cran: pvclust | Projects | Ecosyste.ms: Papers

10.1186/s13059-021-02482-0

The influence of the gut microbiome on BCG-induced trained immunity
Cited by: 15
Author(s): Martin Stražar, Vera P. Mourits, Valerie A C M Koeken, L. Charlotte J. de Bree, Simone J.C.F.M. Moorlag, Leo A. B. Joosten, Reinout van Crevel, Hera Vlamakis, Mihai G. Netea, Ramnik J. Xavier
Software Mentions: 3
Published: about 3 years ago

10.3390/jcdd6010007

Temporal Change of Extracellular Matrix during Vein Arterialization Remodeling in Rats
Cited by: 1
Author(s): Ayumi Aurea Miyakawa, Vinícius Bassaneze, Nubia Esteban Duarte, Thais Girão-Silva, Monica Nunes Bizerra, Julliana Carvalho de Campos, José Eduardo Krieger
Software Mentions: 3
Published: almost 6 years ago

10.1111/jcmm.13370

Gα12 regulates osteoclastogenesis by modulating NFATc1 expression
Cited by: 10
Author(s): Min Kyoung Song, Cheol‐Kyu Park, Yong Deok Lee, Haemin Kim, Min Kyung Kim, Jun-Oh Kwon, Ja Hyun Koo, Min Sung Joo, Sang Geon Kim, Hong-Hee Kim
Software Mentions: 3
Published: about 7 years ago

10.1186/s13336-014-0015-z

Copy number variation analysis based on AluScan sequences
Cited by: 10
Author(s): Jian Feng Yang, Xueliang Ding, Lei Chen, Wai Kin Mat, Michelle Zhi Xu, Jin Fei Chen, Jian-Min Wang, Lin Xu, Wai Sang Poon, Ava Kwong, Gilberto Ka Kit Leung, Tze-Ching Tan, Chi Hung Yu, Yue Bin Ke, Xin Xu, Xiaoyan Ke, Rong Ma, Juliana C.N. Chan, Wei Qing Wan, Li Wei Zhang, Yogesh Kumar, Suk Ying Tsang, Shao Li, Hong Yang Wang, Hong Xue
Software Mentions: 3
Published: almost 10 years ago

10.1371/journal.ppat.1000781

Genome-Wide mRNA Expression Correlates of Viral Control in CD4+ T-Cells from HIV-1-Infected Individuals
Cited by: 166
Author(s): Margalida Rotger, Kristen K. Dang, Jacques Fellay, Erin L. Heinzen, Sheng Feng, Patrick Descombes, Kevin V. Shianna, Dongliang Ge, Huldrych F Günthard, David B. Goldstein, Amalio Telenti, Aids Immunology
Software Mentions: 3
Published: over 14 years ago

10.3390/proteomes7020019

A Preliminary Metagenome Analysis Based on a Combination of Protein Domains
Cited by: 0
Author(s): Yoji Igarashi, Daisuke Mori, Susumu Mitsuyama, Kazutoshi Yoshitake, Hiroaki Ono, Tsuyoshi Watanabe, Yukiko Taniuchi, Tomoko Sakami, Akira Kuwata, Takanori Kobayashi, Yuji Ishino, Shugo Watabe, Takashi Gojobori, Shuichi Asakawa
Software Mentions: 3
Published: over 5 years ago

10.1038/srep12062

Differential and coherent processing patterns from small RNAs
Cited by: 21
Author(s): Sachin Pundhir, Jan Gorodkin
Software Mentions: 3
Published: over 9 years ago

10.1038/s41598-017-04793-4

Identification of the ESKAPE pathogens by mass spectrometric analysis of microbial membrane glycolipids
Cited by: 56
Author(s): Lisa M. Leung, William E. Fondrie, Yohei Doi, J. Kristie Johnson, Dudley K. Strickland, Robert K. Ernst, David R. Goodlett
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-017-08563-0

Patterns of transcriptional parallelism and variation in the developing olfactory system of Drosophila species
Cited by: 7
Author(s): Jia-Wern Pan, Qingyun Li, Scott Barish, Sumie Okuwa, Shuaiguo Zhao, Charles Soeder, Matthew Kanke, Corbin D. Jones, Pelin Volkan
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-017-09431-7

Biogeography shaped the metabolome of the genus Espeletia: a phytochemical perspective on an Andean adaptive radiation
Cited by: 25
Author(s): Guillermo F. Padilla-González, Mauricio Diazgranados, Fernando Batista Da Costa
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-017-18506-4

Detection of antimicrobial resistance genes associated with the International Space Station environmental surfaces
Cited by: 69
Author(s): Camilla Urbaniak, Aleksandra Checinska Sielaff, K. G. Frey, Jonathan Allen, Nitin Kumar Singh, Crystal Jaing, Kevin Wheeler, Kasthuri Venkateswaran
Software Mentions: 3
Published: almost 7 years ago

10.1038/s41598-018-25434-4

Identification and application of exogenous dsRNA confers plant protection against Sclerotinia sclerotiorum and Botrytis cinerea
Cited by: 135
Author(s): Austein McLoughlin, Nick Wytinck, P.L. Walker, Ian J. Girard, K. Y. Rashid, Teresa de Kievit, W. G. Dilantha Fernando, Steve Whyard, Mark F. Belmonte
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-019-38744-y

Sources and selection of snow-specific microbial communities in a Greenlandic sea ice snow cover
Cited by: 27
Author(s): Lorrie Maccario, Shelly D. Carpenter, Jody W. Deming, Timothy M. Vogel, Catherine Larose
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-019-43183-w

Goth migration induced changes in the matrilineal genetic structure of the central-east European population
Cited by: 15
Author(s): Ireneusz Stolarek, Luiza Handschuh, Anna Juras, Wioletta Nowaczewska, Hanna Kóčka-Krenz, Andrzej Michałowski, Janusz Piontek, Piotr Kozlowski, Marek Figlerowicz
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-019-49452-y

Defining Dysbiosis for a Cluster of Chronic Diseases
Cited by: 182
Author(s): Lamont Wilkins, Manoj Monga, Aaron W. Miller
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-019-51073-4

Global airborne microbial communities controlled by surrounding landscapes and wind conditions
Cited by: 50
Author(s): Romie Tignat-Perrier, Aurélien Dommergue, Alban Thollot, Christoph Keuschnig, Olivier Magand, Timothy M. Vogel, Catherine Larose
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-019-53973-x

Identification of Sero-Diagnostic Antigens for the Early Diagnosis of Johne’s Disease using MAP Protein Microarrays
Cited by: 6
Author(s): Lingling Li, John P. Bannantine, Joseph J. Campo, Arlo Randall, Yrjo T. Gröhn, Megan A. Schilling, Robab Katani, Jessica Radzio‐Basu, Laurel A. Easterling, Vivek Kapur
Software Mentions: 3
Published: almost 5 years ago

10.1038/s41598-020-60023-4

Ocean acidification affects microbial community and invertebrate settlement on biofilms
Cited by: 24
Author(s): Katie S. Nelson, Federico Baltar, Miles D. Lamare, Sergio E. Morales
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-62776-4

Apoptosis characterization in mononuclear blood leukocytes of HIV patients during dengue acute disease
Cited by: 2
Author(s): Amanda Torrentes-Carvalho, Juan Camilo Sánchez‐Arcila, Tamiris Azamor, Luciana Santos Barbosa, Eugênio D. Hottz, Mariana Gandini, Fernando A. Bozza, Rivaldo Venâncio da Cunha, Luciana Wernersbach Pinto, Paulo Vieira Damasco, Elzinandes Leal de Azeredo
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-64862-z

Antecedent presentation of neurological phenotypes in the Collaborative Cross reveals four classes with complex sex-dependencies
Cited by: 12
Author(s): Raena Eldridge, Daniel Osorio, Katia Amstalden, Caitlin E. Edwards, Colin R. Young, James J. Cai, Kranti Konganti, Andrew Hillhouse, David W. Threadgill, C. Jane Welsh, Candice Brinkmeyer-Langford
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-021-94112-9

Identification of Bacillus anthracis, Brucella spp., and Coxiella burnetii DNA signatures from bushmeat
Cited by: 5
Author(s): Robab Katani, Megan A. Schilling, Beatus Lyimo, Ernest Eblate, Andimile Martin, Triza Tonui, Isabella M. Cattadori, Stephen C. Francesconi, Anna B. Estes, Dennis Rentsch, Sreenidhi Srinivasan, Samson Lyimo, Lidia Munuo, Christian Keambou Tiambo, Francesca Stomeo, Paul Gwakisa, Fausta Mosha, Peter J. Hudson, Joram Buza, Vivek Kapur
Software Mentions: 3
Published: over 3 years ago

10.1038/ismej.2013.153

Reconstructing an ancestral genotype of two hexachlorocyclohexane-degrading Sphingobium species using metagenomic sequence data
Cited by: 44
Author(s): Naseer Sangwan, Helianthous Verma, Roshan Kumar, Vivek Negi, Simon Lax, Paramjit Khurana, Jitendra P. Khurana, Jack A. Gilbert, Rup Lal
Software Mentions: 3
Published: about 11 years ago

10.1038/s41396-019-0504-y

The functional repertoire contained within the native microbiota of the model nematode Caenorhabditis elegans
Cited by: 62
Author(s): Johannes Zimmermann, Nancy Obeng, Wentao Yang, Barbara Pees, Carola Petersen, Silvio Waschina, Kohar Annie B. Kissoyan, Jack Aidley, Marc P. Hoeppner, Boyke Bunk, Cathrin Spröer, Matthias Leippe, Katja Dierking, Christoph Kaleta, Hinrich Schulenburg
Software Mentions: 3
Published: about 5 years ago

10.1155/2020/8831331

Differential Expression and PAH Degradation: What Burkholderia vietnamiensis G4 Can Tell Us?
Cited by: 7
Author(s): Guilherme Pinto Cauduro, Ana Lusia Leal, Tiago Falcón Lopes, Marcela Marmitt, Victor Hugo Valiati
Software Mentions: 3
Published: about 4 years ago

10.7554/eLife.30496

The transcription factors Runx3 and ThPOK cross-regulate acquisition of cytotoxic function by human Th1 lymphocytes
Cited by: 53
Author(s): Yasmina Serroukh, Chunyan Gu-Trantien, Baharak Hooshiar Kashani, Matthieu Defrance, Thien‐Phong Vu Manh, Abdulkader Azouz, Aurélie Detavernier, Alice Hoyois, Jishnu Das, Martin Bizet, Émeline Pollet, Tressy Tabbuso, Emilie Calonne, Klaas P. J. M. van Gisbergen, Marc Dalod, François Fuks, Stanislas Goriely, Arnaud Marchant
Software Mentions: 3
Published: over 6 years ago

10.18632/oncotarget.6503

Towards understanding the breast cancer epigenome: a comparison of genome-wide DNA methylation and gene expression data
Cited by: 16
Author(s): Sandeep K. Singhal, Nawaid Usmani, Stefan Michiels, Otto Metzger‐Filho, Kamal S. Saini, Olga Kovalchuk, Matthew Parliament
Software Mentions: 3
Published: almost 9 years ago

10.1186/1471-2164-9-232

Genomic analysis of post-mating changes in the honey bee queen (Apis mellifera)
Cited by: 122
Author(s): Sarah D. Kocher, Freddie-Jeanne Richard, David R. Tarpy, Christina M. Grozinger
Software Mentions: 2
Published: over 16 years ago

10.1371/journal.pone.0033641

Assessing the Diversity and Specificity of Two Freshwater Viral Communities through Metagenomics
Cited by: 212
Author(s): Simon Roux, François Enault, Agnès Robin, Viviane Ravet, Sébastien Personnic, Sébastien Theil, Jonathan Colombet, Télesphore Sime-Ngando, Didier Debroas
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0037118

Experimental Incubations Elicit Profound Changes in Community Transcription in OMZ Bacterioplankton
Cited by: 63
Author(s): Frank J. Stewart, Tage Dalsgaard, Charles W. Young, Bo Thamdrup, Niels Peter Revsbech, Osvaldo Ulloa, Donald E. Canfield, Edward F. DeLong
Software Mentions: 2
Published: over 12 years ago

10.1016/j.dib.2020.105260

Metavirome datasets from two endemic Baikal sponges Baikalospongia bacillifera
Cited by: 9
Author(s): Tatyana V. Butina, И. В. Ханаев, Л. С. Кравцова, O. O. Maikova, Yu. S. Bukin
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0068672

Plant F-Box Protein Evolution Is Determined by Lineage-Specific Timing of Major Gene Family Expansion Waves
Cited by: 24
Author(s): Aura Navarro‐Quezada, Nadine Schumann, Marcel Quint
Software Mentions: 2
Published: over 11 years ago

10.1186/s40064-016-2235-0

Luminal B breast cancer subtype displays a dicotomic epigenetic pattern
Cited by: 11
Author(s): Naiara G. Bediaga, Elena Beristain, B. Calvo, María A. Viguri, Borja Gutierrez-Corres, Ricardo Rezola, Irune Ruiz-Díaz, I. Guerra, Marian M. de Pancorbo
Software Mentions: 2
Published: over 8 years ago

10.1007/s11356-018-1447-y

Fetal exposure markers of dioxins and dioxin-like PCBs
Cited by: 12
Author(s): Erik Lampa, Akifumi Eguchi, Emiko Todaka, Chisato Mori
Software Mentions: 2
Published: almost 7 years ago

10.1186/s13072-018-0234-9

DNA methylation profiling of acute chorioamnionitis-associated placentas and fetal membranes: insights into epigenetic variation in spontaneous preterm births
Cited by: 39
Author(s): Chaini Konwar, Emily Price, Li Qing Wang, Samantha L. Wilson, Jefferson Terry, Wendy P. Robinson
Software Mentions: 2
Published: about 6 years ago

10.1111/febs.13172

Feedforward regulation of mRNA stability by prolonged extracellular signal‐regulated kinase activity
Cited by: 11
Author(s): Takeshi Nagashima, Norihiko Inoue, Noriko Yumoto, Yuko Saeki, Shigeyuki Magi, Natalia Volinsky, Alexander Sorkin, Boris N. Kholodenko, Mariko Okada‐Hatakeyama
Software Mentions: 2
Published: almost 10 years ago

10.3389/fcell.2021.681839

Comparative Epigenomics Reveals Host Diversity of the Trichinella Epigenomes and Their Effects on Differential Parasitism
Cited by: 1
Author(s): Yue Feng, Xiaolei Liu, Yuqi Liu, Bin Tang, Xue Bai, Chen Li, Xuelin Wang, Yiqun Deng, Fei Gao, Mingyuan Liu
Software Mentions: 2
Published: over 3 years ago

10.3389/fimmu.2017.01210

Interpreting T-Cell Cross-reactivity through Structure: Implications for TCR-Based Cancer Immunotherapy
Cited by: 46
Author(s): Dinler Amaral Antunes, Maurício Rigo, Martiela Vaz de Freitas, Marcus Fabiano de Almeida Mendes, Marialva Sinigaglia, Gregory Lizée, Lydia E. Kavraki, Liisa K. Selin, Markus Cornberg, Gustavo Fioravanti Vieira
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pone.0110624

Functional Analysis of Hyaloperonospora arabidopsidis RXLR Effectors
Cited by: 14
Author(s): Michiel J. C. Pel, Paul C. A. Wintermans, Adriana Cabral, Bjorn J. M. Robroek, Michael Seidl, Jaqueline Bautor, Jane E. Parker, Guido Van den Ackerveken, C.M.J. Pieterse
Software Mentions: 2
Published: about 10 years ago

10.4056/sigs.5179110

Complete genome sequence of the Phaeobacter gallaeciensis type strain CIP 105210T (= DSM 26640T = BS107T)
Cited by: 17
Author(s): Oliver Frank, Silke Pradella, Manfred Rohde, Carmen Scheuner, Hans‐Peter Klenk, Markus Göker, Joern Petersen
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pgen.1007001

Appraising the relevance of DNA copy number loss and gain in prostate cancer using whole genome DNA sequence data
Cited by: 32
Author(s): Niedzica Camacho, Peter Van Loo, Sandra E. Edwards, Jonathan Kay, Lucy Matthews, Kerstin Haase, Jeremy Clark, Nening M. Dennis, Sarah Thomas, Bárbara Kremeyer, Jorge Zamora, Adam Butler, Gunes Gundem, Sue Merson, Hayley J. Luxton, Steve Hawkins, Mohammed Ghori, Luke Marsden, Adam Lambert, Katalin Karászi, Paul Gill, Charles E. Massie, Zsofia Kóte-Jarai, Keiran Raine, David R. Jones, William J. Howat, Steven Hazell, Naomi Livni, Cyril Fisher, Christopher Ogden, Pardeep Kumar, Alan Thompson, David Nicol, Erik Mayer, Tim Dudderidge, Yu Ye, Hongwei Zhang, Nimish Shah, Vincent Gnanapragasam, William B. Isaacs, Tapio Visakorpi, Freddie C. Hamdy, Daniel M. Berney, Clare Verrill, Anne Y. Warren, David C. Wedge, Andy G. Lynch, Christopher S. Foster, Yong Lu, G. Steven Bova, Hayley C. Whitaker, Ultan McDermott, David E. Neal, Rosalind Eeles, Christopher S. Cooper, Daniel Brewer
Software Mentions: 2
Published: about 7 years ago

10.3389/fmicb.2015.01494

Dynamics of Viral Abundance and Diversity in a Sphagnum-Dominated Peatland: Temporal Fluctuations Prevail Over Habitat
Cited by: 12
Author(s): Flore Ballaud, Alexis Dufresne, André-Jean Francez, Jonathan Colombet, Télesphore Sime-Ngando, Achim Quaiser
Software Mentions: 2
Published: almost 9 years ago

10.1186/s12864-017-3848-6

The biocontrol agent Pseudomonas chlororaphis PA23 primes Brassica napus defenses through distinct gene networks
Cited by: 35
Author(s): Kelly Duke, Michael G. Becker, Ian J. Girard, Jenna L. Millar, W. G. Dilantha Fernando, Mark F. Belmonte, Teresa R. de Kievit
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2019.01861

Whole-Genome Sequencing Redefines Shewanella Taxonomy
Cited by: 40
Author(s): Kaisa Thorell, Jan P. Meier‐Kolthoff, Åsa Sjöling, Alberto J. Martín‐Rodríguez
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pbio.3001157

The growth factor BMP11 is required for the development and evolution of a male exaggerated weapon and its associated fighting behavior in a water strider
Cited by: 11
Author(s): William Toubiana, David Armisén, Séverine Viala, Amélie Decaras, Abderrahman Khila
Software Mentions: 2
Published: over 3 years ago

10.3389/fmicb.2015.01569

Hanseniaspora uvarum from Winemaking Environments Show Spatial and Temporal Genetic Clustering
Cited by: 61
Author(s): Warren Albertin, Mathabatha Evodia Setati, Cécile Miot-Sertier, Talitha T. Mostert, Benoît Colonna-Ceccaldi, Joana Coulon, Patrick Girard, Virginie Moine, Myriam Pillet, Franck Salin, Marina Bely, Benoit Divol, Isabelle Masneuf‐Pomarède
Software Mentions: 2
Published: almost 9 years ago

10.1186/s12864-021-07808-7

Population differentiated copy number variation of Bos taurus, Bos indicus and their African hybrids
Cited by: 11
Author(s): Jung Eun Jang, Kwondo Kim, Young Ho Lee, Heebal Kim
Software Mentions: 2
Published: over 3 years ago

10.3389/fonc.2021.637482

Classifying Medulloblastoma Subgroups Based on Small, Clinically Achievable Gene Sets
Cited by: 6
Author(s): Sivan Gershanov, Shreyas Madiwale, Galina Feinberg-Gorenshtein, Igor Vainer, Tamar Nehushtan, Shalom Michowiz, Nitza Goldenberg-Cohen, Yehudit Birger, Helen Toledano, Mali Salmon‐Divon
Software Mentions: 2
Published: over 3 years ago

10.3390/plants10040785

The Diversity of Volatile Compounds in Australia’s Semi-Desert Genus Eremophila (Scrophulariaceae)
Cited by: 8
Author(s): Nicholas J. Sadgrove, Guillermo F. Padilla-González, Alison Green, Moses K. Langat, Eduard Mas‐Claret, Dane Lyddiard, Julian Klepp, Sarah V. A.-M. Legendre, Ben W. Greatrex, Graham P. Jones, Iskandar M. Ramli, Olga Leuner, Eloy Fernández Cusimamani
Software Mentions: 2
Published: over 3 years ago

10.3390/plants9111570

Prostanthera (Lamiaceae) as a ‘Cradle of Incense’: Chemophenetics of Rare Essential Oils from Both New and Forgotten Australian ‘Mint Bush’ Species
Cited by: 7
Author(s): Nicholas J. Sadgrove, Guillermo F. Padilla-González, Ian Telford, Ben W. Greatrex, Graham P. Jones, Rose L. Andrew, Jeremy J. Bruhl, Moses K. Langat, Ingrid Melnikovová, Eloy Fernández Cusimamani
Software Mentions: 2
Published: about 4 years ago

10.3389/fpls.2016.00125

Transcriptome Analysis of Soybean Leaf Abscission Identifies Transcriptional Regulators of Organ Polarity and Cell Fate
Cited by: 25
Author(s): Joonyup Kim, Jinyoung Yang, Ronghui Yang, Richard C. Sicher, Caren Chang, Mark L. Tucker
Software Mentions: 2
Published: almost 9 years ago

10.1186/1471-2156-13-53

High throughput whole rumen metagenome profiling using untargeted massively parallel sequencing
Cited by: 68
Author(s): Elizabeth M. Ross, Peter J. Moate, Carolyn Bath, Sophie Davidson, Tim Sawbridge, Kathryn M. Guthridge, Ben Cocks, Ben J. Hayes
Software Mentions: 2
Published: almost 13 years ago

10.1098/rstb.2014.0295

Interactions between multiple helminths and the gut microbiota in wild rodents
Cited by: 131
Author(s): Jakub Kreisinger, Géraldine Bastien, Heidi C. Hauffe, Julian R. Marchesi, Sarah E. Perkins
Software Mentions: 2
Published: over 9 years ago

10.3389/fpls.2015.00342

Variations in foliar monoterpenes across the range of jack pine reveal three widespread chemotypes: implications to host expansion of invasive mountain pine beetle
Cited by: 43
Author(s): Spencer Taft, Ahmed Najar, Julie Godbout, Jean Bousquet, Nadir Erbilgin
Software Mentions: 2
Published: over 9 years ago

10.1534/g3.117.300224

Filamentation Involves Two Overlapping, but Distinct, Programs of Filamentation in the Pathogenic Fungus Candida albicans
Cited by: 50
Author(s): Jahaun Azadmanesh, Austin Gowen, Paul E. Creger, Nichole D. Schafer, Jill R. Blankenship
Software Mentions: 2
Published: about 7 years ago

10.1016/j.molonc.2014.10.012

A DNA methylation‐based definition of biologically distinct breast cancer subtypes
Cited by: 144
Author(s): Olafur A. Stefansson, Sebastián Morán, Antonio Gómez, Sergi Sayols, Carlos Arribas-Jorba, Juan Sandoval, Hólmfríður Hilmarsdóttir, Elínborg J Ólafsdóttir, Laufey Tryggvadóttír, Jón G. Jonasson, Jórunn E. Eyfjörd, Manel Esteller
Software Mentions: 2
Published: about 10 years ago

10.1074/mcp.RA118.001193

Proteomics Analysis of Extracellular Matrix Remodeling During Zebrafish Heart Regeneration
Cited by: 45
Author(s): Anna Garcia-Puig, José Luis Mosquera, Senda Jiménez‐Delgado, Cristina García-Pastor, Ignasi Jorba, Daniel Navajas, Françesc Canals, Ángel Raya
Software Mentions: 2
Published: about 5 years ago

10.1186/1476-4598-12-106

Expression profiling of ion channel genes predicts clinical outcome in breast cancer
Cited by: 85
Author(s): Jae Hong Ko, Eun A. Ko, Wanjun Gu, Inja Lim, Hyoweon Bang, Tong Zhou
Software Mentions: 2
Published: about 11 years ago

10.1038/s41396-018-0266-y

Dynamic genomic architecture of mutualistic cooperation in a wild population of Mesorhizobium
Cited by: 31
Author(s): Stephanie S. Porter, Joshua J. Faber-Hammond, Angeliqua P Montoya, Maren Friesen, Cynthia Sackos
Software Mentions: 2
Published: about 6 years ago

10.3390/metabo11040214

Separation of Chromatographic Co-Eluted Compounds by Clustering and by Functional Data Analysis
Cited by: 2
Author(s): Aneta Sawikowska, Anna Piasecka, P. Kachlicki, Paweł Krajewski
Software Mentions: 2
Published: over 3 years ago

10.1080/13506129.2019.1625323

Idiopathic degenerative thoracic aneurysms are associated with increased aortic medial amyloid
Cited by: 13
Author(s): Hannah A. Davies, Eva Caamaño-Gutiérrez, Ya Hua Chim, Mark Field, Omar Nawaytou, Lorenzo Ressel, Riaz Akhtar, Jillian Madine
Software Mentions: 2
Published: over 5 years ago

10.7554/eLife.40841

Natural variation in sugar tolerance associates with changes in signaling and mitochondrial ribosome biogenesis
Cited by: 12
Author(s): Richard G Melvin, Nicole Lamichane, Essi Havula, Krista Kokki, Charles Soeder, Corbin D. Jones, Ville Hietakangas
Software Mentions: 2
Published: almost 6 years ago

10.1093/jxb/erz075

Identification of drought responsive proteins and related proteomic QTLs in barley
Cited by: 26
Author(s): Paweł Rodziewicz, Klaudia Chmielewska, Aneta Sawikowska, Łukasz Marczak, Magdalena Łuczak, Paweł Bednarek, Krzysztof Mikołajczak, Piotr Ogrodowicz, Anetta Kuczyńska, Paweł Krajewski, Maciej Stobiecki
Software Mentions: 2
Published: over 5 years ago

10.1097/MD.0000000000002853

DNA Microarray Analysis of Submandibular Glands in IgG4-Related Disease Indicates a Role for MARCO and Other Innate Immune-Related Proteins
Cited by: 18
Author(s): Miho Ohta, Masafumi Moriyama, Takashi Mitsui, Yuka Gion, Soichi Furukawa, Akihiko Tanaka, Jun Nosuke Hayashida, Masaki Yamauchi, Nozomu Ishiguro, Yurie Mikami, Hiroto Tsuboi, Mana Iizuka‐Koga, Seiji Kawano, Yasuharu Sato, Tamotsu Kiyoshima, Takayuki Sumida, Seiji Nakamura
Software Mentions: 2
Published: almost 9 years ago

10.1186/1471-2407-14-40

Hypoxia increases membrane metallo-endopeptidase expression in a novel lung cancer ex vivo model – role of tumor stroma cells
Cited by: 50
Author(s): Katharina Leithner, Christoph Wohlkoenig, Elvira Stacher, Jörg Lindenmann, Nicole A. Hofmann, Birgit Gallé, Christian Godballe, Franz Quehenberger, Philipp Stiegler, Freyja‐Maria Smolle‐Jüttner, Sjaak Philipsen, Helmut Popper, Andelko Hrzenjak, Andrea Olschewski, Horst Olschewski
Software Mentions: 2
Published: almost 11 years ago

10.1098/rsos.172305

Culturally transmitted song exchange between humpback whales ( Megaptera novaeangliae ) in the southeast Atlantic and southwest Indian Ocean basins
Cited by: 18
Author(s): Melinda L. Rekdahl, Ellen C. Garland, Gabriella A Carvajal, Carissa D. King, Tim Collins, Yvette Razafindrakoto, Howard C. Rosenbaum
Software Mentions: 2
Published: about 6 years ago

10.1186/bcr1608

Gene expression signatures of morphologically normal breast tissue identify basal-like tumors
Cited by: 121
Author(s): Greg Finak, Svetlana Sadekova, François Pépin, Michael Hallett, Sarkis Meterissian, Fawaz Halwani, Karim Khetani, Margarita Souleimanova, Brent Zabolotny, Atilla Ömeroğlu, Morag Park
Software Mentions: 2
Published: about 18 years ago

10.1038/srep11444

Meta-genomic analysis of toilet waste from long distance flights; a step towards global surveillance of infectious diseases and antimicrobial resistance
Cited by: 67
Author(s): Thomas Nordahl Petersen, Simon Rasmussen, Henrik Hasman, Christian Carøe, Jacob Bælum, Anna Charlotte Schultz, Lasse Bergmark, Christina Aaby Svendsen, Ole Lund, Thomas Sicheritz-Pontén, Frank Møller Aarestrup
Software Mentions: 2
Published: over 9 years ago

10.1038/srep15258

Quantitative assessment of gene expression network module-validation methods
Cited by: 13
Author(s): Bing Li, Yingying Zhang, Yanan Yu, Pengqian Wang, Yongcheng Wang, Zhong Wang, Yongyan Wang
Software Mentions: 2
Published: about 9 years ago

10.1038/srep15710

Identification of Reliable Components in Multivariate Curve Resolution-Alternating Least Squares (MCR-ALS): a Data-Driven Approach across Metabolic Processes
Cited by: 46
Author(s): Hiromi Motegi, Yuuri Tsuboi, Ayako Saga, Tomoko Kagami, Masayasu Inoue, Hideaki Toki, Osamu Minowa, Tetsuo Noda, Jun Kikuchi
Software Mentions: 2
Published: about 9 years ago

10.1038/srep16814

Circulating microbial RNA and health
Cited by: 16
Author(s): R. C. K. Leung, Yongda Wu
Software Mentions: 2
Published: about 9 years ago

10.1155/2018/2864120

Analysis of the Cancer Genome Atlas Data Reveals Novel Putative ncRNAs Targets in Hepatocellular Carcinoma
Cited by: 15
Author(s): Tiago Falcón, Martiela Vaz de Freitas, Ana Carolina de Moraes Mello, Laura Coutinho, Mário Reis Álvares‐da‐Silva, Úrsula da Silveira Matte
Software Mentions: 2
Published: over 6 years ago

10.1038/srep38087

Chemotypic variation in terpenes emitted from storage pools influences early aphid colonisation on tansy
Cited by: 31
Author(s): Mary V. Clancy, Sharon E. Zytynska, Matthias Senft, Wolfgang W. Weisser, Jörg‐Peter Schnitzler
Software Mentions: 2
Published: almost 8 years ago

10.1038/srep43199

Commensal gut bacteria modulate phosphorylation-dependent PPARγ transcriptional activity in human intestinal epithelial cells
Cited by: 59
Author(s): Małgorzata Nepelska, Tomás de Wouters, Elsa Jacouton, Fabienne Béguet-Crespel, Nicolas Lapaque, Joël Doré, Velmurugesan Arulampalam, Hervé M. Blottière
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-017-03923-2

Nitric oxide mediated transcriptional modulation enhances plant adaptive responses to arsenic stress
Cited by: 82
Author(s): Pradyumna Kumar Singh, Yuvraj Indoliya, Abhisekh Singh Chauhan, Surendra Singh, Amit Singh, Sanjay Dwivedi, Rudra Deo Tripathi, Debasis Chakrabarty
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-017-06743-6

Design and validation of a DNA-microarray for phylogenetic analysis of bacterial communities in different oral samples and dental implants
Cited by: 14
Author(s): Carola Parolin, Barbara Giordani, Rogers Alberto Ñahui Palomino, Elena Biagi, Marco Severgnini, Clarissa Consolandi, Giada Caredda, Stefano Storelli, L Strohmenger, Beatrice Vitali
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-017-06677-z

Effect of probiotics on the meat flavour and gut microbiota of chicken
Cited by: 90
Author(s): Yan Wang, Jing Sun, Huan Zhong, Nianzhen Li, Hengyong Xu, Qing Zhu, Yiping Liu
Software Mentions: 2
Published: over 7 years ago

10.1186/s12918-017-0414-4

Network reconstruction of the mouse secretory pathway applied on CHO cell transcriptome data
Cited by: 14
Author(s): Anne Mathilde Lund, Christian Schrøder Kaas, Julian Brandl, Lasse Ebdrup Pedersen, Helene Faustrup Kildegaard, Claus Kristensen, Mikael Rørdam Andersen
Software Mentions: 2
Published: over 7 years ago

10.1128/JVI.00690-17

Time-Sampled Population Sequencing Reveals the Interplay of Selection and Genetic Drift in Experimental Evolution of Potato Virus Y
Cited by: 21
Author(s): Denis Kutnjak, Santiago F. Elena, Maja Ravnikar
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-017-11519-z

An embryonic system to assess direct and indirect Wnt transcriptional targets
Cited by: 4
Author(s): Jahnavi Suresh, Nathan Harmston, Ka Keat Lim, Prameet Kaur, Helen Jingshu Jin, Jay B Lusk, Enrico Petretto, Nicholas S. Tolwinski
Software Mentions: 2
Published: about 7 years ago

10.1186/s12870-015-0528-z

RNA-Seq analysis identifies genes associated with differential reproductive success under drought-stress in accessions of wild barley Hordeum spontaneum
Cited by: 52
Author(s): Sariel Hübner, Abraham B. Korol, Karl Schmid
Software Mentions: 2
Published: over 9 years ago

10.1038/s41598-017-15480-9

The maternal genetic make-up of the Iberian Peninsula between the Neolithic and the Early Bronze Age
Cited by: 40
Author(s): Anna Szécsényi-Nagy, Christina Roth, Guido Brandt, Cristina Rihuete Herrada, Cristina Tejedor-Rodríguez, Petra Held, Íñigo García-Martínez de Lagrán, Héctor Arcusa Magallón, Stephanie Zesch, Corina Knipper, Eszter Bánffy, Susanne Friederich, Harald Meller, Primitiva Bueno Ramírez, Rosa Barroso Bermejo, Rodrigo de Balbín Behrmann, Ana Mercedes Herrero Corral, Raúl Flores Fernández, Carmen Alonso Fernández, Javier Jiménez Echevarría, Laura Rindlisbacher, Camila Oliart, María-Inés Fregeiro, Ignacio Soriano Llopis, Oriol Gargallo Vicente, Rafael Micó Pérez, Vicente Lull, Jorge A. Soler Díaz, Juan Antonio López Padilla, Consuelo Roca de Togores Muñoz, Mauro S. Hernández Pérez, Francisco Javier Jover Maestre, Joaquín Lomba Maurandi, Azucena Avilés Fernández, Katina T. Lillios, Ana Maria Silva, Miguel Magalhães Ramalho, Luíz Oosterbeek, Cláudia Cunha, A.J. Waterman, Jordi Roig Buxó, Andrés Martínez, Juana Ponce martínez, Marcos Andrés Hunt Ortiz, Juan Carlos Mejías‐García, Juan Carlos Pecero Espín, Rosario Cruz-Auñón Briones, Tiago Tomé, Eduardo Carmona Ballestero, João Luís Cardoso, Ana Cristina Araújo, Corina Liesau von Lettow‐Vorbeck, Concepción Blasco Bosqued, Patricia Ríos Mendoza, A Pujante, José I. Royo-Guillén, Marco Aurelio Esquembre Beviá, Victor Gonçalves, Rui Parreira, Elena Morán Hernández, Elena Méndez Izquierdo, Jorge Vega y Miguel, Roberto Menduiña García, Victoria Martínez Calvo, Óscar López Jiménez, Johannes Krause, Sandra Pichler, Rafael Garrido‐Pena, Michael Kunst, Robert Risch, Manuel Rojo-Guerra, Wolfgang Haak, Kurt W. Alt
Software Mentions: 2
Published: about 7 years ago

10.1186/s12870-016-0722-7

Shared and divergent pathways for flower abscission are triggered by gibberellic acid and carbon starvation in seedless Vitis vinifera L
Cited by: 26
Author(s): Sara Domingos, Joana Fino, Vânia Cardoso, Claudia Lara, José C. Ramalho, R. Larcher, Octávio S. Paulo, Cristina M. Oliveira, Luís F. Goulão
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-018-20705-6

A mosaic genetic structure of the human population living in the South Baltic region during the Iron Age
Cited by: 13
Author(s): Ireneusz Stolarek, Anna Juras, Luiza Handschuh, Małgorzata Marcinkowska-Swojak, Anna Philips, Michał Zeńczak, Artur Dębski, Hanna Kóčka-Krenz, Janusz Piontek, Piotr Kozłowski, Marek Figlerowicz
Software Mentions: 2
Published: almost 7 years ago

10.1186/s13075-014-0486-0

Altered microbiota associated with abnormal humoral immune responses to commensal organisms in enthesitis-related arthritis
Cited by: 165
Author(s): Matthew L. Stoll, Ranjit Kumar, Casey D. Morrow, Elliot J. Lefkowitz, Xiangqin Cui, Anna Genin, Randy Q. Cron, Charles O. Elson
Software Mentions: 2
Published: almost 10 years ago

10.1038/s41598-018-26840-4

Combinatorial Drug Testing in 3D Microtumors Derived from GBM Patient-Derived Xenografts Reveals Cytotoxic Synergy in Pharmacokinomics-informed Pathway Interactions
Cited by: 11
Author(s): Ashley Gilbert, Joshua C. Anderson, Christine W. Duarte, Rachael Shevin, Catherine P. Langford, Rajesh Kumar Singh, G. Yancey Gillespie, Christopher D. Willey
Software Mentions: 2
Published: over 6 years ago

10.1186/s12866-015-0535-0

Characterising atypical Candida albicans clinical isolates from six third-level hospitals in Bogotá, Colombia
Cited by: 16
Author(s): Giovanni Rodríguez-Leguizamón, Alessandro Fiori, Luisa F. López, Beatriz L. Gómez, Claudia Marcela Parra-Giraldo, Arley Gómez-López, Carlos F. Suárez, Andrés Ceballos, Patrick Van Dijck, Manuel A. Patarroyo
Software Mentions: 2
Published: about 9 years ago

10.1038/s41598-018-37559-7

Microbial basis of Fusarium wilt suppression by Allium cultivation
Cited by: 28
Author(s): Tomoki Nishioka, Malek Marian, Issei Kobayashi, Yuhko Kobayashi, Kyosuke Yamamoto, Hideyuki Tamaki, Haruhisa Suga, Mitsuaki Shimizu
Software Mentions: 2
Published: almost 6 years ago

10.1186/s12920-014-0068-7

Overexpression of miR-21-5p as a predictive marker for complete tumor regression to neoadjuvant chemoradiotherapy in rectal cancer patients
Cited by: 55
Author(s): Camila M. Lopes‐Ramos, Angelita Habr‐Gama, Bruna de Souza Quevedo, Natália M. Felício, Fabiana Bettoni, Fernanda Christtanini Koyama, Paula Fontes Asprino, Pedro A. F. Galante, Joaquim Gama-Rodrigues, Anamaria A. Camargo, Rodrigo Oliva Perez, Raphael B. Parmigiani
Software Mentions: 2
Published: almost 10 years ago

10.1186/1755-8794-5-22

Relation between smoking history and gene expression profiles in lung adenocarcinomas
Cited by: 36
Author(s): Johan Staaf, Göran Jönsson, Mats Jönsson, Anna Karlsson, Sten Isaksson, Annette Salomonsson, Helen Pettersson, Maria Soller, Sven-Börje Ewers, Leif Johansson, Per Jönsson, Maria Planck
Software Mentions: 2
Published: over 12 years ago

10.1038/s41598-019-44017-5

Unique quantitative Symbiodiniaceae signature of coral colonies revealed through spatio-temporal survey in Moorea
Cited by: 24
Author(s): Héloïse Rouzé, Gaël Lecellier, Xavier Pochon, Gergely Torda, Véronique Berteaux‐Lecellier
Software Mentions: 2
Published: over 5 years ago

10.1186/1742-2094-10-125

Inflammation induces neuro-lymphatic protein expression in multiple sclerosis brain neurovasculature
Cited by: 37
Author(s): Ganta Vijay Chaitanya, Seiichi Omura, Fumitaka Sato, Nicholas E. Martinez, Alireza Minagar, Murali Ramanathan, Bianca Weinstock Guttman, Robert Zivadinov, Ikuo Tsunoda, Jonathan S Alexander
Software Mentions: 2
Published: about 11 years ago

10.1016/j.isci.2021.102383

No particular genomic features underpin the dramatic economic consequences of 17th century plague epidemics in Italy
Cited by: 11
Author(s): Andaine Seguin-Orlando, Caroline Costedoat, Clio Der Sarkissian, Stéfan Tzortzis, Célia Kamel, Norbert Telmon, Love Dalén, Catherine Thèves, Michel Signoli, Ludovic Orlando
Software Mentions: 2
Published: over 3 years ago

10.1186/s12916-020-01872-8

The impact of non-pharmaceutical interventions on SARS-CoV-2 transmission across 130 countries and territories
Cited by: 227
Author(s): Yang Liu, Christian Morgenstern, James Kelly, Rachel Lowe, Mark Jit
Software Mentions: 2
Published: almost 4 years ago

10.1016/j.isci.2021.102484

Integrating protein networks and machine learning for disease stratification in the Hereditary Spastic Paraplegias
Cited by: 6
Author(s): Nikoleta Vavouraki, James E. Tomkins, Eleanna Kara, Henry Houlden, John Hardy, Marcus J. Tindall, Patrick A. Lewis, Claudia Manzoni
Software Mentions: 2
Published: over 3 years ago

10.1038/s41598-020-61160-6

Effect of VCP modulators on gene expression profiles of retinal ganglion cells in an acute injury mouse model
Cited by: 4
Author(s): Tomoko Hasegawa, Hanako Ohashi Ikeda, Noriko Gotoh, Kei Iida, Shigehisa Iwai, Nobuhiko Nakano, Akira Kakizuka, Akitaka Tsujikawa
Software Mentions: 2
Published: over 4 years ago

10.18632/oncotarget.11047

Crosstalk between the mitochondrial fission protein, Drp1, and the cell cycle is identified across various cancer types and can impact survival of epithelial ovarian cancer patients
Cited by: 57
Author(s): Deepak K Tanwar, Danitra Parker, Priyanka Gupta, Brian Spurlock, Ronald D. Alvarez, Malay Kumar Basu, Kasturi Mitra
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-020-71012-y

Exploring C4–CAM plasticity within the Portulaca oleracea complex
Cited by: 18
Author(s): Renata Callegari Ferrari, Bruna Magrini da Cruz, Vinícius Daguano Gastaldi, Thalyson Adolfo Storl, Elisa Callegari Ferrari, Susanna Flavia Boxall, James Hartwell, Luciano Freschi
Software Mentions: 2
Published: about 4 years ago

10.1371/journal.pone.0173022

Strong incidence of Pseudomonas aeruginosa on bacterial rrs and ITS genetic structures of cystic fibrosis sputa
Cited by: 4
Author(s): L. Pagès-Monteiro, Romain Marti, Carine Commun, Nolwenn Alliot, Claire Bardel, H. Meugnier, Michele Perouse-de-Montclos, Philippe Reix, I. Durieu, S. Durupt, François Vandenesch, J. Freney, Benoît Cournoyer, Anne Doléans-Jordheim
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-020-73279-7

Quantifying the effect of human practices on S. cerevisiae vineyard metapopulation diversity
Cited by: 2
Author(s): Marine Börlin, Olivier Claisse, Warren Albertin, Franck Salin, Jean Luc Legras, Isabelle Masneuf‐Pomarède
Software Mentions: 2
Published: about 4 years ago

10.1371/journal.pone.0189714

A reassessment of the Montmaurin-La Niche mandible (Haute Garonne, France) in the context of European Pleistocene human evolution
Cited by: 20
Author(s): Amélie Vialet, Mario Modesto‐Mata, María Martinón‐Torres, Marina Martínez de Pinillos, José Marı́a Bermúdez de Castro
Software Mentions: 2
Published: almost 7 years ago

Projects: cran: pvclust

Papers Mentioning pvclust 442