mark Prince, Michelle Mierzwa, Francis P. Worden, Muneesh Tewari, Paul Swiecicki, J. Chad Brenner
Software Mentions: 4
Published: about 5 years ago

10.7717/peerj.2643

Seasonal regulation of herbivory and nutrient effects on macroalgal recruitment and succession in a Florida coral reef
Cited by: 16
Author(s): Alain Durán, Ligia Collado‐Vides, Deron E. Burkepile
Software Mentions: 4
Published: over 9 years ago

10.7717/peerj.8541

Rhizosphere bacterial and fungal communities during the growth of Angelica sinensis seedlings cultivated in an Alpine uncultivated meadow soil
Cited by: 12
Author(s): An Zhigang, Fengjing Guo, Yuan Chen, Gang Bai, Zhengjun Chen
Software Mentions: 4
Published: over 6 years ago

10.7717/peerj.7844

Effects of research disturbance on nest survival in a mixed colony of waterbirds
Cited by: 4
Author(s): Matthieu Guillemain, Hugo Carré, Lisa Gili
Software Mentions: 4
Published: over 6 years ago

10.7717/peerj.5022

Relationship betweenAcropora milleporajuvenile fluorescence and composition of newly establishedSymbiodiniumassemblage
Cited by: 4
Author(s): Kate M. Quigley, Marie E. Strader, Mikhail V. Matz
Software Mentions: 4
Published: about 8 years ago

10.1186/1479-5876-12-159

An eight-miRNA signature as a potential biomarker for predicting survival in lung adenocarcinoma
Cited by: 95
Author(s): Xuelian Li, Yunrui Shi, Zhihua Yin, Xiaoxia Xue, Baosen Zhou
Software Mentions: 4
Published: about 12 years ago

10.1186/s13395-020-00227-4

Transgenic mice expressing tunable levels of DUX4 develop characteristic facioscapulohumeral muscular dystrophy-like pathophysiology ranging in severity
Cited by: 31
Author(s): Takako I. Jones, Guo-Liang Chew, Pamela Barraza‐Flores, Spencer Schreier, Monique Ramirez, Ryan D. Wuebbles, Dean J. Burkin, Robert K. Bradley
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pgen.1007357

Robustness encoded across essential and accessory replicons of the ecologically versatile bacterium Sinorhizobium meliloti
Cited by: 48
Author(s): George C. diCenzo, Alex B. Benedict, Marco Fondi, Graham C. Walker, Turlough M. Finan, Alessio Mengoni, Joel S. Griffitts
Software Mentions: 4
Published: about 8 years ago

10.1371/journal.pgen.1002604

Gene Reactivation by 5-Aza-2′-Deoxycytidine–Induced Demethylation Requires SRCAP–Mediated H2A.Z Insertion to Establish Nucleosome Depleted Regions
Cited by: 52
Author(s): Xiaojing Yang, Houtan Noushmehr, Han Han, Claudia Andreu-Vieyra, Gangning Liang, Peter A. Jones
Software Mentions: 4
Published: about 14 years ago

10.1371/journal.pgen.1008385

Distinct genetic variation and heterogeneity of the Iranian population
Cited by: 30
Author(s): Zohreh Mehrjoo, Zohreh Fattahi, Maryam Beheshtian, Marzieh Mohseni, Hossein Poustchi, Fariba Ardalani, Khadijeh Jalalvand, Sanaz Arzhangi, Zahra Mohammadi, Shahrouz Khoshbakht, Farid Najafi, Pooneh Nikuei, Mohammad Haddadi, Elham Zohrehvand, Morteza Oladnabi, Akbar Mohammadzadeh, Mandana Hadi Jafari, Tara Akhtarkhavari, Ehsan Shamsi Gooshki, Ali-Akbar Haghdoost, Reza Najafipour, Lisa‐Marie Niestroj, Barbara Helwing, Yasmina Gossmann, Mohammad Reza Toliat, Reza Malekzadeh, Peter Nürnberg, Kimia Kahrizi, Hossein Najmabadi, Michael Nothnagel
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pgen.1007978

Fast and flexible linear mixed models for genome-wide genetics
Cited by: 46
Author(s): Daniel E. Runcie, Lorin Crawford
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pgen.1008348

Demographic history shaped geographical patterns of deleterious mutation load in a broadly distributed Pacific Salmon
Cited by: 35
Author(s): Quentin Rougemont, Jean‐Sébastien Moore, Thibault Leroy, Éric Normandeau, Eric B. Rondeau, Ruth E. Withler, Donald M. Van Doornik, Penelope A. Crane, Kerry A. Naish, John Carlos Garza, Terry D. Beacham, Ben F. Koop, Louis Bernatchez
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pgen.1008326

Methyl-CpG-binding domain 9 (MBD9) is required for H2A.Z incorporation into chromatin at a subset of H2A.Z-enriched regions in the Arabidopsis genome
Cited by: 31
Author(s): Paja Sijacic, Dylan H Holder, Marko Bajic, Roger B. Deal
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pgen.1004137

Accurate and Robust Genomic Prediction of Celiac Disease Using Statistical Learning
Cited by: 97
Author(s): Gad Abraham, Jason A. Tye‐Din, Oneil G. Bhalala, Adam Kowalczyk, Justin Zobel, Michael Inouye
Software Mentions: 4
Published: over 12 years ago

10.18632/oncotarget.27840

miR-708-5p enhances erlotinib/paclitaxel efficacy and overcomes chemoresistance in lung cancer cells
Cited by: 13
Author(s): Nicholas J. Monteleone, Carol S. Lutz
Software Mentions: 4
Published: over 5 years ago

10.3390/s20113031

Performance of a Low-Cost Sensor Community Air Monitoring Network in Imperial County, CA
Cited by: 8
Author(s): Paul English, Heather K. Amato, Esther Bejarano, Graeme Carvlin, Humberto Lugo, Michael Jerrett, Galatea King, Daniel Madrigal, Dan Meltzer, Amanda Northcross, Luis José Imedio Olmedo, Edmund Seto, Christian Torres, A. S. Wilkie, Michelle Wong
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pgen.1007807

Population sequencing reveals clonal diversity and ancestral inbreeding in the grapevine cultivar Chardonnay
Cited by: 79
Author(s): Michael J. Roach, Daniel L. Johnson, Jöerg Bohlmann, H. J. J. Van Vuuren, Steven J.M. Jones, Isak S. Pretorius, Simon A. Schmidt, Anthony R. Borneman
Software Mentions: 4
Published: over 7 years ago

10.3390/s20061778

Estimation of Land Surface Temperature in an Agricultural Region of Bangladesh from Landsat 8: Intercomparison of Four Algorithms
Cited by: 11
Author(s): Qutub Uddin Sajib, Tao Wang
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pgen.1008076

Heterogeneous pathway activation and drug response modelled in colorectal-tumor-derived 3D cultures
Cited by: 57
Author(s): Dirk Schumacher, Geoffroy Andrieux, Karsten Boehnke, Marlen Keil, Alessandra Silvestri, Maxine Silvestrov, Ulrich Keilholz, Johannes Haybaeck, Gerrit Erdmann, Christoph Sachse, Markus F. Templin, Jens Hoffmann, Melanie Boerries, Reinhold Schäfer, Christian Regenbrecht
Software Mentions: 4
Published: about 7 years ago

10.18632/oncotarget.27629

Bacteriome and mycobiome and bacteriome-mycobiome interactions in head and neck squamous cell carcinoma
Cited by: 22
Author(s): Elizabeth Shay, Naseer Sangwan, Roshan Padmanabhan, Scott Lundy, Brian B. Burkey, Charis Eng
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pmed.1002338

Prehospital immune responses and development of multiple organ dysfunction syndrome following traumatic injury: A prospective cohort study
Cited by: 89
Author(s): Jon Hazeldine, David N Naumann, Emma Toman, David Davies, Jonathan Bishop, Zhangjie Su, Peter Hampson, Robert J. Dinsdale, Nicholas Crombie, Niharika Arora Duggal, Paul Harrison, Antonio Belli, Janet M. Lord
Software Mentions: 4
Published: almost 9 years ago

10.1371/journal.pmed.1003656

SARS-CoV-2 neutralizing antibodies: Longevity, breadth, and evasion by emerging viral variants
Cited by: 100
Author(s): Marc Charabati, Alberto Ospina Stella, Anupriya Aggarwal, D.R. Darley, Deepti Pilli, Daniele Vitale, Vera Merheb, Fiona X Z Lee, Philip Cunningham, G. J. Walker, Christina Fichter, David A. Brown, William D. Rawlinson, Sonia R Isaacs, Vennila Mathivanan, Markus Hoffmann, Stefan Pöhlman, Ohan Mazigi, Daniel Christ, Dominic E. Dwyer, Rebecca Rockett, Vitali Sintchenko, Veronica C. Hoad, David O. Irving, Gregory J. Dore, Iain B Gosbell, Anthony D. Kelleher, Gail V. Matthews, Fabienne Brilot, Stuart Turville
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pmed.1002722

Airway obstruction and bronchial reactivity from age 1 month until 13 years in children with asthma: A prospective birth cohort study
Cited by: 33
Author(s): Henrik Wegener Hallas, Bo Chawes, Morten Arendt Rasmussen, Lambang Arianto, Jakob Stokholm, Klaus Bønnelykke, Hans Bisgaard
Software Mentions: 4
Published: over 7 years ago

10.18632/aging.202765

Pan-cancer analysis identifies ITIH1 as a novel prognostic indicator for hepatocellular carcinoma
Cited by: 7
Author(s): Q Q Chang, Ting Mao, Tao Yan, Tao Dong, Xuan-xuan Tang, Ge Gao, Zi‐jun Xu
Software Mentions: 4
Published: over 5 years ago

10.3390/antiox10030498

Characterization of NADPH Oxidase Expression and Activity in Acute Myeloid Leukemia Cell Lines: A Correlation with the Differentiation Status
Cited by: 10
Author(s): Hassan Dakik, Maya El Dor, Joan Leclerc, Farah Kouzi, Ali Nehme, Margaux Deynoux, Christelle Debeissat, Georges Khamis, Elfi Ducrocq, Aida Ibrik, Marie‐José Stasia, Houssam Raad, Hamid Reza Rezvani, Fabrice Gouilleux, Kazem Zibara, Olivier Hérault, Frédéric Mazurier
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pntd.0006236

Forecasting the spatial and seasonal dynamic of Aedes albopictus oviposition activity in Albania and Balkan countries
Cited by: 18
Author(s): Clément Tisseuil, Enkelejda Velo, Silvia Bino, Përparim Kadriaj, Kujtim Mersini, Ada Shukullari, Artan Simaku, Elton Rogozi, Beniamino Caputo, Els Ducheyne, Alessandra della Torre, Paul L. Reiter, Marius Gilbert
Software Mentions: 4
Published: over 8 years ago

10.1126/science.abe3261

Phylogenetic analysis of SARS-CoV-2 in Boston highlights the impact of superspreading events
Cited by: 215
Author(s): Jacob E. Lemieux, Katherine J. Siddle, Bennett Shaw, Christine Loreth, Stephen F. Schaffner, Adrianne Gladden-Young, Gordon Adams, Timelia Fink, Christopher H. Tomkins-Tinch, Lydia A. Krasilnikova, Katherine C. DeRuff, Melissa Rudy, Matthew R. Bauer, Kim A. Lagerborg, Erica Normandin, Sinéad B. Chapman, Steven K. Reilly, Melis N. Anahtar, Aaron E. Lin, Amber Carter, Cameron Myhrvold, Molly Kemball, Sushma Chaluvadi, Caroline Cusick, Katelyn Flowers, Anna Neumann, Felecia Cerrato, Maha Farhat, Damien Slater, Jason B. Harris, John A. Branda, David C. Hooper, Jessie M. Gaeta, Travis P. Baggett, James J. O’Connell, Andreas Gnirke, Tami D. Lieberman, Anthony Philippakis, Meagan Burns, Catherine Brown, Jeremy Luban, Edward T. Ryan, Sarah E Turbett, Regina C. LaRocque, William P. Hanage, Glen R. Gallagher, Lawrence C. Madoff, Sandra Smole, Virginia Pierce, Eric S. Rosenberg, Pardis C. Sabeti, Daniel J. Park, Bronwyn MacInnis
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pntd.0007332

Genome sequencing reveals coinfection by multiple chikungunya virus genotypes in a recent outbreak in Brazil
Cited by: 19
Author(s): Laís Ceschini Machado, Mariana C. Morais-Sobral, Túlio de Lima Campos, Mylena Ribeiro Pereira, Maria de Fátima Pessoa Militão de Albuquerque, Clément Gilbert, Rafael Freitas Oliveira Franca, Gabriel Luz Wallau
Software Mentions: 4
Published: about 7 years ago

10.1371/journal.pntd.0009357

Mark-release-recapture of male Aedes aegypti (Diptera: Culicidae): Use of rhodamine B to estimate movement, mating and population parameters in preparation for an incompatible male program
Cited by: 10
Author(s): Brendan J Trewin, Dan Pagendam, Brian J. Johnson, Chris Paton, Nigel Snoad, Scott A. Ritchie, Kyran M. Staunton, Bradley J. White, Sara N. Mitchell, Nigel W. Beebe
Software Mentions: 4
Published: about 5 years ago

10.1126/scitranslmed.aau6242

Estimating cholera incidence with cross-sectional serology
Cited by: 43
Author(s): Andrew S. Azman, Justin Lessler, Francisco J. Luquero, Taufiqur Rahman Bhuiyan, Ashraful Islam Khan, Fahima Chowdhury, Alamgir Kabir, Marc Gurwith, Ana A. Weil, Jason B. Harris, Stephen B. Calderwood, Edward T. Ryan, Firdausi Qadri, Daniel T. Leung
Software Mentions: 4
Published: over 7 years ago

10.1038/s41598-021-99205-z

The effect of non-surgical and surgical mechanical root debridement on infrabony defects: a retrospective study
Cited by: 0
Author(s): Jad Majzoub, Ali Salami, Shayan Barootchi, Lorenzo Tavelli, Hsun‐Liang Chan, Hom‐Lay Wang
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pntd.0007921

Comparative genomics and full-length Tprk profiling of Treponema pallidum subsp. pallidum reinfection
Cited by: 18
Author(s): Amin Addetia, Lauren C. Tantalo, Michelle J. Lin, Hong Xie, Meei‐Li Huang, Christina M. Marra, Alexander L. Greninger
Software Mentions: 4
Published: about 6 years ago

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Papers Mentioning ggplot2 11,441