cran: ggplot2 | Projects | Ecosyste.ms: Papers

10.7150/jca.48979

Screening and bioinformatical analysis of differentially expressed genes in nasopharyngeal carcinoma
Cited by: 3
Author(s): Weiqian Guo, Xiaomin Zheng, Hua Liu, Xiaohai Zheng, Yangyang Zhang, Bin Sun, Zhenchao Tao, Jin Gao
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0258291

Locus-specific analysis of Transposable Elements during the progression of ALS in the SOD1G93A mouse model
Cited by: 5
Author(s): Braulio Valdebenito-Maturana, Esteban Arancibia, Gonzalo Riadi, Juan Carlos Tapia, Mónica A. Carrasco
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0215964

Visualizing learner engagement, performance, and trajectories to evaluate and optimize online course design
Cited by: 22
Author(s): Michael Ginda, Michael Richey, Mark Cousino, Katy Börner
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0185146

Individual differences in responsivity to social rewards: Insights from two eye-tracking tasks
Cited by: 12
Author(s): Bhismadev Chakrabarti, Anthony Haffey, Loredana Canzano, Christopher Taylor, Eugene McSorley
Software Mentions: 2
Published: about 9 years ago

10.18632/oncotarget.25327

Outcomes of neoadjuvant and adjuvant chemotherapy in stage 2 and 3 non-small cell lung cancer: an analysis of the National Cancer Database
Cited by: 21
Author(s): Matthew T. MacLean, Xin Luo, Shidan Wang, Kemp H. Kernstine, David E. Gerber, Yang Xie
Software Mentions: 2
Published: over 8 years ago

10.1186/s12968-016-0319-1

Effects of heart valve prostheses on phase contrast flow measurements in Cardiovascular Magnetic Resonance – a phantom study
Cited by: 12
Author(s): Johanna Richau, Matthias A. Dieringer, Julius Traber, Florian von Knobelsdorff‐Brenkenhoff, Andreas Greiser, Carsten Schwenke, Jeanette Schulz‐Menger
Software Mentions: 2
Published: almost 10 years ago

10.1038/s41416-018-0108-8

Mendelian randomisation study of age at menarche and age at menopause and the risk of colorectal cancer
Cited by: 15
Author(s): Sonja Neumeyer, Barbara L. Banbury, Volker Arndt, Sonja I. Berndt, Stéphane Bézieau, Stephanie A. Bien, Daniel D. Buchanan, Katja Butterbach, Bette J. Caan, Peter T. Campbell, Graham Casey, Andrew T. Chan, Stephen J. Chanock, Jiyan Dai, Steven Gallinger, Edward Giovannucci, Graham G. Giles, William M. Grady, Jochen Hampe, Michael Hoffmeister, John L. Hopper, Li Hsu, Mark A. Jenkins, Amit D. Joshi, Susanna C. Larsson, Loı̈c Le Marchand, Annika Lindblom, Vı́ctor Moreno, Mathieu Lemire, Li Li, Yi Lin, Kenneth Offit, Polly A. Newcomb, Paul D.P. Pharaoh, John D. Potter, Lihong Qi, Gad Rennert, Clemens Schafmayer, Robert E. Schoen, Martha L. Slattery, Mingyang Song, Cornelia M. Ulrich, Aung Ko Win, Emily White, Alicja Wolk, Michael O. Woods, Anna H. Wu, Stephen B. Gruber, Hermann Brenner, Ulrike Peters, Jenny Chang‐Claude
Software Mentions: 2
Published: over 8 years ago

10.1111/jcmm.14071

Lnc <scp>RNA KCNQ</scp> 1 <scp>OT</scp> 1 enhanced the methotrexate resistance of colorectal cancer cells by regulating miR‐760/ <scp>PPP</scp> 1R1B via the <scp>cAMP</scp> signalling pathway
Cited by: 55
Author(s): Di Xian, Yu Zhao
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0094147

S-Score: A Scoring System for the Identification and Prioritization of Predicted Cancer Genes
Cited by: 9
Author(s): Jorge Estefano Santana de Souza, André Fonseca, Renan Valieris, Dirce Maria Carraro, Jean Y. J. Wang, Richard D. Kolodner, Sandro J. de Souza
Software Mentions: 2
Published: over 12 years ago

10.1111/jcmm.15541

The ACE2 expression in Sertoli cells and germ cells may cause male reproductive disorder after SARS‐CoV‐2 infection
Cited by: 137
Author(s): Qiaoyan Shen, Xia Xiao, Aili Aierken, Wei Y, Xiaojie Wu, Mingzhi Liao, Jinlian Hua
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0215723

In silico analysis of PFN1 related to amyotrophic lateral sclerosis
Cited by: 9
Author(s): Gabriel Rodrigues Coutinho Pereira, Giovanni Henrique Almeida Silva Tellini, Joelma Freire De Mesquita
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0156855

Second Language Ability and Emotional Prosody Perception
Cited by: 11
Author(s): Anjali Bhatara, Petri Laukka, Natalie Boll-Avetisyan, Lionel Granjon, Hillary Anger Elfenbein, Tanja Bänziger
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0236078

Does having a mobile phone matter? Linking phone access among women to health in India: An exploratory analysis of the National Family Health Survey
Cited by: 28
Author(s): Diwakar Mohan, Jean Juste Harrisson Bashingwa, Nicki Tiffin, Diva Dhar, Nicola Mulder, Asha George, Amnesty LeFevre
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0026120

Fragile X Related Protein 1 Clusters with Ribosomes and Messenger RNAs at a Subset of Dendritic Spines in the Mouse Hippocampus
Cited by: 31
Author(s): Denise Cook, Maria del Rayo Sanchez-Carbente, Claude Lachance, Danuta Radzioch, Sarah Tremblay, Édouard W. Khandjian, Luc DesGroseillers, Keith K. Murai
Software Mentions: 2
Published: about 15 years ago

10.1111/jcmm.16709

USP11 degrades KLF4 via its deubiquitinase activity in liver diseases
Cited by: 14
Author(s): Hee‐Young Yang, Daeui Park, Jeong-ho Ryu, Tamina Park
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0224249

Coming and going – Historical distributions of the European oyster Ostrea edulis Linnaeus, 1758 and the introduced slipper limpet Crepidula fornicata Linnaeus, 1758 in the North Sea
Cited by: 11
Author(s): Sarah Hayer, Andreas Bick, Angelika Brandt, Christine Ewers-Saucedo, Dieter Fiege, Susanne Füting, Ben Krause‐Kyora, Peter Michalik, Götz-Bodo Reinicke, Dirk Brandis
Software Mentions: 2
Published: about 7 years ago

10.18632/oncotarget.27294

Molecular profiling of radical prostatectomy tissue from patients with no sign of progression identifiesERGas the strongest independent predictor of recurrence
Cited by: 11
Author(s): Wusheng Yan, Muhammad Jamal, Shyh‐Han Tan, Yingjie Song, Denise Young, Yongmei Chen, Shilpa Katta, Kai Ying, Lakshmi Ravindranath, Tarah Woodle, Indu Kohaar, Jennifer Cullen, Jacob Kagan, Sudhir Srivastava, Albert Dobi, David G. McLeod, Inger L. Rosner, Isabell A. Sesterhenn, Alagarsamy Srinivasan, Shiv Srivastava, György Petrovics
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-017-11167-3

Reconciling the opposing effects of warming on phytoplankton biomass in 188 large lakes
Cited by: 65
Author(s): Benjamin M. Kraemer, Thomas Mehner, Rita Adrian
Software Mentions: 2
Published: about 9 years ago

10.1038/s41598-017-10346-6

Antibiotic treatment for Tuberculosis induces a profound dysbiosis of the microbiome that persists long after therapy is completed
Cited by: 129
Author(s): Matthew F. Wipperman, Daniel W. Fitzgerald, Marc Antoine Jean Juste, Ying Taur, Sivaranjani Namasivayam, Alan Sher, James Bean, Vanni Bucci, Michael S. Glickman
Software Mentions: 2
Published: about 9 years ago

10.1038/s41598-017-11357-z

Contributions of cuticle permeability and enzyme detoxification to pyrethroid resistance in the major malaria vector Anopheles gambiae
Cited by: 102
Author(s): Gildas A. Yahouédo, Fabrice Chandre, Marie Rossignol, Carole Ginibre, Vasileia Balabanidou, Natacha Garcia Albeniz Mendez, Olivier Pigeon, John Vontas, Sylvie Cornélie
Software Mentions: 2
Published: about 9 years ago

10.1038/s41598-017-11677-0

Genomic structure and evolution of the mating type locus in the green seaweed Ulva partita
Cited by: 24
Author(s): T. Yamazaki, Kensuke Ichihara, Ritsu Suzuki, Koichiro Oshima, Shinichi Miyamura, Kazuyoshi Kuwano, Atsushi Toyoda, Yutaka Suzuki, Sumio Sugano, Masahira Hattori, Shigeyuki Kawano
Software Mentions: 2
Published: about 9 years ago

10.1038/s41598-017-12495-0

Subclass-specific IgG glycosylation is associated with markers of inflammation and metabolic health
Cited by: 112
Author(s): Rosina Plomp, L. Renee Ruhaak, Hae‐Won Uh, Karli R. Reiding, Maurice H. J. Selman, Jeanine J. Houwing-Duistermaat, P. Eline Slagboom, Marian Beekman, Manfred Wuhrer
Software Mentions: 2
Published: about 9 years ago

10.1371/journal.pone.0241414

Temperature affects the host hematological and cytokine response following experimental ranavirus infection in red-eared sliders (Trachemys scripta elegans)
Cited by: 4
Author(s): Jeremy M. Rayl, Matthew C. Allender
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0230977

Effect of L-Ergothioneine on the metabolic plasma profile of the RUPP rat model of pre-eclampsia
Cited by: 13
Author(s): Aude-Claire Morillon, Rachel D. Williamson, Philip N. Baker, Douglas B. Kell, Louise C. Kenny, James English, Fergus P. McCarthy, Cathal McCarthy
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-017-14283-2

Observed drought indices show increasing divergence across Europe
Cited by: 131
Author(s): James H. Stagge, Daniel G. Kingston, Lena M. Tallaksen, David M. Hannah
Software Mentions: 2
Published: about 9 years ago

10.1038/s41598-017-13851-w

Translation efficiency is a determinant of the magnitude of miRNA-mediated repression
Cited by: 32
Author(s): Kyle A. Cottrell, Paweł Szczęsny, Sergej Djuranović
Software Mentions: 2
Published: almost 9 years ago

10.1002/btpr.2540

Bacterial community analysis in upflow multilayer anaerobic reactor treating high-solids organic wastes
Cited by: 0
Author(s): Si-Kyung Cho, Kyung‐Won Jung, Dong-Hoon Kim, Joong-Chun Kwon, Umer Zeeshan Ijaz, Seung Gu Shin
Software Mentions: 2
Published: about 9 years ago

10.1371/journal.pone.0223747

Amphibian skin-associated Pigmentiphaga: Genome sequence and occurrence across geography and hosts
Cited by: 6
Author(s): Molly C. Bletz, Boyke Bunk, Cathrin Spröer, Peter Biwer, Silke Reiter, Falitiana C. E. Rabemananjara, Stefan Schulz, Jörg Overmann, Miguel Vences
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pone.0249430

Light-induced changes in the suprachiasmatic nucleus transcriptome regulated by the ERK/MAPK pathway
Cited by: 4
Author(s): Diego Alzate‐Correa, Sydney Aten, Moray J. Campbell, Kari R. Hoyt, Karl Obrietan
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0111090

COPASutils: An R Package for Reading, Processing, and Visualizing Data from COPAS Large-Particle Flow Cytometers
Cited by: 54
Author(s): Tyler C. Shimko, Erik C. Andersen
Software Mentions: 2
Published: about 12 years ago

10.1038/s41598-017-15816-5

Assessment of Genetic Diversity and Population Structure in Iranian Cannabis Germplasm
Cited by: 40
Author(s): Aboozar Soorni, Reza Fatahi, David C. Haak, Seyed Alireza Salami, Aureliano Bombarely
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-017-15919-z

The role of reproductive isolation in allopolyploid speciation patterns: empirical insights from the progenitors of common wheat
Cited by: 8
Author(s): Yoshihiro Matsuoka, Shigeo Takumi
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-017-16322-4

Rama: a machine learning approach for ribosomal protein prediction in plants
Cited by: 10
Author(s): Thales Francisco Mota Carvalho, José Cleydson Ferreira da Silva, Iara P. Calil, Elizabeth P. B. Fontes, Fábio Ribeiro Cerqueira
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-017-16811-6

Profiling of different pancreatic cancer cells used as models for metastatic behaviour shows large variation in their N-glycosylation
Cited by: 42
Author(s): Stephanie Holst, Ana I. Belo, Elisa Giovannetti, Irma van Die, Manfred Wuhrer
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-017-16614-9

The importance of filamentous cyanobacteria in the development of oxygenic photogranules
Cited by: 75
Author(s): Kim Milferstedt, Wenye Camilla Kuo-Dahab, Caitlyn S. Butler, Jérôme Hamelin, Ahmed S. Abouhend, Kristie Stauch-White, Adam McNair, Christopher Watt, Blanca I. Carbajal-González, Sona Dolan, Chul Park
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-017-18343-5

Optimising monitoring efforts for secretive snakes: a comparison of occupancy and N-mixture models for assessment of population status
Cited by: 27
Author(s): Robert John Ward, Richard A. Griffiths, John W. Wilkinson, Nina Cornish
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-017-14943-3

Cigarette smoking is associated with an altered vaginal tract metabolomic profile
Cited by: 71
Author(s): Tiffanie M. Nelson, Joanna-Lynn C. Borgogna, Ryan D. Michalek, David W. Roberts, Jessica M. Rath, Elbert D. Glover, Jacques Ravel, Michelle Shardell, Carl J. Yeoman, Rebecca M. Brotman
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-018-19154-y

Moderate decline in select synaptic markers in the prefrontal cortex (BA9) of patients with Alzheimer’s disease at various cognitive stages
Cited by: 46
Author(s): Odile Poirel, Sébastien Mella, Catherine Videau, Lauriane Ramet, Maria Antonietta Davoli, Étienne Herzog, Pavel Katsel, Naguib Mechawar, Vahram Haroutunian, Jacques Epelbaum, Stéphanie Daumas, Salah El Mestikawy
Software Mentions: 2
Published: almost 9 years ago

10.1186/s13068-020-01819-4

Genetic, transcriptional, and regulatory landscape of monolignol biosynthesis pathway in Miscanthus × giganteus
Cited by: 10
Author(s): Xiaofei Zeng, Jiajing Sheng, Fenglin Zhu, Tianzi Wei, Lingling Zhao, Xiaohu Hu, Xianwei Zheng, Fangjian Zhou, Zhongli Hu, Youxiang Diao, Surong Jin
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-018-19147-x

Effluent and serum protein N-glycosylation is associated with inflammation and peritoneal membrane transport characteristics in peritoneal dialysis patients
Cited by: 11
Author(s): Evelina Ferrantelli, Karima Farhat, Agnes L. Hipgrave Ederveen, Karli R. Reiding, Robert H.J. Beelen, Frans J. van Ittersum, Manfred Wuhrer, Viktoria Dotz
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.pone.0158829

Disentangling the External Reference Frames Relevant to Tactile Localization
Cited by: 16
Author(s): Tobias Heed, Jenny Backhaus, Brigitte Röder, Stephanie Badde
Software Mentions: 2
Published: over 10 years ago

10.1038/s41598-018-19862-5

Functional metagenomics identifies novel genes ABCTPP, TMSRP1 and TLSRP1 among human gut enterotypes
Cited by: 36
Author(s): Manoj Kumar Verma, Vasim Ahmed, Shashank Gupta, Jitendra Kumar, Rajesh Pandey, Vibha Mandhan, Nar Singh Chauhan
Software Mentions: 2
Published: almost 9 years ago

10.1186/s12967-021-02814-5

Gut microbiota accelerates cisplatin-induced acute liver injury associated with robust inflammation and oxidative stress in mice
Cited by: 31
Author(s): Shenhai Gong, Ying Feng, Yunong Zeng, Huanrui Zhang, Meiping Pan, Fangjie He, Rong Wu, Jingrui Chen, Jiuling Lu, Siyou Zhang, Songhua Yuan, Xia Chen
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-018-20298-0

Climate Based Predictability of Oil Palm Tree Yield in Malaysia
Cited by: 56
Author(s): Pascal Oettli, Swadhin K. Behera, Toshio Yamagata
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-20935-8

Impact of mid-season sulphur deficiency on wheat nitrogen metabolism and biosynthesis of grain protein
Cited by: 39
Author(s): Zitong Yu, Angéla Juhász, Shahidul Islam, Dean Diepeveen, Jingjuan Zhang, Penghao Wang, Wujun Ma
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-20833-z

Surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages
Cited by: 21
Author(s): Raphaël Morard, Marie-José Garet-Delmas, Frédéric Mahe, Sarah Romac, Julie Poulain, Michal Kučera, Colomban de Vargas
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pgen.1006977

Gene-environment interaction study for BMI reveals interactions between genetic factors and physical activity, alcohol consumption and socioeconomic status
Cited by: 123
Author(s): Mathias Rask‐Andersen, Torgny Karlsson, Weronica E. Ek, Åsa Johansson
Software Mentions: 2
Published: about 9 years ago

10.1371/journal.pgen.1004830

Extensive Copy-Number Variation of Young Genes across Stickleback Populations
Cited by: 69
Author(s): Frédéric J. J. Chain, Philine G. D. Feulner, Mahesh Panchal, Christophe Eizaguirre, Irene E. Samonte, Martin Kalbe, Tobias L. Lenz, Monika Stoll, Erich Bornberg‐Bauer, Manfred Milinski, Thorsten B. H. Reusch
Software Mentions: 2
Published: almost 12 years ago

10.1371/journal.pgen.1005583

DNA Methylation Landscapes of Human Fetal Development
Cited by: 70
Author(s): Roderick C. Slieker, Matthias S Roost, Liesbeth van Iperen, H. Eka D. Suchiman, Elmar W. Tobi, Françoise Carlotti, Eelco J.P. de Koning, P. Eline Slagboom, Bastiaan T. Heijmans, Susana M. Chuva de Sousa Lopes
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.pgen.1005806

Quantitative Genetics Identifies Cryptic Genetic Variation Involved in the Paternal Regulation of Seed Development
Cited by: 20
Author(s): Nuno D. Pires, Marian Bemer, Lena Müller, Célia Baroux, Charles Spillane, Ueli Grossniklaus
Software Mentions: 2
Published: almost 11 years ago

10.1038/s41598-018-22610-4

Cost-effective generation of precise label-free quantitative proteomes in high-throughput by microLC and data-independent acquisition
Cited by: 65
Author(s): Jakob Vowinckel, Aleksej Zelezniak, Roland Bruderer, Michael Mülleder, Lukas Reiter, Markus Ralser
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-22470-y

Sharing of photobionts in sympatric populations of Thamnolia and Cetraria lichens: evidence from high-throughput sequencing
Cited by: 25
Author(s): Ioana Onuț-Brännström, Mitchell Benjamin, Douglas G. Scofield, Starri Heiðmarsson, Martin Andersson, Eva S. Lindström, Hanna Johannesson
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pgen.1004369

Recent Mitochondrial DNA Mutations Increase the Risk of Developing Common Late-Onset Human Diseases
Cited by: 128
Author(s): Gavin Hudson, Aurora Gómez-Durán, I. J. Wilson, Patrick F. Chinnery
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pcbi.1006372

coTRaCTE predicts co-occurring transcription factors within cell-type specific enhancers
Cited by: 6
Author(s): Alena van Bömmel, Michael I. Love, Ho‐Ryun Chung, Martin Vingron
Software Mentions: 2
Published: about 8 years ago

10.1038/s41598-018-24379-y

Pan-cancer analysis of somatic mutations and transcriptomes reveals common functional gene clusters shared by multiple cancer types
Cited by: 29
Author(s): Hyeongmin Kim, Yong Min Kim
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-24467-z

Evolutionary convergence and divergence in archaeal chromosomal proteins and Chromo-like domains from bacteria and eukaryotes
Cited by: 19
Author(s): Gurmeet Kaur, Lakshminarayan M. Iyer, S. Subramanian, L. Aravind
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-25201-5

Chromosomal barcoding as a tool for multiplexed phenotypic characterization of laboratory evolved lineages
Cited by: 18
Author(s): Leonie Johanna Jahn, Andreas Porse, Christian Munck, Daniel Simon, Svetlana Volkova, Morten Otto Alexander Sommer
Software Mentions: 2
Published: over 8 years ago

10.1186/s13018-021-02574-4

Identification and validation of key long non-coding RNAs in resveratrol protect against IL-1β-treated chondrocytes via integrated bioinformatic analysis
Cited by: 5
Author(s): Hong Yi, Wei Zhang, Shengyu Cui, Jiyang Fan, Xiao Feng Zhu, Wei Liu
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-018-22493-5

A Five-microRNA Signature for Survival Prognosis in Pancreatic Adenocarcinoma based on TCGA Data
Cited by: 37
Author(s): Xiuhui Shi, Li Xu, Hang Zhang, Ruizhi He, Yan Zhao, Min Zhou, Shutao Pan, Chunle Zhao, Yechen Feng, Min Wang, Xiaomao Guo, Renyi Qin
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pcbi.1009120

COVID-19 in schools: Mitigating classroom clusters in the context of variable transmission
Cited by: 33
Author(s): Paul Tupper, Caroline Colijn
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-018-26172-3

A correlative and quantitative imaging approach enabling characterization of primary cell-cell communication: Case of human CD4+ T cell-macrophage immunological synapses
Cited by: 2
Author(s): Richard Kasprowicz, Emma Rand, Peter O’Toole, Nathalie Signoret
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-23502-3

Using spatial mark-recapture for conservation monitoring of grizzly bear populations in Alberta
Cited by: 25
Author(s): John Boulanger, Scott E. Nielsen, Gordon B. Stenhouse
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-26947-8

Comparing Sanger sequencing and high-throughput metabarcoding for inferring photobiont diversity in lichens
Cited by: 37
Author(s): Fiona Paul, Jürgen Otte, Imke Schmitt, Francesco Dal Grande
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-27566-z

Biomimetic post-capillary venule expansions for leukocyte adhesion studies
Cited by: 9
Author(s): Bryan L. Benson, Lucy Li, Jay Myers, Rodney Dixon Dorand, Umut A. Gürkan, Alex Y. Huang, Richard M. Ransohoff
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-26768-9

RETRACTED ARTICLE: The Na/K-ATPase Oxidant Amplification Loop Regulates Aging
Cited by: 28
Author(s): Komal Sodhi, Alexandra Nichols, Amrita Mallick, Rebecca L. Klug, Jiang Liu, Xiaoliang Wang, Krithika Srikanthan, Perrine Goguet-Rubio, Athar Nawab, Rebecca Pratt, Megan N. Lilly, Juan Sanabria, Zijian Xie, Nader G. Abraham, Joseph I. Shapiro
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-28048-y

Butyrate produced by gut commensal bacteria activates TGF-beta1 expression through the transcription factor SP1 in human intestinal epithelial cells
Cited by: 124
Author(s): Camille Martin-Gallausiaux, Fabienne Béguet-Crespel, Ludovica Marinelli, Alexandre Jamet, Florence Ledue, Hervé M. Blottière, Nicolas Lapaque
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-28091-9

Differential preservation of endogenous human and microbial DNA in dental calculus and dentin
Cited by: 86
Author(s): Allison E. Mann, Susanna Sabin, Kirsten A. Ziesemer, Åshild J. Vågene‬, Hannes Schroeder, Andrew T. Ozga, Krithivasan Sankaranarayanan, Courtney A. Hofman, James A. Fellows Yates, Domingo C. Salazar‐García, Bruno Fröhlich, Mark Aldenderfer, Menno L. P. Hoogland, Christopher Read, George R. Milner, Anne C. Stone, Cecil M. Lewis, Johannes Krause, Corinne L. Hofman, Kirsten I. Bos, Christina Warinner
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-27657-x

Zebrafish mutants and TEAD reporters reveal essential functions for Yap and Taz in posterior cardinal vein development
Cited by: 37
Author(s): Matteo Astone, Jason Kuan Han Lai, Sirio Dupont, Didier Y. R. Stainier, Francesco Argenton, Andrea Vettori
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pcbi.1003405

Phenome-Wide Association Studies on a Quantitative Trait: Application to TPMT Enzyme Activity and Thiopurine Therapy in Pharmacogenomics
Cited by: 47
Author(s): Antoine Neuraz, Laurent Chouchana, Georgia Malamut, Christine Le Beller, Denis Roche, Philippe Beaune, Patrice Degoulet, Anita Burgun, Marie‐Anne Loriot, Paul Avillach
Software Mentions: 2
Published: almost 13 years ago

10.1038/s41598-018-29793-w

Nasal microbiota clusters associate with inflammatory response, viral load, and symptom severity in experimental rhinovirus challenge
Cited by: 48
Author(s): Markus J. Lehtinen, Ashley A. Hibberd, Sofia Männikkö, Nicolas Yeung, Tommi Kauko, Sofia D. Forssten, Liisa Lehtoranta, Sampo J. Lahtinen, Buffy Stahl, Anna Lyra, Ronald B. Turner
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-021-82709-z

Structural changes in the oral microbiome of the adolescent patients with moderate or severe dental fluorosis
Cited by: 7
Author(s): Qian Wang, Xuelan Chen, Huan Hu, Xiaoyuan Wei, Xiaofan Wang, Zhiqing Peng, Rui Ma, Qian Zhao, Jiangchao Zhao, Jianguo Liu, Feilong Deng
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-82286-1

Combined analysis of miR-200 family and its significance for breast cancer
Cited by: 19
Author(s): Andrea Fontana, Raffaela Barbano, Elisa Dama, Barbara Pasculli, Michelina Rendina, Maria Morritti, Valentina Melocchi, Marina Castelvetere, Vanna Maria Valori, Sara Ravaioli, Sara Bravaccini, Libero Ciuffreda, Paolo Graziano, Evaristo Maiello, Massimiliano Copetti, Vito Michele Fazio, Manel Esteller, Fabrizio Bianchi, Paola Parrella
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-82801-4

Drosophila oocyte proteome composition covaries with female mating status
Cited by: 9
Author(s): Caitlin E. McDonough-Goldstein, Scott Pitnick, Steve Dorus
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-82640-3

The distribution of antibiotic resistance genes in chicken gut microbiota commensals
Cited by: 26
Author(s): Helena Juřicová, Jitka Matiasovicova, Tereza Kubasová, Darina Čejková, Ivan Rychlı́k
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-020-69395-z

Developmental transcriptome profiling uncovered carbon signaling genes associated with almond fruit drop
Cited by: 5
Author(s): Chen Guo, Wei Yu, Bo Yang, Mubarek Ayup, Ning Li, Jun Li, Kang Liao, Huan Wang
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-82014-9

Peaks in bat activity at turbines and the implications for mitigating the impact of wind energy developments on bats
Cited by: 16
Author(s): Suzanne M. Richardson, Paul R. Lintott, David J. Hosken, Theo Economou, Fiona Mathews
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-83081-8

Critical evaluation of short, long, and hybrid assembly for contextual analysis of antibiotic resistance genes in complex environmental metagenomes
Cited by: 41
Author(s): Connor Brown, Ishi Keenum, Dongjuan Dai, Liqing Zhang, Peter J. Vikesland, Amy Pruden
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pbio.3000636

Millipede genomes reveal unique adaptations during myriapod evolution
Cited by: 15
Author(s): Zhe Qu, Wenyan Nong, Wai Lok So, Tom Barton-Owen, Yiqian Li, Thomas Leung, Chade Li, Tobias Baril, Hon Kit Wong, Thomas Swale, Ting‐Fung Chan, Alexander Hayward, Sai-Ming Ngai, Jerome H.L. Hui
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-021-83157-5

Predictors of brain infarction in adult patients on extracorporeal membrane oxygenation: an observational cohort study
Cited by: 13
Author(s): Riccardo Iacobelli, Alexander Fletcher‐Sandersjöö, Caroline Lindblad, Boris Keselman, Eric Peter Thelin, Lars Broman
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pbio.3001008

Neuroinflammation in the normal-appearing white matter (NAWM) of the multiple sclerosis brain causes abnormalities at the nodes of Ranvier
Cited by: 22
Author(s): Patricia Gallego-Delgado, Rachel James, Eleanor Browne, Joanna Meng, Swetha Umashankar, Li Yi Tan, Carmen Picón, Nicholas D. Mazarakis, A. Aldo Faisal, Owain W. Howell, Richard Reynolds
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-020-79778-x

Performance comparison of two reduced-representation based genome-wide marker-discovery strategies in a multi-taxon phylogeographic framework
Cited by: 5
Author(s): Philipp Kirschner, Wolfgang Arthofer, Stefanie Pfeifenberger, Eliška Záveská, Peter Schönswetter, Alexander Gamisch, Andreas Hilpold, Ovidiu Paun, Isabel Sanmartín, Emiliano Trucchi
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pbio.1002264

Meta-research: Evaluation and Improvement of Research Methods and Practices
Cited by: 193
Author(s): John P. A. Ioannidis, Daniele Fanelli, Debbie Drake Dunne, Steven N. Goodman
Software Mentions: 2
Published: about 11 years ago

10.1038/s41598-020-80662-x

Identification of LINC00665-miR-let-7b-CCNA2 competing endogenous RNA network associated with prognosis of lung adenocarcinoma
Cited by: 12
Author(s): Yu‐Sheng Huang, Zhong Li, Kechao Nie, Lijuan Li, Shaohua Song, Fengbin Liu, Peiwu Li, Deliang Cao, Yufeng Liu
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-83366-y

Elevation in viral entry genes and innate immunity compromise underlying increased infectivity and severity of COVID-19 in cancer patients
Cited by: 4
Author(s): Jennifer Kwan, Liang Lin, Rachel Bell, Jeffrey P. Bruce, Christopher T. Richardson, Trevor J. Pugh, Fei‐Fei Liu
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-84114-y

Integration of relative metabolomics and transcriptomics time-course data in a metabolic model pinpoints effects of ribosome biogenesis defects on Arabidopsis thaliana metabolism
Cited by: 5
Author(s): Christopher Pries, Zahra Razaghi-Moghadam, Joachim Kopka, Zoran Nikoloski
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-84061-8

Influence of spatial structure on protein damage susceptibility: a bioinformatics approach
Cited by: 0
Author(s): Maximilian Fichtner, Stefan Schuster, Heiko Stark
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-84580-4

RETRACTED ARTICLE: Uncertainty in estimating the number of contributors from simulated DNA mixture profiles, with and without allele dropout, from Chinese, Malay, Indian, and Caucasian ethnic populations
Cited by: 6
Author(s): Kevin Wai Yin Chong, Christopher Kiu Choong Syn
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-84796-4

People prefer joint outcome prosocial resource distribution towards future others
Cited by: 5
Author(s): Yukako Inoue, Toshiyuki Himichi, Nobuhiro Mifune, Tatsuyoshi Saijo
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-84864-9

EMeth: An EM algorithm for cell type decomposition based on DNA methylation data
Cited by: 5
Author(s): Hanyu Zhang, Ruoyi Cai, James Y. Dai, Wei Sun
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-85581-z

Type 2 diabetes is more predictable in women than men by multiple anthropometric and biochemical measures
Cited by: 3
Author(s): Tangying Li, Huibiao Quan, Huachuan Zhang, Leweihua Lin, Lin Lü, Qianying Ou, Kaining Chen
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pbio.3001136

Plant pathogens convergently evolved to counteract redundant nodes of an NLR immune receptor network
Cited by: 56
Author(s): Lida Derevnina, Mauricio P Contreras, Hiroaki Adachi, Jessica Upson, Angel Vergara Cruces, Rongrong Xie, Jan Sklenář, Frank L.H. Menke, Sam T. Mugford, Dan MacLean, Wenbo Ma, Saskia A. Hogenhout, A. Goverse, Abbas Maqbool, Chih‐Hang Wu, Sophien Kamoun
Software Mentions: 2
Published: about 5 years ago

10.1111/jpy.12919

Generalist Life Cycle Aids Persistence of Alexandrium ostenfeldii (Dinophyceae) in Seasonal Coastal Habitats of the Baltic Sea
Cited by: 5
Author(s): Jacqueline Jerney, Salla Ahonen, Päivi Hakanen, Sanna Suikkanen, Anke Kremp
Software Mentions: 2
Published: about 7 years ago

10.1038/s41598-021-84984-2

Telomere attrition rates are associated with weather conditions and predict productive lifespan in dairy cattle
Cited by: 12
Author(s): Luise A. Seeker, Sarah Underwood, Rachael V. Wilbourn, Jennifer Dorrens, Hannah Froy, Rebecca Holland, Joanna J. Ilska, Androniki Psifidi, Ainsley Bagnall, Bruce Whitelaw, Mike Coffey, Georgios Banos, Daniel H. Nussey
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pbio.2001867

Integrated time-lapse and single-cell transcription studies highlight the variable and dynamic nature of human hematopoietic cell fate commitment
Cited by: 48
Author(s): Alice Moussy, Jérémie Cosette, Romuald Parmentier, Cindy da Silva, Guillaume Corre, Richard Angélique, Olivier Gandrillon, Daniel Stockholm, Andràs Páldi
Software Mentions: 2
Published: over 9 years ago

10.1038/s41598-021-85825-y

Time spent outdoors in childhood is associated with reduced risk of myopia as an adult
Cited by: 32
Author(s): Gareth Lingham, Seyhan Yazar, Robyn Lucas, Elizabeth Milne, Alex W. Hewitt, Christopher J Hammond, Stuart MacGregor, Kathryn A. Rose, Fred K. Chen, Mingguang He, Jeremy A. Guggenheim, Michael Clarke, Seang Mei Saw, Cathy Williams, Minas T. Coroneo, Leon Straker, David A. Mackey
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pbio.2003026

Ethoscopes: An open platform for high-throughput ethomics
Cited by: 74
Author(s): Quentin Geissmann, Luis García Rodríguez, Esteban J. Beckwith, Alice S. French, Arian R. Jamasb, Giorgio F. Gilestro
Software Mentions: 2
Published: about 9 years ago

10.1038/s41598-021-86217-y

Protein cleavage influences surface protein presentation in Mycoplasma pneumoniae
Cited by: 4
Author(s): Iain J. Berry, Michael Widjaja, Veronica M. Jarocki, Joel R. Steele, Matthew P. Padula, Steven P. Djordjevic
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-85993-x

Mining The Cancer Genome Atlas gene expression data for lineage markers in distinguishing bladder urothelial carcinoma and prostate adenocarcinoma
Cited by: 2
Author(s): Ewe Seng Ch’ng
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pbio.3000113

β-glucan–dependent shuttling of conidia from neutrophils to macrophages occurs during fungal infection establishment
Cited by: 21
Author(s): Vahid Pazhakh, Felix Ellett, Ben A. Croker, Joanne A. O’Donnell, Luke Pase, Keith E. Schulze, R. Stefan Greulich, Aakash Gupta, Constantino Carlos Reyes-Aldasoro, Alex Andrianopoulos, Graham J. Lieschke
Software Mentions: 2
Published: about 7 years ago

10.1038/s41598-021-86349-1

Genome-wide transcriptome study in skin biopsies reveals an association of E2F4 with cadasil and cognitive impairment
Cited by: 5
Author(s): Elena Muiño, Olga Maisterra, Joan Jiménez-Baladó, Natàlia Cullell, Caty Carrera, Nuria P. Torres-Águila, Jara Cárcel‐Márquez, Cristina Gallego-Fábrega, Miquel Lledós, Jonathan González-Sánchez, Ferran Olmos‐Alpiste, Eva Espejo, Álvaro March, Ramón M. Pujol, Ana Rodríguez-Campello, Gemma Romeral, Jurek Krupinski, Joan Martí‐Fàbregas, Joan Montaner, Jaume Roquer, Israel Fernández‐Cadenas
Software Mentions: 2
Published: over 5 years ago

Projects: cran: ggplot2

Enhanced Analysis

Science Score: 100/100

Bonuses:

Papers Mentioning ggplot2 11,441