cran: ggplot2 | Projects | Ecosyste.ms: Papers

10.3390/ijms19113354

Transcriptome Profiles Reveal the Crucial Roles of Auxin and Cytokinin in the “Shoot Branching” of Cremastra appendiculata
Cited by: 13
Author(s): Xiang Lv, Mingsheng Zhang, Xiaolan Li, Ye RuiHua, Xiaohong Wang
Software Mentions: 3
Published: over 7 years ago

10.7717/peerj.11308

Seagrass structural and elemental indicators reveal high nutrient availability within a tropical lagoon in Panama
Cited by: 3
Author(s): Julie Gaubert-Boussarie, Andrew H. Altieri, J. Emmett Duffy, Justin E. Campbell
Software Mentions: 3
Published: about 5 years ago

10.7717/peerj.10671

RNA sequencing analysis of FGF2-responsive transcriptome in skin fibroblasts
Cited by: 4
Author(s): Bingcheng Wu, Xinjie Tang, Zhaoping Zhou, Hong-Lin Ke, Shao Tang, Ronghu Ke
Software Mentions: 3
Published: over 5 years ago

10.3389/fmicb.2020.00551

Crosstalk Between Female Gonadal Hormones and Vaginal Microbiota Across Various Phases of Women’s Gynecological Lifecycle
Cited by: 51
Author(s): Harrisham Kaur, Mitali Merchant, Mohammed Monzoorul Haque, Sharmila S. Mande
Software Mentions: 3
Published: about 6 years ago

10.1038/s41598-021-81000-5

EBF1 drives hallmark B cell gene expression by enabling the interaction of PAX5 with the MLL H3K4 methyltransferase complex
Cited by: 12
Author(s): Charles E. Bullerwell, Philippe Pierre Robichaud, Pierre Deprez, Andrew P. Joy, Gabriel Wajnberg, Darwin D’souza, Simi Chacko, Sébastien Fournier, Nicolas Crapoulet, David A. Barnett, Stephen M. Lewis, Rodney J. Ouellette
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-020-80824-x

A new rat model of creatine transporter deficiency reveals behavioral disorder and altered brain metabolism
Cited by: 14
Author(s): Lara Durán-Trío, Gabriella Fernandes-Pires, Dunja Simicic, Jocelyn Grosse, Clothilde Roux-Petronelli, Stephen J. Bruce, Pierre‐Alain Binz, Carmen Sandi, Cristina Cudalbu, Olivier Braissant
Software Mentions: 3
Published: over 5 years ago

10.3390/genes9020104

Microbiome Data Accurately Predicts the Postmortem Interval Using Random Forest Regression Models
Cited by: 69
Author(s): Aeriel D. Belk, Zhenjiang Zech Xu, David Carter, Aaron M. Lynne, Sibyl R. Bucheli, Rob Knight, Jessica L. Metcalf
Software Mentions: 3
Published: over 8 years ago

10.3390/genes9060280

The Genetic Architecture Underlying the Evolution of a Rare Piscivorous Life History Form in Brown Trout after Secondary Contact and Strong Introgression
Cited by: 24
Author(s): Arne Jacobs, Martin Hughes, Paige C. Robinson, Colin E. Adams, Kathryn R. Elmer
Software Mentions: 3
Published: about 8 years ago

10.3390/genes9060294

Tissue Specificity and Dynamics of Sex-Biased Gene Expression in a Common Frog Population with Differentiated, Yet Homomorphic, Sex Chromosomes
Cited by: 22
Author(s): Wen‐Juan Ma, Paris Veltsos, Melissa A. Toups, Nicolas Rodrigues, Roberto Sermier, Daniel L. Jeffries, Nicolas Perrin
Software Mentions: 3
Published: about 8 years ago

10.3390/genes9080407

Seasonal and Sexual Differences in the Microbiota of the Hoopoe Uropygial Secretion
Cited by: 10
Author(s): Sonia M. Rodríguez‐Ruano, Manuel Martín‐Vivaldi, Juan Manuel Peralta‐Sánchez, Ana B. García-Martín, Ángela Martínez-García, Juan José Soler, Eva Valdivia, Manuel Martínez‐Bueno
Software Mentions: 3
Published: almost 8 years ago

10.3389/fmicb.2016.01231

Lichen-Associated Fungal Community in Hypogymnia hypotrypa (Parmeliaceae, Ascomycota) Affected by Geographic Distribution and Altitude
Cited by: 23
Author(s): Yanyan Wang, Yong Zheng, Xinyu Wang, Xinli Wei, Jiang-Chun Wei
Software Mentions: 3
Published: almost 10 years ago

10.3390/brainsci8020024

Consonant and Vowel Processing in Word Form Segmentation: An Infant ERP Study
Cited by: 15
Author(s): Katie Von Holzen, Léo‐Lyuki Nishibayashi, Thierry Nazzi
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.pone.0155957

Genetic and Environmental Control of Neurodevelopmental Robustness in Drosophila
Cited by: 17
Author(s): David J. Mellert, W. Ryan Williamson, Troy R. Shirangi, Gwyneth M Card, James W. Truman
Software Mentions: 3
Published: about 10 years ago

10.7717/peerj.740

First genomic insights into members of a candidate bacterial phylum responsible for wastewater bulking
Cited by: 97
Author(s): Yuji Sekiguchi, Akiko Ohashi, Donovan H. Parks, Toshihiro Yamauchi, Gene W. Tyson, Philip Hugenholtz
Software Mentions: 3
Published: over 11 years ago

10.1038/s41598-021-81780-w

The consequences of COVID-19 on social interactions: an online study on face covering
Cited by: 91
Author(s): Marta Calbi, Nunzio Langiulli, Francesca Ferroni, Martina Montalti, Anna Kolesnikov, Vittorio Gallese, Maria Alessandra Umiltà
Software Mentions: 3
Published: over 5 years ago

10.7717/peerj.9024

Long-term continuously monocropped peanut significantly changed the abundance and composition of soil bacterial communities
Cited by: 8
Author(s): Mingna Chen, Hu Liu, Shanlin Yu, Mian Wang, Lijuan Pan, Na Chen, Tong Wang, Xiaoyuan Chi, Binghai Du
Software Mentions: 3
Published: about 6 years ago

10.7717/peerj.11439

Characterization of the gut microbiota in Chinese children with overweight and obesity using 16S rRNA gene sequencing
Cited by: 12
Author(s): Xiaowei Chen, Dawei Zhang, Haixiang Sun, Fei Jiang, Yan Shen, Pingmin Wei, Xiaobing Shen
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-021-95909-4

Identification of genes, pathways and transcription factor-miRNA-target gene networks and experimental verification in venous thromboembolism
Cited by: 3
Author(s): Yiming Su, Qiyi Li, Zhiyong Zheng, Xiaomin Wei, Peiyong Hou
Software Mentions: 3
Published: almost 5 years ago

10.1038/s41598-021-96249-z

Identities, concentrations, and sources of pesticide exposure in pollen collected by managed bees during blueberry pollination
Cited by: 21
Author(s): Kelsey K. Graham, Meghan O. Milbrath, Yajun Zhang, Annuet Soehnlen, Nicolas Baert, Scott H. McArt, Rufus Isaacs
Software Mentions: 3
Published: almost 5 years ago

10.1038/s41598-021-96577-0

Occurrence of Mycoplasma spp. in wild birds: phylogenetic analysis and potential factors affecting distribution
Cited by: 5
Author(s): Anna Sawicka, Olimpia Kursa, Łukasz Bednarz, Grzegorz Tomczyk
Software Mentions: 3
Published: almost 5 years ago

10.3389/fmicb.2017.00625

Protective Effect of Carvacrol against Gut Dysbiosis and Clostridium difficile Associated Disease in a Mouse Model
Cited by: 15
Author(s): Shankumar Mooyottu, Genevieve Flock, Abhinav Upadhyay, Indu Upadhyaya, Kendra Maas, Kumar Venkitanarayanan
Software Mentions: 3
Published: about 9 years ago

10.1038/s41598-021-96844-0

Transcriptional overlap links DNA hypomethylation with DNA hypermethylation at adjacent promoters in cancer
Cited by: 9
Author(s): Jean S. Fain, Axelle Loriot, Anna Diacofotaki, Aurélie Van Tongelen, Charles De Smet
Software Mentions: 3
Published: almost 5 years ago

10.3390/ijms20020401

Rootstock-Mediated Effects on Cabernet Sauvignon Performance: Vine Growth, Berry Ripening, Flavonoids, and Aromatic Profiles
Cited by: 27
Author(s): Yu Wang, Wei-Kai Chen, Xiaotong Gao, Lei He, Xiaohui Yang, Fei He, Chang‐Qing Duan, Jun Wang
Software Mentions: 3
Published: over 7 years ago

10.7717/peerj.450

Local norms of cheating and the cultural evolution of crime and punishment: a study of two urban neighborhoods
Cited by: 22
Author(s): Kari Britt Schroeder, Gillian Pepper, Daniel Nettle
Software Mentions: 3
Published: almost 12 years ago

10.7717/peerj.6325

Response of adult honey bees treated in larval stage with prochloraz to infection with Nosema ceranae
Cited by: 28
Author(s): Uroš Glavinić, Tanja Tesovnik, Jevrosima Stevanović, Minja Zorc, Ivanka Cizelj, Zoran Stanimirović, Mojca Narat
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-021-97128-3

The critical role of natural history museums in advancing eDNA for biodiversity studies: a case study with Amazonian fishes
Cited by: 11
Author(s): Carlos David de Santana, Lynne R. Parenti, Casey B. Dillman, Jonathan A. Coddington, Douglas Aviz Bastos, Carole C. Baldwin, Jansen Zuanon, Gislene Torrente‐Vilara, Raphaël Covain, Naércio A. Menezes, Aléssio Datovo, Tetsuya Sadõ, Masaki Miya
Software Mentions: 3
Published: almost 5 years ago

10.1038/s41598-021-97862-8

Regional heterogeneity in coral species richness and hue reveals novel global predictors of reef fish intra-family diversity
Cited by: 2
Author(s): Kieran Cox, Mackenzie B. Woods, T. E. Reimchen
Software Mentions: 3
Published: almost 5 years ago

10.1038/s41598-021-97408-y

Real-time quantitation of thyroidal radioiodine uptake in thyroid disease with monitoring by a collar detection device
Cited by: 2
Author(s): Prasanna Santhanam, Lilja B. Solnes, Tanmay Nath, Jean-Paul Roussin, Daniel C. Gray, Eric Frey, George Sgouros, Paul W. Ladenson
Software Mentions: 3
Published: almost 5 years ago

10.3390/genes10110946

Coding and Non-Coding RNA Abnormalities in Bipolar Disorder
Cited by: 22
Author(s): Jurjen J. Luykx, Fabrizio Giuliani, Giuliano Giuliani, Jan H. Veldink
Software Mentions: 3
Published: over 6 years ago

10.1107/S1600577516016362

Development of a dose-limiting data collection strategy for serial synchrotron rotation crystallography
Cited by: 36
Author(s): Kazuya Hasegawa, Keitaro Yamashita, Taichi Murai, Nipawan Nuemket, Kunio Hirata, Go Ueno, Hideo Ago, Toru Nakatsu, Takashi Kumasaka, Masaki Yamamoto
Software Mentions: 3
Published: over 9 years ago

10.1038/s41598-021-97871-7

Deep mutational scanning of the plasminogen activator inhibitor-1 functional landscape
Cited by: 7
Author(s): Zachary M. Huttinger, Laura M. Haynes, Andrew Yee, Colin A. Kretz, Matthew L. Holding, David Siemieniak, Daniel A. Lawrence, David Ginsburg
Software Mentions: 3
Published: almost 5 years ago

10.1155/2018/6515670

Microbiota Composition in Upper Respiratory Tracts of Healthy Children in Shenzhen, China, Differed with Respiratory Sites and Ages
Cited by: 23
Author(s): Heping Wang, Wenkui Dai, Xin Feng, Qian Zhou, Hongmei Wang, Yonghong Yang, Shuai Cheng Li, Yuejie Zheng
Software Mentions: 3
Published: about 8 years ago

10.1155/2021/6633563

Shared Molecular Mechanisms between Alzheimer’s Disease and Periodontitis Revealed by Transcriptomic Analysis
Cited by: 10
Author(s): Jieqi Jin, Mengkai Guang, Anthony Chukwunonso Ogbuehi, Simin Li, Kai Zhang, Yihong Ma, Aneesha Acharya, Bihan Guo, Zongwu Peng, Xiangqiong Liu, Yupei Deng, Ziyu Fang, Xiongjie Zhu, Shiting Hua, Cong Liu, Rainer Haak, Dirk Ziebolz, Gerhard Schmalz, Lei Liu, Baohua Xu, Xiaofeng Huang
Software Mentions: 3
Published: about 5 years ago

10.1155/2020/1817094

Identification of Crucial lncRNAs, miRNAs, mRNAs, and Potential Therapeutic Compounds for Polycystic Ovary Syndrome by Bioinformatics Analysis
Cited by: 9
Author(s): Zhi Zeng, Xiao Lin, Tingting Xia, Wenxiu Liu, Xingui Tian, Manchao Li
Software Mentions: 3
Published: over 5 years ago

10.1155/2018/1972606

Integrated Analysis of MicroRNA (miRNA) and mRNA Profiles Reveals Reduced Correlation between MicroRNA and Target Gene in Cancer
Cited by: 19
Author(s): Xingsong Li, Xiaokang Yu, Yuting He, Yuhuan Meng, Jinsheng Liang, Lizhen Huang, Hongli Du, Xueping Wang, Wanli Liu
Software Mentions: 3
Published: over 7 years ago

10.1155/2020/2064582

ID1 As a Prognostic Biomarker and Promising Drug Target Plays a Pivotal Role in Deterioration of Clear Cell Renal Cell Carcinoma
Cited by: 1
Author(s): Xiangmin Qiu, Yue Gu, Yilu Ni, Qianyin Li
Software Mentions: 3
Published: over 5 years ago

10.1155/2021/2545459

Identification of Differentially Expressed circRNAs, miRNAs, and Genes in Patients Associated with Cartilaginous Endplate Degeneration
Cited by: 0
Author(s): Haiwei Xu, Yongjin Li, Jianhua Li, Zhenxin Huo, Guowang Li, Lilong Du, Lijun Tian, Bei Xu
Software Mentions: 3
Published: about 5 years ago

10.1155/2020/4673250

Changes in Gut Microorganism in Patients with Positive Immune Antibody-Associated Recurrent Abortion
Cited by: 4
Author(s): Min Jin, Dong Li, Rui Ji, Wen Liu, Xiaofei Xu, Xin Feng
Software Mentions: 3
Published: almost 6 years ago

10.1155/2019/6534745

A Systematic View Exploring the Role of Chloroplasts in Plant Abiotic Stress Responses
Cited by: 12
Author(s): Yo-Han Yoo, Woo‐Jong Hong, Ki‐Hong Jung
Software Mentions: 3
Published: almost 7 years ago

10.1155/2021/5089371

CXCL1 Clone Evolution Induced by the HDAC Inhibitor Belinostat Might Be a Favorable Prognostic Indicator in Triple-Negative Breast Cancer
Cited by: 4
Author(s): Xinle Han, Jun Du, Yadan Zheng, Jingbo Dai, Su-Wen Lin, Bingyue Zhang, Fubo Zhong, Zhe-Guang Lin, Shuhan Jiang, Wei Wei, Zhengyu Fang
Software Mentions: 3
Published: about 5 years ago

10.1155/2021/7561645

Identification of Key Genes and Immune Infiltrate in Nonalcoholic Steatohepatitis: A Bioinformatic Analysis
Cited by: 7
Author(s): Zhenyu Jiang, Yi Zhou, Lu Zhou, Shaowei Li, Bangmao Wang
Software Mentions: 3
Published: almost 5 years ago

10.3390/biomedicines8050114

RNA Sequencing in Comparison to Immunohistochemistry for Measuring Cancer Biomarkers in Breast Cancer and Lung Cancer Specimens
Cited by: 20
Author(s): Maxim Sorokin, Kirill Ignatev, Elena Poddubskaya, Uliana Vladimirova, Нуршат Гайфуллин, Dmitriy Lantsov, Andrew Garazha, Daria Allina, Maria Suntsova, Victoria Barbara, Anton Buzdin
Software Mentions: 3
Published: about 6 years ago

10.3390/biomedicines9050546

Weighted Gene Co-Expression Network Analysis Reveals Key Genes and Potential Drugs in Abdominal Aortic Aneurysm
Cited by: 5
Author(s): Kejia Kan, Feng Guo, Lei Zhu, Prama Pallavi, Martin Sigl, Michael Keese
Software Mentions: 3
Published: about 5 years ago

10.3390/biomedicines9020107

Breast Cancer-Derived Microvesicles Are the Source of Functional Metabolic Enzymes as Potential Targets for Cancer Therapy
Cited by: 4
Author(s): Yousef Risha, Vanessa Susevski, Nico Hüttmann, Suttinee Poolsup, Zoran Minić, Maxim V. Berezovski
Software Mentions: 3
Published: over 5 years ago

10.3390/biomedicines8090311

Exploring the Role of Gut Microbiota in Major Depressive Disorder and in Treatment Resistance to Antidepressants
Cited by: 26
Author(s): Andrea Fontana, Mirko Manchia, Concetta Panebianco, Pasquale Paribello, Carlo Arzedi, Eleonora Cossu, Mario Garzilli, Maria Antonietta Montis, Andrea Mura, Claudia Pisanu, Donatella Congiu, Massimiliano Copetti, Federica Pinna, Bernardo Carpiniello, Alessio Squassina, Valerio Pazienza
Software Mentions: 3
Published: almost 6 years ago

10.3390/biomedicines9080875

Involvement of Gut Microbiota in Schizophrenia and Treatment Resistance to Antipsychotics
Cited by: 18
Author(s): Mirko Manchia, A. Fontana, Concetta Panebianco, Pasquale Paribello, Carlo Arzedi, Eleonora Cossu, Mario Garzilli, Maria Antonietta Montis, Andrea Mura, Claudia Pisanu, Donatella Congiu, Massimiliano Copetti, Federica Pinna, Valerio Pazienza, Alessio Squassina, Bernardo Carpiniello
Software Mentions: 3
Published: almost 5 years ago

10.3390/biomedicines8060142

RNA Sequencing-Based Identification of Ganglioside GD2-Positive Cancer Phenotype
Cited by: 19
Author(s): Maxim Sorokin, И. В. Холоденко, Daniel V. Kalinovsky, T. V. Shamanskaya, Igor I. Doronin, Д. М. Коновалов, Aleksei Mironov, Denis Kuzmin, Daniil Nikitin, Sergey M. Deyev, Anton Buzdin, Р. В. Холоденко
Software Mentions: 3
Published: about 6 years ago

10.3390/biom11030452

The Ablation of VEGFR-1 Signaling Promotes Pressure Overload-Induced Cardiac Dysfunction and Sudden Death
Cited by: 3
Author(s): Annakaisa Tirronen, Nicholas Downes, Jenni Huusko, Johanna P. Laakkonen, Tomi Pekka Tuomainen, Pasi Tavi, Marja Hedman, Seppo Ylä‐Herttuala
Software Mentions: 3
Published: over 5 years ago

10.1099/mgen.0.000403

Genomic analyses of Staphylococcus aureus clonal complex 45 isolates does not distinguish nasal carriage from bacteraemia
Cited by: 7
Author(s): Chandler C. Roe, Marc Stegger, Berit Lilje, Thor Bech Johannesen, Kim Lee Ng, Raphael N. Sieber, Elizabeth M. Driebe, David M. Engelthaler, Paal Skytt Andersen
Software Mentions: 3
Published: almost 6 years ago

10.1099/mgen.0.000096

Evolution of a zoonotic pathogen: investigating prophage diversity in enterohaemorrhagic Escherichia coli O157 by long-read sequencing
Cited by: 26
Author(s): Sharif Shaaban, Lauren A. Cowley, Sean P. McAteer, Claire Jenkins, Timothy J. Dallman, James L. Bono, David L. Gally
Software Mentions: 3
Published: over 9 years ago

10.1099/mgen.0.000133

Phylogeographic separation and formation of sexually discrete lineages in a global population of Yersinia pseudotuberculosis
Cited by: 11
Author(s): Tristan Seecharran, Laura Kalin-Mänttäri, Katja A. Koskela, Simo Nikkari, Benjamin Dickins, Jukka Corander, Mikael Skurnik, Alan McNally
Software Mentions: 3
Published: over 8 years ago

10.1099/mgen.0.000222

A genomic view of experimental intraspecies and interspecies transformation of a rifampicin-resistance allele into Neisseria meningitidis
Cited by: 6
Author(s): Kristian Alfsnes, Stephan A. Frye, Jens Eriksson, Vegard Eldholm, Ola Brønstad Brynildsrud, Jon Bohlin, Odile B. Harrison, Derek W. Hood, Martin C. J. Maiden, Tone Tønjum, Ole Herman Ambur
Software Mentions: 3
Published: over 7 years ago

10.1099/mgen.0.000352

Genomic surveillance of Escherichia coli ST131 identifies local expansion and serial replacement of subclones
Cited by: 30
Author(s): Catherine Ludden, Arun Gonzales Decano, Dorota Jamrozy, Derek Pickard, Dearbháile Morris, Julian Parkhill, Sharon J. Peacock, Martin Cormican, Tim Downing
Software Mentions: 3
Published: about 6 years ago

10.1002/mbo3.694

Selective chemoattraction of the benthic diatom Seminavis robusta to phosphate but not to inorganic nitrogen sources contributes to biofilm structuring
Cited by: 11
Author(s): Karen Grace V. Bondoc, Christine Lembke, Wim Vyverman, Georg Pohnert
Software Mentions: 3
Published: almost 8 years ago

10.1002/mbo3.494

wblE2 transcription factor in Streptomyces griseus S4‐7 plays an important role in plant protection
Cited by: 7
Author(s): Hyun Ji Cho, Young Chul Kwon, Da-Ran Kim, Gyeongjun Cho, Seong Won Hong, Dong-Won Bae, Youn‐Sig Kwak
Software Mentions: 3
Published: about 9 years ago

10.1128/MRA.00182-20

16S rRNA Amplicon Sequencing of Urban Prokaryotic Communities in the South Bronx River Estuary
Cited by: 5
Author(s): Eugênia Naro‐Maciel, Melissa R. Ingala, Irena E. Werner, Allison M. Fitzgerald
Software Mentions: 3
Published: about 6 years ago

10.1186/s40168-016-0199-5

The structure and diversity of human, animal and environmental resistomes
Cited by: 310
Author(s): Chandan Pal, Johan Bengtsson‐Palme, Erik Kristiansson, D. G. Joakim Larsson
Software Mentions: 3
Published: over 9 years ago

10.1186/s40168-018-0528-y

Factors shaping the gut bacterial community assembly in two main Colombian malaria vectors
Cited by: 66
Author(s): Priscila Bascuñán, Juan Pablo Niño-García, Yadira Galeano-Castañeda, David Serre, Margarita M. Correa
Software Mentions: 3
Published: almost 8 years ago

10.1186/s40168-017-0347-6

Microbes and associated soluble and volatile chemicals on periodically wet household surfaces
Cited by: 43
Author(s): Rachel I. Adams, Despoina S. Lymperopoulou, Pawel K. Misztal, Rita de Cássia Pessotti, Scott W. Behie, Yilin Tian, Allen H. Goldstein, Steven E. Lindow, William W. Nazaroff, John W. Taylor, Matthew F. Traxler, Thomas D. Bruns
Software Mentions: 3
Published: over 8 years ago

10.1186/s40168-020-00937-3

High-quality bacterial genomes of a partial-nitritation/anammox system by an iterative hybrid assembly method
Cited by: 25
Author(s): Lei Liu, Yulin Wang, Ying Che, Yiqiang Chen, Yu Xia, Ruibang Luo, Suk Hang Cheng, Kewei Chen, Tong Zhang
Software Mentions: 3
Published: over 5 years ago

10.1186/s40168-021-01063-4

Potential and expression of carbohydrate utilization by marine fungi in the global ocean
Cited by: 21
Author(s): Federico Baltar, Zihao Zhao, Gerhard J. Herndl
Software Mentions: 3
Published: about 5 years ago

10.1186/s40168-020-00840-x

The skin microbiome of elasmobranchs follows phylosymbiosis, but in teleost fishes, the microbiomes converge
Cited by: 31
Author(s): Michael P. Doane, Megan M. Morris, Bhavya Papudeshi, Lauren B. Allen, Dnyanada Pande, John M. Haggerty, Shaili Johri, Abigail C. Turnlund, Meredith Peterson, Dovi Kacev, Andy Nosal, Deni Ramirez, Kevin A. Hovel, Julia Ledbetter, Amanda T. Alker, Jackeline Avalos, Kristi Baker, Shruti Bhide, E Billings, Steven Byrum, Molly Clemens, Amelia Juliette Demery, Laís Farias Oliveira Lima, Oscar Gómez, O. Gutiérrez, Selena Hinton, Donald Kieu, Angie Kim, Rebeca Loaiza, Alexander S. Martinez, Jordan McGhee, Kristine Nguyen, Sabrina Parlan, Amanda Pham, Rosalyn Price-Waldman, Robert A. Edwards, Elizabeth A. Dinsdale
Software Mentions: 3
Published: about 6 years ago

10.1186/s40168-020-00890-1

Immunoglobulin recognition of fecal bacteria in stunted and non-stunted children: findings from the Afribiota study
Cited by: 19
Author(s): Kelsey E. Huus, André Rodriguez-Pozo, Nathalie Kapel, Alison Nestoret, Azimdine Habib, Michel Dédé, Amee R. Manges, Jean-Marc Collard, Philippe J. Sansonetti, Pascale Vonaesch, B. Brett Finlay, Emilson Jean Andriatahirintsoa, Alexandra Bastaraud, Jean-Marc Collard, Maria Doria, Serge Ghislain Djorie, Aurélie Etienne, B. Brett Finlay, Tamara Giles‐Vernick, Jean-Chrysostome Gody, Bolmbaye Privat Godje, Ionela Gouandjika-Vassilache, Francis Allan Hunald, Nathalie Kapel, Jean-Pierre Lombart, Alexandre Manirakiza, Synthia Nazita Nigatoloum, Lisette Raharimalala, Maheninasy Rakotondrainipiana, Rindra Vatosoa Randremanana, Harifetra Mamy Richard Randriamizao, Frédérique Randrianirina, Annick Robinson, Pierre-Alain Rubbo, Philippe J. Sansonetti, Laura Schaeffer, Inès Vigan-Womas, Sonia Sandrine Vondo, Pascale Vonaesch, Laura Wegener-Parfrey
Software Mentions: 3
Published: almost 6 years ago

10.1186/s40168-020-00972-0

Identification of microbial signatures linked to oilseed rape yield decline at the landscape scale
Cited by: 21
Author(s): Sally Hilton, Emma Picot, Susanne Schreiter, David Bass, Keith Norman, Anna Oliver, Jonathan D. Moore, Tim H. Mauchline, Peter R. Mills, Graham R. Teakle, Ian M. Clark, P. R. Hirsch, Christopher J. van der Gast, Gary D. Bending
Software Mentions: 3
Published: over 5 years ago

10.1186/s40168-018-0429-0

A novel affordable reagent for room temperature storage and transport of fecal samples for metagenomic analyses
Cited by: 47
Author(s): Mo Han, Lilan Hao, Yuxiang Lin, Fang Li, Jian Wang, Huanming Yang, Liang Xiao, Karsten Kristiansen, Huijue Jia, Junhua Li
Software Mentions: 3
Published: over 8 years ago

10.1186/s40168-017-0373-4

The gut mycobiome of the Human Microbiome Project healthy cohort
Cited by: 526
Author(s): Andrea K. Nash, Thomas A. Auchtung, Matthew C. Wong, Daniel P. Smith, Jonathan R. Gesell, Matthew C. Ross, Christopher J. Stewart, Ginger Metcalf, Donna M. Muzny, Richard A. Gibbs, Nadim J. Ajami, Joseph F. Petrosino
Software Mentions: 3
Published: over 8 years ago

10.3390/vaccines9050447

Long-Term Protection and Serologic Response of European Sea Bass Vaccinated with a Betanodavirus Virus-Like Particle Produced in Pichia pastoris
Cited by: 6
Author(s): Sofie Barsøe, Anna Toffan, Francesco Pascoli, Ansgar Stratmann, Tobia Pretto, Andrea Marsella, Mériem Er-Rafik, Niccoló Vendramin, Niels Jørgen Olesen, Dagoberto Sepúlveda, Niels Lorenzen
Software Mentions: 3
Published: about 5 years ago

10.3390/vaccines9080845

T-Cell Cytokine Response in Salmonella Typhimurium-Vaccinated versus Infected Pigs
Cited by: 2
Author(s): Selma Schmidt, Heinrich Kreutzmann, Maria Stadler, Kerstin H. Mair, Melissa R. Stas, Michaela Koch, Eleni Vatzia, Sophie Dürlinger, Christian Knecht, Joachim Spergser, Marlies Dolezal, S. Springer, Tobias Theuß, Vicky Fachinger, Andrea Ladinig, Armin Saalmüller, Wilhelm Gerner
Software Mentions: 3
Published: almost 5 years ago

10.18699/VJ20.669

The pattern of genetic diversity of different breeds of pigs based on microsatellite analysis
Cited by: 11
Author(s): В. Р. Харзинова, N. A. Zinovieva
Software Mentions: 3
Published: over 5 years ago

10.1186/s13567-018-0507-0

Effects of temperature on Veronaea botryosa infections in white sturgeon Acipenser transmontanus and fungal induced cytotoxicity of fish cell lines
Cited by: 16
Author(s): Denver J. Coleman, Alvin C. Camus, Beatriz Martínez‐López, Susan Yun, Brittany N. Stevens, Esteban Soto
Software Mentions: 3
Published: over 8 years ago

10.1093/ve/veaa075

Evaluation of NGS-based approaches for SARS-CoV-2 whole genome characterisation
Cited by: 108
Author(s): Christophe Ginevra, Christophe Ginevra, Marina Sabatier, Hadrien Regue, Grégory Destras, Solenne Brun, Gwendolyne Burfin, Caroline Scholtès, Florence Morfin, Martine Valette, Bruno Lina, Antonin Bal, Laurence Josset
Software Mentions: 3
Published: almost 6 years ago

10.1093/ve/veaa071

Large-scale survey reveals pervasiveness and potential function of endogenous geminiviral sequences in plants
Cited by: 15
Author(s): Vikas Sharma, Pierre Lefeuvre, Philippe Roumagnac, Denis Filloux, Pierre‐Yves Teycheney, Darren P. Martin, Florian Maumus
Software Mentions: 3
Published: almost 6 years ago

10.1093/ve/veab005

Virome composition in marine fish revealed by meta-transcriptomics
Cited by: 48
Author(s): Jemma L. Geoghegan, Francesca Di Giallonardo, Michelle Wille, Ayda Susana Ortiz-Báez, Vincenzo A Costa, Timothy M. Ghaly, Jonathon C O Mifsud, Olivia M. H. Turnbull, David R. Bellwood, Jane E. Williamson, Edward C. Holmes
Software Mentions: 3
Published: over 5 years ago

10.1093/ve/veab060

Integrating animal movements with phylogeography to model the spread of PRRSV in the USA
Cited by: 13
Author(s): Dennis N. Makau, Moh A. Alkhamis, Igor Adolfo Dexheimer Paploski, Cesar Corzo, Samantha Lycett, Kimberly VanderWaal
Software Mentions: 3
Published: almost 5 years ago

10.3390/v11040358

Distribution and Phylogeny of Erythrocytic Necrosis Virus (ENV) in Salmon Suggests Marine Origin
Cited by: 9
Author(s): Veronica A. Pagowski, Gideon Mordecai, Kristina M. Miller, Angela D. Schulze, Karia H. Kaukinen, Tobi J. Ming, Shaorong Li, Amy K. Teffer, Amy Tabata, Curtis A. Suttle
Software Mentions: 3
Published: about 7 years ago

10.3390/v11090792

Metagenomic Analysis of Virus Diversity and Relative Abundance in a Eutrophic Freshwater Harbour
Cited by: 20
Author(s): Christine N. Palermo, Roberta R. Fulthorpe, Rosemary Saati, Steven M. Short
Software Mentions: 3
Published: almost 7 years ago

10.3390/v11100906

Mucosal Immune Response to Feline Enteric Coronavirus Infection
Cited by: 13
Author(s): Morgan Pearson, Alora LaVoy, Samantha Evans, Allison C. Vilander, Craig B. Webb, Barbara Graham, Esther Musselman, Jonathan LeCureux, Sue VandeWoude, Gregg A. Dean
Software Mentions: 3
Published: over 6 years ago

10.3390/v12010105

Reporter Assays for Ebola Virus Nucleoprotein Oligomerization, Virion-Like Particle Budding, and Minigenome Activity Reveal the Importance of Nucleoprotein Amino Acid Position 111
Cited by: 8
Author(s): Aaron E. Lin, William E. Diehl, Yíngyún Caì, Courtney Finch, Chidiebere Akusobi, Robert N. Kirchdoerfer, Laura Bollinger, Stephen F. Schaffner, Elizabeth Brown, Erica Ollmann Saphire, Kristian G. Andersen, Jens H. Kuhn, Jeremy Luban, Pardis C. Sabeti
Software Mentions: 3
Published: over 6 years ago

10.3390/v12070782

High-Quality Resolution of the Outbreak-Related Zika Virus Genome and Discovery of New Viruses Using Ion Torrent-Based Metatranscriptomics
Cited by: 4
Author(s): Sílvia Inês Sardi, Renata Carvalho, Luis Gustavo Carvalho Pacheco, João Fernando Lourenço de Almeida, Emilia M M D A Belitardo, Carina S. Pinheiro, Gúbio Soares Campos, Eric Roberto Guimarães Rocha Aguiar
Software Mentions: 3
Published: almost 6 years ago

10.3390/v12070783

Inter-Strain Epigenomic Profiling Reveals a Candidate IAP Master Copy in C3H Mice
Cited by: 9
Author(s): Rita Rebollo, Mariana Galvão Ferrarini, Liane Gagnier, Ying Zhang, Ardian Ferraj, Christine R. Beck, Matthew C. Lorincz, Dixie L. Mager
Software Mentions: 3
Published: almost 6 years ago

10.3390/v12070708

Early Phase of the COVID-19 Outbreak in Hungary and Post-Lockdown Scenarios
Cited by: 45
Author(s): Gergely Röst, F. Bartha, Norbert Bogya, Péter Boldog, Attila Dénes, Tamás Ferenci, Krisztina Horváth, Attila Juhász, Csilla Nagy, Tamás Tekeli, Zsolt Vizi, Beatrix Oroszi
Software Mentions: 3
Published: almost 6 years ago

10.3390/v12080854

Comprehensive Analyses of SARS-CoV-2 Transmission in a Public Health Virology Laboratory
Cited by: 21
Author(s): Neta S. Zuckerman, Rakefet Pando, Efrat Bucris, Yaron Drori, Yaniv Lustig, Oran Erster, Orna Mor, Ella Mendelson, Michal Mandelboim
Software Mentions: 3
Published: almost 6 years ago

10.3390/v12111320

Transcriptional Landscape of Staphylococcus aureus Kayvirus Bacteriophage vB_SauM-515A1
Cited by: 9
Author(s): Maria Kornienko, Gleb Y. Fisunov, Dmitry Bespiatykh, Nikita Kuptsov, Roman Gorodnichev, Ksenia M. Klimina, Eugene E. Kulikov, Elena N. Ilina, Andrey V. Letarov, Egor Shitikov
Software Mentions: 3
Published: over 5 years ago

10.3390/v13010133

Intra-Host Diversity of SARS-Cov-2 Should Not Be Neglected: Case of the State of Victoria, Australia
Cited by: 48
Author(s): Alix Armero, Nicolás Berthet, Jean‐Christophe Avarre
Software Mentions: 3
Published: over 5 years ago

10.3390/v13061140

Global mRNA and miRNA Analysis Reveal Key Processes in the Initial Response to Infection with WSSV in the Pacific Whiteleg Shrimp
Cited by: 8
Author(s): Rebecca S. Millard, Lisa K. Bickley, Kelly S. Bateman, Audrey Farbos, Diana Minardi, Karen Moore, Stuart Ross, Grant D. Stentiford, Charles R. Tyler, Ronny van Aerle, Eduarda M. Santos
Software Mentions: 3
Published: about 5 years ago

10.3390/v13071412

Phylogenetic Analysis of Massilia phlebovirus in Portugal
Cited by: 8
Author(s): Fátima Amaro, Líbia Zé-Zé, José Lourenço, Marta Giovanetti, Stefanie Becker, Maria João Alves
Software Mentions: 3
Published: almost 5 years ago

10.3390/v13091834

The MAPK/ERK Pathway and the Role of DUSP1 in JCPyV Infection of Primary Astrocytes
Cited by: 4
Author(s): Michael Wilczek, Francesca J. Armstrong, Remi P. Geohegan, Colleen L. Mayberry, Jeanne K. DuShane, Benjamin L. King, Melissa S. Maginnis
Software Mentions: 3
Published: almost 5 years ago

10.1016/j.wasman.2019.04.010

Biological and thermochemical conversion of human solid waste to soil amendments
Cited by: 21
Author(s): Leilah Krounbi, Akio Enders, Harold van Es, Dominic Woolf, Brian Von Herzen, Johannes Lehmann
Software Mentions: 3
Published: about 7 years ago

10.12688/wellcomeopenres.11246.3

Robust long-read native DNA sequencing using the ONT CsgG Nanopore system
Cited by: 24
Author(s): Jean-Michel Carter, Shobbir Hussain
Software Mentions: 3
Published: almost 8 years ago

10.12688/wellcomeopenres.15191.1

Raincloud plots: a multi-platform tool for robust data visualization
Cited by: 782
Author(s): Micah Allen, Davide Poggiali, Kirstie Whitaker, Tom R. Marshall, Rogier A. Kievit
Software Mentions: 3
Published: about 7 years ago

10.12688/wellcomeopenres.15807.2

Making health economic models Shiny: A tutorial
Cited by: 26
Author(s): Robert Smith, P. Schneider
Software Mentions: 3
Published: almost 6 years ago

10.12688/wellcomeopenres.16326.2

Prevalence and patterns of multi-morbidity in the productive age group of 30-69 years: A cross-sectional study in Pathanamthitta District, Kerala.
Cited by: 6
Author(s): C Rohini, Panniyammakal Jeemon
Software Mentions: 3
Published: over 5 years ago

10.1186/s12957-021-02366-4

A novel nomogram based on cardia invasion and chemotherapy to predict postoperative overall survival of gastric cancer patients
Cited by: 2
Author(s): Hongxiang Mo, Pengfei Li, Sunfang Jiang
Software Mentions: 3
Published: almost 5 years ago

10.7717/peerj.8205

Reduced GRAMD1C expression correlates to poor prognosis and immune infiltrates in kidney renal clear cell carcinoma
Cited by: 12
Author(s): Haiyan Hao, Ziheng Wang, Shengxiang Ren, Hanyu Shen, Hua Xian, Wenliang Ge, Wei Wang
Software Mentions: 3
Published: over 6 years ago

10.7717/peerj.11409

Evaluating the cleavage efficacy of CRISPR-Cas9 sgRNAs targeting ineffective regions of Arabidopsis thaliana genome
Cited by: 3
Author(s): Afia Malik, Alvina Gul, Faiza Munir, Rabia Amir, Hadi Alipour, Mustafeez Mujtaba Babar, Syeda Marriam Bakhtiar, Rehan Zafar Paracha, Zoya Khalid, Muhammad Qasim Hayat
Software Mentions: 3
Published: about 5 years ago

10.7717/peerj.10302

Characterization and comparison of the bacterial communities of rhizosphere and bulk soils from cadmium-polluted wheat fields
Cited by: 12
Author(s): Li Song, Zhenzhi Pan, Yi Dai, Lin Chen, Li Zhang, Qilin Liao, Xi Yu, Hongyan Guo, Guisheng Zhou
Software Mentions: 3
Published: over 5 years ago

10.7717/peerj.3773

Canopy soil bacterial communities altered by severing host tree limbs
Cited by: 9
Author(s): Cody R. Dangerfield, Nalini M. Nadkarni, William J. Brazelton
Software Mentions: 3
Published: almost 9 years ago

10.7717/peerj.9622

Gut microbiota of obese and diabetic Thai subjects and interplay with dietary habits and blood profiles
Cited by: 7
Author(s): Lucsame Gruneck, Niwed Kullawong, Kongkiat Kespechara, Siam Popluechai
Software Mentions: 3
Published: almost 6 years ago

10.1002/ps.6433

Remote monitoring of Cydia pomonella adults among an assemblage of nontargets in sex pheromone‐kairomone‐baited smart traps
Cited by: 8
Author(s): Michele Preti, Riccardo Favaro, A. L. Knight, Sergio Angeli
Software Mentions: 3
Published: about 5 years ago

10.3390/ph14040351

Absence of Association between Methylene Blue Reduced Susceptibility and Polymorphisms in 12 Genes Involved in Antimalarial Drug Resistance in African Plasmodium falciparum
Cited by: 2
Author(s): Mathieu Gendrot, Océane Delandre, M Robert, Francis Tsombeng Foguim, B. Nicolas, Rémy Amalvict, Isabelle Fonta, Joël Mosnier, Marylin Madamet, Bruno Pradines
Software Mentions: 3
Published: about 5 years ago

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