Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: cran: pvclust

https://packages.ecosyste.ms/registries/cran.r-project.org/packages/pvclust

Hierarchical Clustering with P-Values via Multiscale Bootstrap Resampling
11 versions
Latest release: about 5 years ago
12 dependent packages
3,406 downloads last month

Papers Mentioning pvclust 442

10.1128/mSphere.00031-19
Unsupervised Learning Approach for Comparing Multiple Transposon Insertion Sequencing Studies
Cited by: 12
Author(s): Troy P. Hubbard, Jonathan D. D’Gama, Gabriel Billings, Brigid M. Davis, Matthew K. Waldor
Software Mentions: 1
Published: over 5 years ago
10.3389/fmicb.2020.542372
Seasonal and Geographical Transitions in Eukaryotic Phytoplankton Community Structure in the Atlantic and Pacific Oceans
Cited by: 20
Author(s): Chang Jae Choi, Valeria Jiménez, David M. Needham, Camille Poirier, Charles Bachy, Harriet Alexander, Susanne Wilken, Francisco P. Chávez, Sebastian Sudek, Stephen J. Giovannoni, Alexandra Z. Worden
Software Mentions: 1
Published: about 4 years ago
10.1186/s12866-015-0593-3
Characterization of the murine macrophage response to infection with virulent and avirulent Burkholderia species
Cited by: 17
Author(s): Chih-Yuan Chiang, Ricky L. Ulrich, Melanie Ulrich, Brett Eaton, Jenifer F. Ojeda, Douglas Lane, Krishna P. Kota, Tara Kenny, Jason T. Ladner, Samuel P. Dickson, Kathleen A. Kuehl, Rahul Raychaudhuri, Miao Sun, Sina Bavari, Mark J. Wolcott, David G. Covell, Rekha G. Panchal
Software Mentions: 1
Published: about 9 years ago
10.1371/journal.pone.0054403
Coevolution Trumps Pleiotropy: Carbon Assimilation Traits Are Independent of Metabolic Network Structure in Budding Yeast
Cited by: 7
Author(s): Dana A. Opulente, Christopher Morales, Lucas B. Carey, Joshua S. Rest
Software Mentions: 1
Published: almost 12 years ago
10.1371/journal.pone.0017107
A Compendium of Canine Normal Tissue Gene Expression
Cited by: 35
Author(s): Josie P. Briggs, Melissa Paoloni, Qingrong Chen, Xinyu Wen, Javed Khan, Chand Khanna
Software Mentions: 1
Published: over 13 years ago
10.1155/2017/2136287
Archaeal Diversity and CO<sub>2</sub>Fixers in Carbonate-/Siliciclastic-Rock Groundwater Ecosystems
Cited by: 26
Author(s): Cassandre Sara Lazar, W Stoll, Robert Lehmann, Martina Herrmann, Valérie F. Schwab, Denise M. Akob, Ali Nawaz, Tesfaye Wubet, François Buscot, Kai-Uwe Totsche, Kirsten Küsel
Software Mentions: 1
Published: almost 8 years ago
10.3389/fpls.2015.00457
Flower abscission in Vitis vinifera L. triggered by gibberellic acid and shade discloses differences in the underlying metabolic pathways
Cited by: 24
Author(s): Sara Domingos, Pietro Scafidi, Vânia Cardoso, António E. Leitão, Rosario Di Lorenzo, Cristina M. Oliveira, Luís F. Goulão
Software Mentions: 1
Published: over 9 years ago
10.1111/pbi.12554
Transcriptome analysis reveals a comprehensive insect resistance response mechanism in cotton to infestation by the phloem feeding insect <i>Bemisia tabaci</i> (whitefly)
Cited by: 95
Author(s): Jianying Li, Li Zhu, J. Joe Hull, Shi-Dong Liang, Henry Daniell, Shuangxia Jin, Xianlong Zhang
Software Mentions: 1
Published: over 8 years ago
10.3389/fpls.2012.00271
Toward a Comprehensive Phylogenetic Reconstruction of the Evolutionary History of Mitogen-Activated Protein Kinases in the Plant Kingdom
Cited by: 33
Author(s): Philipp Janitza, Kristian K. Ullrich, Marcel Quint
Software Mentions: 1
Published: almost 13 years ago
10.1371/journal.pone.0046425
In Vivo Tumorigenesis Was Observed after Injection of In Vitro Expanded Neural Crest Stem Cells Isolated from Adult Bone Marrow
Cited by: 27
Author(s): Sabine Wislet-Gendebien, Christophe Poulet, Virginie Neirinckx, Benoît Hennuy, James T. Swingland, Emerence Laudet, Lukas Sommer, Olga Shakova, Vincent Bours, Bernard Rogister
Software Mentions: 1
Published: about 12 years ago
10.3390/ijms22073433
Tracing dsDNA Virus–Host Coevolution through Correlation of Their G-Quadruplex-Forming Sequences
Cited by: 10
Author(s): Natália Bohálová, Alessio Cantara, Martin Bartas, Patrik Kaura, Jiří Šťastný, Petr Pečínka, Miroslav Fojta, Václav Brázda
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pone.0032941
Differential Analysis of Ovarian and Endometrial Cancers Identifies a Methylator Phenotype
Cited by: 38
Author(s): Diana L. Kolbe, Julie A. DeLoia, Patricia Porter-Gill, Mary Strange, Hanna M. Petrykowska, Alfred Guirguis, Thomas C. Krivak, Lawrence C. Brody, Laura Elnitski
Software Mentions: 1
Published: over 12 years ago
10.7717/peerj.8962
Origin identification of migratory pests (European Starling) using geochemical fingerprinting
Cited by: 3
Author(s): Upama Khatri-Chhetri, John Woods, Ian R. Walker, P. Jefferson Curtis
Software Mentions: 1
Published: over 4 years ago
10.7717/peerj.2604
Taxonomy of<i>Platypterygius campylodon</i>and the diversity of the last ichthyosaurs
Cited by: 28
Author(s): Valentin Fischer
Software Mentions: 1
Published: about 8 years ago
10.1371/journal.pone.0051754
Functional DNA Repair Signature of Cancer Cell Lines Exposed to a Set of Cytotoxic Anticancer Drugs Using a Multiplexed Enzymatic Repair Assay on Biochip
Cited by: 13
Author(s): Anne Forestier, Fanny Sarrazy, Sylvain Caillat, Yves Vandenbrouck, Sylvie Sauvaigo
Software Mentions: 1
Published: almost 12 years ago
10.3389/fpls.2018.00354
The Variable Effect of Polyploidization on the Phenotype in Escallonia
Cited by: 21
Author(s): Hanne Denaeghel, Katrijn Van Laere, Leen Leus, Peter Lootens, Johan Van Huylenbroeck, Marie-Christine Van Labeke
Software Mentions: 1
Published: over 6 years ago
10.3389/fvets.2020.620722
Asian Admixture in European Echinococcus multilocularis Populations: New Data From Poland Comparing EmsB Microsatellite Analyses and Mitochondrial Sequencing
Cited by: 7
Author(s): Gérald Umhang, Jenny Knapp, Marion Wassermann, Vanessa Bastid, Carine Peytavin de Garam, Franck Boué, Tomasz Cencek, Thomas Römig, Jacek Karamon
Software Mentions: 1
Published: almost 4 years ago
10.1534/g3.115.018473
Improved Detection and Characterization of Copy Number Variations Among Diverse Pig Breeds by Array CGH
Cited by: 17
Author(s): Jiying Wang, Jicai Jiang, Haifei Wang, Hao Kang, Qin Zhang, Jianfeng Liu
Software Mentions: 1
Published: over 9 years ago
10.3390/pathogens9040282
Genotyping Echinococcus multilocularis in Human Alveolar Echinococcosis Patients: An EmsB Microsatellite Analysis
Cited by: 16
Author(s): Jenny Knapp, Bruno Gottstein, Stéphane Bretagne, Jean-Mathieu Bart, Gérald Umhang, Carine Richou, Solange Bresson‐Hadni, Laurence Millon
Software Mentions: 1
Published: over 4 years ago
10.1038/s41598-019-45703-0
Genome-wide association study identifies loci for arterial stiffness index in 127,121 UK Biobank participants
Cited by: 25
Author(s): Kenneth Fung, Julia Ramírez, Helen R. Warren, Nay Aung, Aaron M. Lee, Evan Tzanis, Steffen E. Petersen, Patricia B. Munroe
Software Mentions: 1
Published: over 5 years ago
10.1534/g3.118.200631
Genomic Structural Variations Within Five Continental Populations of <i>Drosophila melanogaster</i>
Cited by: 24
Author(s): Evan Long, Carrie R. Evans, John M. Chaston, Joshua A. Udall
Software Mentions: 1
Published: about 6 years ago
10.1186/1756-3305-7-90
Neotrombicula inopinata (Acari: Trombiculidae) – a possible causative agent of trombiculiasis in Europe
Cited by: 30
Author(s): Alexandr A. Stekolnikov, Paula Santibáñez, Ana M. Palomar, José A. Oteo
Software Mentions: 1
Published: almost 11 years ago
10.3390/genes9060306
From Chromosomes to Genome: Insights into the Evolutionary Relationships and Biogeography of Old World Knifefishes (Notopteridae; Osteoglossiformes)
Cited by: 16
Author(s): Felipe Faix Barby, Petr Ráb, Sébastien Lavoué, Tariq Ezaz, Luiz Antônio Carlos Bertollo, Andrzej Kilian, Sandra Regina Maruyama, Ezequiel Aguiar de Oliveira, Roberto Ferreira Artoni, Mateus Henrique Santos, Oladele Ilesanmi Jegede, Terumi Hatanaka, Alongklod Tanomtong, Thomas Liehr, Marcelo de Bello Cioffi
Software Mentions: 1
Published: over 6 years ago
10.3390/genes9100474
Whole-Genome Sequencing of 84 Japanese Eels Reveals Evidence against Panmixia and Support for Sympatric Speciation
Cited by: 12
Author(s): Yoji Igarashi, Hong Zhang, Engkong Tan, Masashi Sekino, Kazutoshi Yoshitake, Shigeharu Kinoshita, Susumu Mitsuyama, Tatsuki Yoshinaga, Seinen Chow, Hiroaki Kurogi, Akira Shinoda, Yu Han, Ryoshiro Wakiya, Noritaka Mochioka, Toshihiro Yamamoto, Hiroshi Kuwada, Yoshitsugu Kaji, Yutaka Suzuki, Takashi Gojobori, Takanori Kobayashi, Kenji Saitoh, Shugo Watabe, Shuichi Asakawa
Software Mentions: 1
Published: about 6 years ago
10.1002/1878-0261.12842
Discovery of novel DNA methylation biomarkers for non‐invasive sporadic breast cancer detection in the Latino population
Cited by: 8
Author(s): Mónica Cappetta, L. Calahorra Fernández, Lucía Brignoni, Nora Amelia Artagaveytia-Cóppola, Carolina Bonilla, Miguel López, Manel Esteller, Bernardo Bertoni, María Berdasco
Software Mentions: 1
Published: about 4 years ago
10.1186/s40246-017-0131-5
Overexpressed HSF1 cancer signature genes cluster in human chromosome 8q
Cited by: 16
Author(s): Christopher Q. Zhang, Heinric Williams, Thomas Prince, Eric S. Ho
Software Mentions: 1
Published: almost 7 years ago
10.3390/genes12030436
Mitochondrial DNA Profiles of Individuals from a 12th Century Necropolis in Feldioara (Transylvania)
Cited by: 2
Author(s): Alexandra Gînguță, Ioana Rusu, Cristina Mircea, Adrian Ioniță, Horia Leonard Banciu, Beatrice Kelemen
Software Mentions: 1
Published: over 3 years ago
10.1038/s41598-019-46485-1
A meta-barcoding analysis of soil mycobiota of the upper Andean Colombian agro-environment
Cited by: 11
Author(s): Angela Yaneth Landínez-Torres, Simona Panelli, Anna Maria Picco, Francesco Comandatore, Solveig Tosi, Enrica Capelli
Software Mentions: 1
Published: over 5 years ago
10.1007/s00438-018-1422-9
Genome-wide DNA methylation analysis in jejunum of Sus scrofa with intrauterine growth restriction
Cited by: 15
Author(s): Yue Hu, Liang Hu, Desheng Gong, Hanlin Lu, Yue Xuan, Ru Wang, De Wu, Shuai Chen, Keying Zhang, Fei Gao
Software Mentions: 1
Published: almost 7 years ago
10.1186/s12263-017-0558-2
Transcriptomic responses of the liver and adipose tissues to altered carbohydrate-fat ratio in diet: an isoenergetic study in young rats
Cited by: 9
Author(s): Mitsuru Tanaka, Akihito Yasuoka, Manae Shimizu, Yoshikazu Saito, Kei Kumakura, Tomiko Asakura, Tadashi Nagai
Software Mentions: 1
Published: over 7 years ago
10.3390/ani11020360
Effects of Essential Oils-Based Supplement and Salmonella Infection on Gene Expression, Blood Parameters, Cecal Microbiome, and Egg Production in Laying Hens
Cited by: 13
Author(s): Georgi Yu. Laptev, Elena Yildirim, Larisa Ilina, В. А. Филиппова, Ivan I. Kochish, Elena P. Gorfunkel, Andrei V. Dubrovin, Evgeni A. Brazhnik, Valeriy G. Narushin, Natalia I. Novikova, О. Б. Новикова, Timur P. Dunyashev, Vladimir I. Smolensky, Peter F. Surai, Darren K. Griffin, Michael N Romanov
Software Mentions: 1
Published: almost 4 years ago
10.21307/jofnem-2019-041
New data on known species of <i>Hirschmanniella</i> and <i>Pratylenchus</i> (Rhabditida, Pratylenchidae) from Iran and South Africa
Cited by: 4
Author(s): Ebrahim Shokoohi, Joaquín Abolafia, P. W. Mashela, Nafiseh Divsalar
Software Mentions: 1
Published: almost 6 years ago
10.1007/s10265-015-0703-1
Comparative analysis of the RTFL peptide family on the control of plant organogenesis
Cited by: 15
Author(s): Peng Guo, Asami Yoshimura, Naoko Ishikawa, Takahiro Yamaguchi, You-Hao Guo, Hirokazu Tsukaya
Software Mentions: 1
Published: over 9 years ago
10.1007/s13402-015-0227-7
Chromosome 17 copy number changes in male breast cancer
Cited by: 10
Author(s): Miangela M. Laclé, Cathy B. Moelans, Robert Kornegoor, Carmen van der Pol, Arjen J. Witkamp, Elsken van der Wall, Josef Rueschoff, Horst Buerger, Paul J. van Diest
Software Mentions: 1
Published: over 9 years ago
10.1186/s13059-017-1371-3
DotAligner: identification and clustering of RNA structure motifs
Cited by: 14
Author(s): Martin A. Smith, Stefan E. Seemann, Xiu Cheng Quek, John S. Mattick
Software Mentions: 1
Published: almost 7 years ago
10.1371/journal.pone.0204669
A copy number variant scan in the autochthonous Valdostana Red Pied cattle breed and comparison with specialized dairy populations
Cited by: 11
Author(s): M.G. Strillacci, Erica Gorla, M.C. Cozzi, Mario Vevey, Francesca Genova, Kathy Scienski, M. Longeri, A. Bagnato
Software Mentions: 1
Published: about 6 years ago
10.1186/s13059-019-1630-6
Rapid turnover of life-cycle-related genes in the brown algae
Cited by: 30
Author(s): Agnieszka P. Lipinska, Martha L. Serrano‐Serrano, Alexandre Cormier, Akira F. Peters, Kazuhiro Kogame, J. Mark Cock, Susana M. Coelho
Software Mentions: 1
Published: almost 6 years ago
10.1038/s41396-020-00843-4
Time-series transcriptomics from cold, oxic subseafloor crustal fluids reveals a motile, mixotrophic microbial community
Cited by: 19
Author(s): Lauren M. Seyler, Elizabeth Trembath‐Reichert, Benjamin J. Tully, Julie A. Huber
Software Mentions: 1
Published: almost 4 years ago
10.1186/2049-2618-1-18
Reductions in intestinal Clostridiales precede the development of nosocomial Clostridium difficile infection
Cited by: 106
Author(s): Caroline Vincent, David A. Stephens, Vivian G. Loo, Thaddeus J. Edens, Marcel A. Behr, Ken Dewar, Amee R. Manges
Software Mentions: 1
Published: over 11 years ago
10.1264/jsme2.ME17182
Influence of the Chemical Form of Antimony on Soil Microbial Community Structure and Arsenite Oxidation Activity
Cited by: 15
Author(s): Takafumi Kataoka, Satoshi Mitsunobu, Natsuko Hamamura
Software Mentions: 1
Published: almost 7 years ago
10.1264/jsme2.ME18023
G3 PhyloChip Analysis Confirms the Promise of Plant-Based Culture Media for Unlocking the Composition and Diversity of the Maize Root Microbiome and for Recovering Unculturable Candidate Divisions/Phyla
Cited by: 17
Author(s): Mohamed S. Sarhan, Sascha Patz, M. Hamza, Hanan H. Youssef, Elhussein F. Mourad, M. B. E. Fayez, Brian R. Murphy, Silke Ruppel, N. A. Hegazi
Software Mentions: 1
Published: almost 7 years ago