cran: ggplot2 | Projects | Ecosyste.ms: Papers

10.3389/fmicb.2021.647861

Nutrient Exposure Alters Microbial Composition, Structure, and Mercury Methylating Activity in Periphyton in a Contaminated Watershed
Cited by: 4
Author(s): Alyssa A. Carrell, Grace E. Schwartz, Melissa Cregger, Caitlin M. Gionfriddo, Dwayne A. Elias, Regina L. Wilpiszeski, Dawn M. Klingeman, Ann M. Wymore, Katherine A. Muller, Scott C. Brooks
Software Mentions: 5
Published: over 5 years ago

10.1099/mgen.0.000240

Genomic analysis of bacteria in the Acute Oak Decline pathobiome
Cited by: 29
Author(s): James Doonan, Sandra Denman, Justin A. Pachebat, James E. McDonald
Software Mentions: 5
Published: over 7 years ago

10.1099/mgen.0.000333

Genome structure reveals the diversity of mating mechanisms in Saccharomyces cerevisiae x Saccharomyces kudriavzevii hybrids, and the genomic instability that promotes phenotypic diversity
Cited by: 13
Author(s): Miguel Morard, Yaiza Benavent‐Gil, Guadalupe Ortiz-Tovar, Laura Pérez‐Través, Amparo Querol, Christina Toft, Eladio Barrio
Software Mentions: 5
Published: over 6 years ago

10.22074/IJFS.2020.134614

Anti-Müllerian Hormone Predictive Levels to Determine The Likelihood of Ovarian Hyper-Response in Infertile Women with Polycystic Ovarian Morphology.
Cited by: 2
Author(s): Azadeh Akbari Sene, Mahnaz Ashrafi, Nasim Alaghmand-Fard, Neda Mohammadi, Mona Mortezapour Alisaraie, Ahad Alizadeh
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0051292

Characterisation and Validation of Insertions and Deletions in 173 Patient Exomes
Cited by: 9
Author(s): Francesco Lescai, Silvia Bonfiglio, Chiara Bacchelli, Estelle Chanudet, Aoife Waters, Sanjay M. Sisodiya, Dalia Kasperavičiūtė, Julie Williams, Denise Harold, John Hardy, Robert Kleta, Sebahattin Çırak, Richard Williams, John C. Achermann, John Anderson, David P. Kelsell, Tom Vulliamy, Henry Houlden, Nicholas W. Wood, Una Marie Sheerin, Gian Paolo Tonini, Donna S. Mackay, Khalid Hussain, Jane C. Sowden, Veronica A. Kinsler, Justyna Osinska, Tony Brooks, Mike Hubank, Philip L. Beales, Elia Stupka
Software Mentions: 5
Published: over 13 years ago

10.1038/s41598-021-91425-7

Establishment and assessment of an amplicon sequencing method targeting the 16S-ITS-23S rRNA operon for analysis of the equine gut microbiome
Cited by: 17
Author(s): Yuta Kinoshita, Hidekazu Niwa, Eri Uchida‐Fujii, Toshio Nukada
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0243265

Genomic variation and epidemiology of SARS-CoV-2 importation and early circulation in Israel
Cited by: 4
Author(s): Neta S. Zuckerman, Efrat Bucris, Yaron Drori, Oran Erster, Danit Sofer, Rakefet Pando, Ella Mendelson, Orna Mor, Michal Mandelboim
Software Mentions: 5
Published: over 5 years ago

10.1099/mgen.0.000341

An assessment of genome annotation coverage across the bacterial tree of life
Cited by: 44
Author(s): Briallen Lobb, Benjamin Tremblay, Gabriel Moreno–Hagelsieb, Andrew C. Doxey
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0216758

An integrated insight into the response of bacterial communities to anthropogenic contaminants in a river: A case study of the Wonderfonteinspruit catchment area, South Africa
Cited by: 20
Author(s): Karen Jordaan, A. Comeau, Damase P. Khasa, Cornelius Carlos Bezuidenhout
Software Mentions: 5
Published: about 7 years ago

10.1002/mbo3.1231

Marine biofilms on different fouling control coating types reveal differences in microbial community composition and abundance
Cited by: 16
Author(s): Maria Papadatou, Samuel Robson, Sergey Dobretsov, Joy E. M. Watts, Jennifer Longyear, Maria Salta
Software Mentions: 5
Published: almost 5 years ago

10.1038/s41598-019-41452-2

Using Bacterial Transcriptomics to Investigate Targets of Host-Bacterial Interactions in Caenorhabditis elegans
Cited by: 21
Author(s): Jason P. Chan, Justin Wright, Hoi Tong Wong, Anastasia Ardasheva, Jamey T. Brumbaugh, Christopher J. McLimans, Regina Lamendella
Software Mentions: 5
Published: about 7 years ago

10.3758/s13414-020-02007-0

Oculomotor capture by search-irrelevant features in visual working memory: on the crucial role of target–distractor similarity
Cited by: 4
Author(s): Rebecca M. Foerster, Werner X. Schneider
Software Mentions: 5
Published: over 6 years ago

10.1186/s12862-021-01802-z

Urinary creatinine varies with microenvironment and sex in hibernating Greater Horseshoe bats (Rhinolophus ferrumequinum) in Korea
Cited by: 0
Author(s): Heungjin Ryu, Kodzue Kinoshita, Sungbae Joo, Sun-Sook Kim
Software Mentions: 5
Published: about 5 years ago

10.7717/peerj.3724

Validation and description of two new north-western Australian Rainbow skinks with multispecies coalescent methods and morphology
Cited by: 11
Author(s): Ana C. Afonso Silva, Natali Santos, Huw A. Ogilvie, Craig Moritz
Software Mentions: 5
Published: almost 9 years ago

10.3389/fmicb.2018.02015

The RNA Complement of Outer Membrane Vesicles From Salmonella enterica Serovar Typhimurium Under Distinct Culture Conditions
Cited by: 46
Author(s): Antoine Malabirade, Janine Habier, Anna Heintz‐Buschart, Patrick May, Julien Godet, Rashi Halder, Alton Etheridge, David J. Galas, Paul Wilmes, Joëlle V. Fritz
Software Mentions: 5
Published: almost 8 years ago

10.1186/s42523-020-00040-w

The microbiome of captive hamadryas baboons
Cited by: 6
Author(s): Xuanji Li, Urvish Trivedi, Asker Brejnrod, Gisle Vestergaard, Martin Steen Mortensen, Mads F. Bertelsen, Søren J. Sørensen
Software Mentions: 5
Published: almost 6 years ago

10.3389/fmicb.2018.00785

SplinectomeR Enables Group Comparisons in Longitudinal Microbiome Studies
Cited by: 44
Author(s): Robin R. Shields-Cutler, Gabe A. Al-Ghalith, Moran Yassour, Dan Knights
Software Mentions: 5
Published: about 8 years ago

10.1371/journal.pone.0239480

Horizontal and vertical movements of starry smooth-hound Mustelus asterias in the northeast Atlantic
Cited by: 4
Author(s): Christopher A. Griffiths, Serena Wright, Joana F. Silva, Jim R. Ellis, David Righton, Sophy R. McCully Phillips
Software Mentions: 5
Published: over 5 years ago

10.3389/fmicb.2021.660190

Relationships Between the Microbial Composition and the Geochemistry and Mineralogy of the Cobalt-Bearing Legacy Mine Tailings in Northeastern Ontario
Cited by: 5
Author(s): Brittaney Courchesne, Michael Schindler, Nadia Mykytczuk
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0241231

A taxonomic and molecular survey of the pteridophytes of the Nectandra Cloud Forest Reserve, Costa Rica
Cited by: 7
Author(s): Joel H. Nitta, Atsushi Ebihara, Alan Р. Smith
Software Mentions: 5
Published: over 5 years ago

10.1186/s12859-018-2252-9

npInv: accurate detection and genotyping of inversions using long read sub-alignment
Cited by: 26
Author(s): Haojing Shao, Devika Ganesamoorthy, Tânia Duarte, Minh Duc Cao, Clive Hoggart, Lachlan Coin
Software Mentions: 5
Published: almost 8 years ago

10.1038/s41598-020-71864-4

Genomic profiling of bacterial and fungal communities and their predictive functionality during pulque fermentation by whole-genome shotgun sequencing
Cited by: 25
Author(s): Katherine Chacón-Vargas, Julian Torres, Martha Gilés-Gómez, Adelfo Escalante, John G. Gibbons
Software Mentions: 5
Published: almost 6 years ago

10.1186/s40168-018-0612-3

Design and application of a novel two-amplicon approach for defining eukaryotic microbiota
Cited by: 16
Author(s): Ana Popović, Céline Bourdon, Pauline W. Wang, David S. Guttman, Wieger Voskuijl, Michael E. Grigg, Robert Bandsma, John Parkinson
Software Mentions: 5
Published: over 7 years ago

10.7554/eLife.62529

Journal policies and editors’ opinions on peer review
Cited by: 24
Author(s): Daniel G Hamilton, Hannah Fraser, Rink Hoekstra, Fiona Fidler
Software Mentions: 5
Published: over 5 years ago

10.1186/s40168-020-00850-9

The microbiome as a biosensor: functional profiles elucidate hidden stress in hosts
Cited by: 24
Author(s): Avihai Zolti, Stefan J. Green, Noa Sela, Yitzhak Hadar, Dror Minz
Software Mentions: 5
Published: about 6 years ago

10.1186/s12898-017-0141-0

Environmental drivers of Ixodes ricinus abundance in forest fragments of rural European landscapes
Cited by: 42
Author(s): Steffen Ehrmann, Jaan Liira, Stefanie Gärtner, Karin Hansen, Jörg Brunet, Sara A. O. Cousins, Marc Deconchat, Guillaume Decocq, Pieter De Frenne, Pallieter De Smedt, Martin Diekmann, Emilie Gallet‐Moron, Annette Kolb, Jonathan Lenoir, Jessica Lindgren, Tobias Naaf, Taavi Paal, Alicia Valdés, Kris Verheyen, Monika Wulf, Michael Scherer‐Lorenzen
Software Mentions: 5
Published: almost 9 years ago

10.3389/fmicb.2021.646124

Soil pH and Organic Carbon Properties Drive Soil Bacterial Communities in Surface and Deep Layers Along an Elevational Gradient
Cited by: 25
Author(s): Qifeng Tian, Ying Jiang, Yanan Tang, Yu Wu, Zhiyao Tang, Feng Liu
Software Mentions: 5
Published: almost 5 years ago

10.3389/fmicb.2020.559728

Dynamic Changes in the Microbiome of Rice During Shoot and Root Growth Derived From Seeds
Cited by: 21
Author(s): Mengying Wang, Alexander W. Eyre, Michael R. Thon, Yeonyee Oh, Ralph A. Dean
Software Mentions: 5
Published: almost 6 years ago

10.3389/fmicb.2020.01757

The Composition of Microbial Communities in Six Streams, and Its Association With Environmental Conditions, and Foodborne Pathogen Isolation
Cited by: 9
Author(s): Taejung Chung, Daniel Weller, Jasna Kovač
Software Mentions: 5
Published: almost 6 years ago

10.1038/s41598-021-92206-y

Seroprevalence of SARS-CoV-2 antibodies in Saint Petersburg, Russia: a population-based study
Cited by: 15
Author(s): Антон Барчук, Dmitriy Skougarevskiy, Kirill Titaev, Daniil Shirokov, Yulia Raskina, Anastasia Novkunkskaya, Petr Talantov, А. А. Исаев, Ekaterina Pomerantseva, Svetlana Zhikrivetskaya, Lubov Barabanova, Vadim Volkov
Software Mentions: 5
Published: about 5 years ago

10.1007/s00401-021-02299-y

Single-cell profiling of myasthenia gravis identifies a pathogenic T cell signature
Cited by: 21
Author(s): Florian Ingelfinger, Sinduya Krishnarajah, Michael H. Kramer, Sebastian G. Utz, Edoardo Galli, Mirjam Lutz, Pascale Zwicky, Ayse U. Akarca, Nicole Puertas Jurado, Can Ulutekin, David Bamert, Corinne C. Widmer, Luca Piccoli, Federica Sallusto, Nicolás Gonzalo Núñez, Teresa Marafioti, Didier Schneiter, Isabelle Opitz, Antonio Lanzavecchia, Hans H. Jung, Donatella De Feo, Sarah Mundt, Bettina Schreiner, Burkhard Becher
Software Mentions: 5
Published: about 5 years ago

10.3389/fmicb.2018.00922

Enrichment of Bacteria From Eastern Mediterranean Sea Involved in Lignin Degradation via the Phenylacetyl-CoA Pathway
Cited by: 20
Author(s): Hyun-Joo Woo, Terry C. Hazen
Software Mentions: 5
Published: about 8 years ago

10.2196/27633

Web-Based Survival Analysis Tool Tailored for Medical Research (KMplot): Development and Implementation
Cited by: 716
Author(s): András Lánczky, Balázs Győrffy
Software Mentions: 5
Published: almost 5 years ago

10.7717/peerj.3246

Microbial communities in sediment from Zostera marina patches, but not the Z. marina leaf or root microbiomes, vary in relation to distance from patch edge
Cited by: 77
Author(s): Cassandra L. Ettinger, Sofie E. Voerman, Jenna M. Lang, John J. Stachowicz, Jonathan A. Eisen
Software Mentions: 5
Published: about 9 years ago

10.1155/2021/7391560

The Effect of Ferroptosis-Related Genes on Prognosis and Tumor Mutational Burden in Hepatocellular Carcinoma
Cited by: 8
Author(s): Hao Zhang, Renzheng Liu, Lin Sun, Weidong Guo, Xiao Hu
Software Mentions: 5
Published: almost 5 years ago

10.1038/s41598-019-43091-z

A new class of protein biomarkers based on subcellular distribution: application to a mouse liver cancer model
Cited by: 10
Author(s): Tatjana Sajic, Rodolfo Ciuffa, Vera Lemos, Pan Xu, Valentina Leone, Chen Li, Evan G. Williams, Georgios Makris, Amir Banaei‐Esfahani, Mathias Heikenwälder, Kristina Schoonjans, Ruedi Aebersold
Software Mentions: 5
Published: about 7 years ago

10.1186/s40168-018-0586-1

Association of bovine major histocompatibility complex (BoLA) gene polymorphism with colostrum and milk microbiota of dairy cows during the first week of lactation
Cited by: 34
Author(s): Hooman Derakhshani, J.C. Plaizier, Jeroen De Buck, Herman W. Barkema, Ehsan Khafipour
Software Mentions: 5
Published: over 7 years ago

10.1002/ajb2.1411

A common‐mesocosm experiment recreates sawgrass ( Cladium jamaicense ) phenotypes from Everglades marl prairies and peat marshes
Cited by: 3
Author(s): Jennifer H. Richards, Paulo C. Olivas
Software Mentions: 5
Published: over 6 years ago

10.7717/peerj.12067

The spleen bacteriome of wild rodents and shrews from Marigat, Baringo County, Kenya
Cited by: 2
Author(s): Rehema Liyai, Kimita Gathii, Clement Masakhwe, David Abuom, Beth Mutai, David Miruka Onyango, John N. Waitumbi
Software Mentions: 5
Published: almost 5 years ago

10.1128/AEM.00929-21

Sea-Ice Bacteria Halomonas sp. Strain 363 and Paracoccus sp. Strain 392 Produce Multiple Types of Poly-3-Hydroxyalkaonoic Acid (PHA) Storage Polymers at Low Temperature
Cited by: 7
Author(s): Eeva Eronen-Rasimus, Jenni Hultman, Trần Ngọc Hải, Igor Stelmach Pessi, Eric S. Collins, Shaela Wright, Pia Laine, Sirja Viitamäki, Christina Lyra, David N. Thomas, Peter N. Golyshin, Anne-Mari Luhtanen, Harri Kuosa, Hermanni Kaartokallio
Software Mentions: 5
Published: almost 5 years ago

10.3389/fmicb.2018.02227

Analysis of the Rumen Microbiome and Metabolome to Study the Effect of an Antimethanogenic Treatment Applied in Early Life of Kid Goats
Cited by: 19
Author(s): Leticia Abecia, Gonzalo Martínez Fernández, Kate Waddams, A. I. Martin-García, Eric Pinloche, Christopher J. Creevey, Stuart E. Denman, C. J. Newbold, D. R. Yáñez-Ruíz
Software Mentions: 5
Published: over 7 years ago

10.7554/eLife.33402

Rev7 and 53BP1/Crb2 prevent RecQ helicase-dependent hyper-resection of DNA double-strand breaks
Cited by: 20
Author(s): Bryan A. Leland, Angela C Chen, Amy Zhao, Robert Wharton, Megan C. King
Software Mentions: 5
Published: about 8 years ago

10.1038/s41598-020-72206-0

Behavioral and trophic segregations help the Tahiti petrel to cope with the abundance of wedge-tailed shearwater when foraging in oligotrophic tropical waters
Cited by: 7
Author(s): Andréas Ravache, Karen Bourgeois, Henri Weimerskirch, Angélique Pagenaud, Sophie de Grissac, Mark G. R. Miller, Sylvain Dromzée, Anne Lorrain, Valérie Allain, Paco Bustamante, Jonas Bylemans, Dianne Gleeson, Yves Letourneur, Éric Vidal
Software Mentions: 5
Published: almost 6 years ago

10.3389/fmicb.2019.01491

Genomic Characterization of Jumbo Salmonella Phages That Effectively Target United Kingdom Pig-Associated Salmonella Serotypes
Cited by: 26
Author(s): Anisha M. Thanki, Nathan Brown, Andrew Millard, Martha R. J. Clokie
Software Mentions: 5
Published: almost 7 years ago

10.1186/s40168-018-0555-8

The gut of the finch: uniqueness of the gut microbiome of the Galápagos vampire finch
Cited by: 54
Author(s): Alice Michel, Lewis M. Ward, Shana K. Goffredi, Katherine S. Dawson, Daniel T. Baldassarre, Alec Brenner, Kiyoko M. Gotanda, John E. McCormack, Sean W. Mullin, Ariel O’Neill, Gabrielle S. Tender, J. Albert C. Uy, Kristie Yu, Victoria J. Orphan, Jaime A. Chaves
Software Mentions: 5
Published: almost 8 years ago

10.1371/journal.pone.0236426

Cost-effectiveness of real-world administration of chemotherapy and add-on Viscum album L. therapy compared to chemotherapy in the treatment of stage IV NSCLC patients
Cited by: 3
Author(s): Anja Thronicke, Thomas Reinhold, Philipp von Trott, Christian Grah, Burkhard Matthes, Harald Matthes, Friedemann Schad
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0239485

Does behavioral thermal tolerance predict distribution pattern and habitat use in two sympatric Neotropical frogs?
Cited by: 9
Author(s): Juan C. Díaz‐Ricaurte, Filipe C. Serrano, Estefany Carolíne Guevara-Molina, Cybele de Oliveira Araújo, Marcio Roberto Martins
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0257564

Tree species identity and composition shape the epiphytic lichen community of structurally simple boreal forests over vast areas
Cited by: 7
Author(s): Julian Klein, Matthew Low, Göran Thor, Jörgen Sjögren, Eva Lindberg, Sönke Eggers
Software Mentions: 5
Published: almost 5 years ago

10.3945/ajcn.116.139980

What’s normal? Oligosaccharide concentrations and profiles in milk produced by healthy women vary geographically ,
Cited by: 268
Author(s): Michelle K. McGuire, Courtney L. Meehan, Mark A. McGuire, Janet E. Williams, James E. Foster, Daniel Sellen, Elizabeth Kamau-Mbuthia, Egidioh W. Kamundia, Samwel Mbugua, Sophie E. Moore, Andrew M. Prentice, Linda J. Kvist, Gloria E. Otoo, Sarah L Brooker, William J. Price, Bahman Shafii, Caitlyn Placek, Kimberly A. Lackey, Bianca Robertson, Susana Manzano, Lorena Ruíz, Juan M. Rodríguez, Rossina G. Pareja, Lars Bode
Software Mentions: 5
Published: about 9 years ago

10.1186/s40168-021-01090-1

Genomic adaptations enabling Acidithiobacillus distribution across wide-ranging hot spring temperatures and pHs
Cited by: 16
Author(s): Chanenath Sriaporn, Kathleen A. Campbell, Martin J. Van Kranendonk, Kim M. Handley
Software Mentions: 5
Published: about 5 years ago

10.1186/s40168-020-00925-7

Early-life gut dysbiosis linked to juvenile mortality in ostriches
Cited by: 28
Author(s): Elin Videvall, Se Jin Song, Hanna M. Bensch, Maria Strandh, Anel Engelbrecht, Naomi Serfontein, Olof Hellgren, Adriaan Olivier, S.W.P. Cloete, Rob Knight, Charlie K. Cornwallis
Software Mentions: 5
Published: over 5 years ago

10.1186/s40168-021-01105-x

Dynamics of dark fermentation microbial communities in the light of lactate and butyrate production
Cited by: 35
Author(s): Anna Detman, Daniel Laubitz, Aleksandra Chojnacka, Pawel R. Kiela, Agnieszka Salamon, Albert Barberán, Yongjian Chen, Fei Yang, Mieczysław Błaszczyk, Anna Sikora
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0241842

Genetic and physiological traits for internal phosphorus utilization efficiency in rice
Cited by: 11
Author(s): Getnet Dino Adem, Yoshiaki Ueda, Patrick E. Hayes, Matthias Wissuwa
Software Mentions: 5
Published: over 5 years ago

10.1186/s40168-018-0437-0

Species classifier choice is a key consideration when analysing low-complexity food microbiome data
Cited by: 56
Author(s): Aaron M. Walsh, Fiona Crispie, Órla O’Sullivan, Laura Finnegan, Marcus J. Claesson, Paul D. Cotter
Software Mentions: 5
Published: over 8 years ago

10.1371/journal.pone.0245444

The relationship between social support, stressful events, and menopause symptoms
Cited by: 20
Author(s): Megan Arnot, Emily H Emmott, Ruth Mace
Software Mentions: 5
Published: over 5 years ago

10.2196/26494

Patient Monitoring Alarms of an Intensive Care Unit: Observational Study with DIY Instructions (Preprint)
Cited by: 13
Author(s): Akira-Sebastian Poncette, Maximilian Markus Wunderlich, Claudia Spies, Patrick Heeren, Gerald Vorderwülbecke, Eduardo Salgado, Marc Kastrup, Markus A. Feufel, Felix Balzer
Software Mentions: 5
Published: over 5 years ago

10.1186/s40168-021-01018-9

Diet and gut microbiome interactions of relevance for symptoms in irritable bowel syndrome
Cited by: 24
Author(s): Julien Tap, Stine Störsrud, Boris Le Nevé, Aurélie Cotillard, Nicolas Pons, Joël Doré, Lena Öhman, Hans Törnblom, Muriel Derrien, Magnus Simrén
Software Mentions: 5
Published: over 5 years ago

10.7717/peerj.11433

Analysis of multi-omics differences in left-side and right-side colon cancer
Cited by: 7
Author(s): Yanyi Huang, Jinzhong Duanmu, Yushu Liu, Mengyun Yan, Taiyuan Li, Qunguang Jiang
Software Mentions: 5
Published: about 5 years ago

10.3389/fgene.2021.706814

A Nomogram Integrating Ferroptosis- and Immune-Related Biomarkers for Prediction of Overall Survival in Lung Adenocarcinoma
Cited by: 2
Author(s): Mengyu Chai, Xiuchun Li, Yaxin Zhang, Yemeng Tang, Pingping Shu, Lin Jia, Ke–Qing Shi, Liangxing Wang, Xiaoying Huang
Software Mentions: 5
Published: almost 5 years ago

10.3389/fgene.2018.00491

Dynamic Changes in the Global MicroRNAome and Transcriptome Identify Key Nodes Associated With Ovarian Development in Chickens
Cited by: 12
Author(s): Wenwen Wang, Keliang Wu, Meiting Jia, Siyuan Sun, Kang Li, Qin Zhang, Hui Tang
Software Mentions: 5
Published: over 7 years ago

10.1038/s41598-019-43907-y

Bacterial succession and functional diversity during vermicomposting of the white grape marc Vitis vinifera v. Albariño
Cited by: 31
Author(s): Allison R. Kolbe, Manuel Aira, María Gómez-Brandòn, Marcos Pérez‐Losada, Jorge Domínguez
Software Mentions: 5
Published: about 7 years ago

10.7554/eLife.09347

A pH-driven transition of the cytoplasm from a fluid- to a solid-like state promotes entry into dormancy
Cited by: 332
Author(s): Matthias C. Munder, Daniel Midtvedt, Titus M. Franzmann, Elisabeth Nüske, Oliver Otto, Maik Herbig, Elke Ulbricht, Paul Müller, Anna Taubenberger, Shovamayee Maharana, Liliana Malinovska, Doris Richter, Jochen Guck, Vasily Zaburdaev, Simon Alberti
Software Mentions: 5
Published: over 10 years ago

10.1186/s40168-020-00959-x

Microbiome dynamics during the HI-SEAS IV mission, and implications for future crewed missions beyond Earth
Cited by: 21
Author(s): Alexander Mahnert, Cyprien Verseux, Petra Schwendner, Kaisa Koskinen, Christina Kumpitsch, Marcus Blohs, Lisa Wink, Daniela Brunner, Theodora Goessler, Daniela Billi, Christine Moissl-Eichinger
Software Mentions: 5
Published: over 5 years ago

10.1038/s41366-020-0639-y

Less sedentary time is associated with a more favourable glucose-insulin axis in obese pregnant women—a secondary analysis of the DALI study
Cited by: 12
Author(s): Anna M. Dieberger, Gernot Desoyé, Erwin Stolz, David J. Hill, Rosa Corcoy, David Simmons, Jürgen Harreiter, Alexandra Kautzky‐Willer, Fidelma Dunne, Roland Devlieger, Ewa Wender-Ożegowska, Agnieszka Zawiejska, Annunziata Lapolla, Maria Grazia Dalfrà, Alessandra Bertolotto, Sander Galjaard, Juan M. Adelantado, Dorte Møller Jensen, Lise Lotte Torvin Andersen, Mette Tanvig, Peter Damm, Elisabeth Reinhardt Mathiesen, Frank J. Snoek, Judith G. M. Jelsma, Mireille N.M. van Poppel
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0144060

With a Little Help from My Friends: Group Orientation by Larvae of a Coral Reef Fish
Cited by: 31
Author(s): Jean Olivier Irisson, Claire B. Paris, Leis J.M, Michelle N. Yerman
Software Mentions: 5
Published: over 10 years ago

10.2196/28892

Mental Health and Behavior of College Students During the COVID-19 Pandemic: Longitudinal Mobile Smartphone and Ecological Momentary Assessment Study, Part II
Cited by: 25
Author(s): Dante L Mack, Alex W DaSilva, Courtney Rogers, Elin Hedlund, Eilis I Murphy, Vlado Vojdanovski, Jane Plomp, Weichen Wang, Subigya Nepal, Paul E. Holtzheimer, Dylan D. Wagner, Nicholas C. Jacobson, Meghan L. Meyer, Andrew T. Campbell, Jeremy F. Huckins
Software Mentions: 5
Published: about 5 years ago

10.1111/1755-0998.13008

Metabarcoding a diverse arthropod mock community
Cited by: 97
Author(s): Thomas Braukmann, Natalia V. Ivanova, Sean W. J. Prosser, Vasco Elbrecht, Dirk Steinke, Sujeevan Ratnasingham, Jeremy R. de Waard, Jayme E Sones, Evgeny Zakharov, Paul D. N. Hebert
Software Mentions: 5
Published: about 7 years ago

10.1111/1755-0998.13013

Evaluating next‐generation sequencing (NGS) methods for routine monitoring of wild bees: Metabarcoding, mitogenomics or NGS barcoding
Cited by: 18
Author(s): Morgan Gueuning, Dominik Ganser, Simon Blaser, Matthias Albrecht, Eva Knop, Christophe Praz, Juerg E. Frey
Software Mentions: 5
Published: about 7 years ago

10.1038/s41598-020-69672-x

A footprint of plant eco-geographic adaptation on the composition of the barley rhizosphere bacterial microbiota
Cited by: 39
Author(s): Rodrigo Alegria Terrazas, Katharin Balbirnie-Cumming, Jenny Morris, Pete E. Hedley, Joanne Russell, Eric Paterson, Elizabeth M. Baggs, Eyal Fridman, Davide Bulgarelli
Software Mentions: 5
Published: almost 6 years ago

10.1186/s13075-015-0544-2

Transcriptome analysis of ageing in uninjured human Achilles tendon
Cited by: 61
Author(s): Mandy J. Peffers, Yongxiang Fang, Kathleen Cheung, Tim Koh Jia Wei, Peter Clegg, Helen L. Birch
Software Mentions: 5
Published: over 11 years ago

10.1186/s12859-020-03902-x

recoup: flexible and versatile signal visualization from next generation sequencing
Cited by: 5
Author(s): Panagiotis Moulos
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-021-90489-9

Auxiliary rapid identification of pathogenic and antagonistic microorganisms associated with Coptis chinensis root rot by high-throughput sequencing
Cited by: 7
Author(s): Hailang Liao, Ling Huang, Na Li, Wenjia Ke, Yiqing Xiang, Yuntong Ma
Software Mentions: 5
Published: about 5 years ago

10.3389/fgene.2018.00670

The Importance of Biologic Knowledge and Gene Expression Context for Genomic Data Interpretation
Cited by: 5
Author(s): Michael T. Zimmermann
Software Mentions: 5
Published: over 7 years ago

10.1038/s41598-019-44042-4

Refining the Genomic Region Containing a Major Locus Controlling Fruit Maturity in Peach
Cited by: 12
Author(s): Hanny Elsadr, Sherif M. Sherif, Travis Banks, Daryl J. Somers, Jayasankar Subramanian
Software Mentions: 5
Published: about 7 years ago

10.7554/eLife.56029

Recent shifts in the genomic ancestry of Mexican Americans may alter the genetic architecture of biomedical traits
Cited by: 14
Author(s): Melissa L. Spear, Alex Diaz-Papkovich, Elad Ziv, Joseph Yracheta, Simon Gravel, Dara G. Torgerson, Ryan D. Hernández
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0217839

The allometry of proboscis length in Melittidae (Hymenoptera: Apoidae) and an estimate of their foraging distance using museum collections
Cited by: 5
Author(s): Annalie Melin, Harald W. Krenn, Raurie C.K. Bowie, Colin M. Beale, John C. Manning, Jonathan F. Colville
Software Mentions: 5
Published: about 7 years ago

10.3389/fgene.2020.615680

Development of a Prognostic Signature Based on Single-Cell RNA Sequencing Data of Immune Cells in Intrahepatic Cholangiocarcinoma
Cited by: 5
Author(s): Miao Su, Kuangyuan Qiao, Xing Xie, Xinying Zhu, Fu-Lai Gao, Changjuan Li, Dongqiang Zhao
Software Mentions: 5
Published: over 5 years ago

10.1007/s13280-020-01360-6

Living with floating vegetation invasions
Cited by: 19
Author(s): Fritz Kleinschroth, R. Scott Winton, Elisa Calamita, Fabian Niggemann, Martina Botter, Bernhard Wehrli, Jaboury Ghazoul
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0246297

Rhabdomyolysis related to acute recreational drug toxicity—A Euro-DEN study
Cited by: 9
Author(s): W. James Waldman, Piotr Maciej Kabata, Alison Dines, David M. Wood, Chris Yates, Fridtjof Heyerdahl, Knut Erik Hovda, Isabelle Giraudon, Jacek Sein Anand
Software Mentions: 5
Published: over 5 years ago

10.1186/s12872-020-01537-7

The minimal informative monitoring interval of N-terminal pro-B-type natriuretic peptide in patients with stable heart failure
Cited by: 4
Author(s): Zhehao Dai, Taku Asano, Osamu Takahashi, Nobuyuki Komiyama, Sachiko Ohde
Software Mentions: 5
Published: about 6 years ago

10.1186/s12885-020-06740-5

In silico analysis of the immune microenvironment in bladder cancer
Cited by: 16
Author(s): Ye Zhang, Dehua Ou, Dong-wu Zhuang, Zefeng Zheng, Mingen Lin
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pntd.0009504

Developmental changes and metabolic reprogramming during establishment of infection and progression of Trypanosoma brucei brucei through its insect host
Cited by: 16
Author(s): Arunasalam Naguleswaran, Paula Fernandes, Shubha Bevkal, Ruth Rehmann, Pamela Nicholson, Isabel Roditi
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0205921

Seasonal dynamics of spatial distributions and overlap between Northeast Arctic cod (Gadus morhua) and capelin (Mallotus villosus) in the Barents Sea
Cited by: 29
Author(s): Johanna Fall, Lorenzo Ciannelli, Georg Skaret, Edda Johannesen
Software Mentions: 5
Published: over 7 years ago

10.3389/fgene.2019.00931

Novel Model for Comprehensive Assessment of Robust Prognostic Gene Signature in Ovarian Cancer Across Different Independent Datasets
Cited by: 2
Author(s): Zhitong Bing, Yu Yao, Jie Xiong, Jinhui Tian, Xiangqian Guo, Xiuxia Li, Jingyun Zhang, Xiue Shi, Yanying Zhang, Kehu Yang
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pntd.0009397

Global patterns of aegyptism without arbovirus
Cited by: 10
Author(s): Mark F. Olson, José G. Juárez, Moritz U. G. Kraemer, Jane P. Messina, Gabriel L. Hamer
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0092725

ss3sim: An R Package for Fisheries Stock Assessment Simulation with Stock Synthesis
Cited by: 19
Author(s): Sean C. Anderson, Cole C. Monnahan, Kelli F. Johnson, Kotaro Ono, Juan L. Valero
Software Mentions: 5
Published: about 12 years ago

10.1038/s41598-021-90641-5

Bioelectrical impedance analysis versus quantitative computer tomography and anthropometry for the assessment of body composition parameters in China
Cited by: 6
Author(s): Qian Qin, Yang Yang, Jingfeng Chen, Yaojun Jiang, Ang Li, Meng Huang, Yihan Dong, Shoujun Wang, Shuzhe Ding
Software Mentions: 5
Published: about 5 years ago

10.3389/fgene.2020.591667

Effects of RNA Binding Proteins on the Prognosis and Malignant Progression in Prostate Cancer
Cited by: 13
Author(s): Xiaoliang Hua, Shengdong Ge, Juan Chen, Li Zhang, Sheng Tai, Chaozhao Liang
Software Mentions: 5
Published: over 5 years ago

10.3389/fgene.2021.706854

Crosslink: An R Package for Network Visualization of Grouped Nodes
Cited by: 1
Author(s): Di Liu, Zhijie Bai, Bing Liu, Zongcheng Li
Software Mentions: 5
Published: almost 5 years ago

10.1186/s12885-021-08115-w

Identification of PIK3CA multigene mutation patterns associated with superior prognosis in stomach cancer
Cited by: 5
Author(s): Yu Yu, Zhouqing Xie, Mingxin Zhao, Xiaohua Lian
Software Mentions: 5
Published: about 5 years ago

10.1186/1471-2105-12-104

PhyloSim - Monte Carlo simulation of sequence evolution in the R statistical computing environment
Cited by: 50
Author(s): Botond Sipos, Tim Massingham, Gregory E. Jordan, Nick Goldman
Software Mentions: 5
Published: about 15 years ago

10.1371/journal.pone.0182869

Active microorganisms thrive among extremely diverse communities in cloud water
Cited by: 94
Author(s): Pierre Amato, Muriel Joly, Ludovic Besaury, Anne Oudart, Najwa Taïb, Anne Moné, Laurent Deguillaume, Anne-Marie Delort, Didier Debroas
Software Mentions: 5
Published: almost 9 years ago

10.1371/journal.pone.0121760

medplot: A Web Application for Dynamic Summary and Analysis of Longitudinal Medical Data Based on R
Cited by: 5
Author(s): Črt Ahlin, Daša Stupica, Franc Strle, Lara Lusa
Software Mentions: 5
Published: about 11 years ago

10.3389/fgene.2021.634116

A Novel Six-mRNA Signature Predicts Survival of Patients With Glioblastoma Multiforme
Cited by: 8
Author(s): Zhentao Liu, Hao Zhang, Haitao Hu, Zengyu Cai, Chengyin Lu, Qiang Liang, Jun Qian, Chunhui Wang, Lei Jiang
Software Mentions: 5
Published: over 5 years ago

10.1186/s10020-019-0114-1

An immunoevasive strategy through clinically-relevant pan-cancer genomic and transcriptomic alterations of JAK-STAT signaling components
Cited by: 14
Author(s): Wai Hoong Chang, Alvina G. Lai
Software Mentions: 5
Published: over 6 years ago

10.1186/s10020-021-00345-9

Association of CASC18/miR-20a-3p/TGFB2 ceRNA axis with occult lymph node metastasis in tongue squamous cell carcinoma
Cited by: 5
Author(s): Bo Zhou, Yue Zhou, Ying Liu, Hailin Zhang, Huangxing Mao, Mingjing Peng, Anji Xu, Zan Li, Hui Wang, Haolei Tan, Huayi Ren, Xiao Yan Zhou, Ying Long
Software Mentions: 5
Published: almost 5 years ago

10.7717/peerj.8425

Effects of personality and rearing-history on the welfare of captive Asiatic lions (Panthera leo persica)
Cited by: 13
Author(s): Sitendu Goswami, Praveen C Tyagi, P. K. Malik, Shwetank J Pandit, Riyazahmed F Kadivar, Malcolm Fitzpatrick, Samrat Mondol
Software Mentions: 5
Published: over 6 years ago

10.1186/s10020-020-00253-4

Genomic imbalances in the placenta are associated with poor fetal growth
Cited by: 13
Author(s): Giulia Gobbo, Yue Yin, Sanaa Choufani, Emma Butcher, John Wei, Evica Rajcan‐Separovic, Hayley Bos, Peter von Dadelszen, Rosanna Weksberg, Wendy P. Robinson, Ryan K. C. Yuen
Software Mentions: 5
Published: over 5 years ago

10.7554/eLife.47605

Toxoplasma gondii infection drives conversion of NK cells into ILC1-like cells
Cited by: 79
Author(s): Eugene Park, Sanket Patel, Qiuling Wang, Prabhakar S. Andhey, Konstantin Zaitsev, Sophia Porter, Maxwell Hershey, Michael D. Bern, Béatrice Plougastel-Douglas, Patrick L. Collins, Marco Colonna, Kenneth M. Murphy, Eugene M. Oltz, Maxim N. Artyomov, L. David Sibley, Wayne M. Yokoyama
Software Mentions: 5
Published: almost 7 years ago

10.1016/j.molmet.2017.02.007

Heterogeneity of hypothalamic pro-opiomelanocortin-expressing neurons revealed by single-cell RNA sequencing
Cited by: 125
Author(s): Brian Y.H. Lam, Irène Cimino, Joseph Polex-Wolf, Sara Kohnke, Debra Rimmington, Valentine P. Iyemere, Nicholas Heeley, Chiara Cossetti, Reiner Schulte, Luís R. Saraiva, Darren W. Logan, Clémence Blouet, Stephen O’Rahilly, Anthony P. Coll, Giles S.H. Yeo
Software Mentions: 5
Published: about 9 years ago

Projects: cran: ggplot2

Enhanced Analysis

Science Score: 100/100

Bonuses:

Papers Mentioning ggplot2 11,441