cran: RColorBrewer | Projects | Ecosyste.ms: Papers

10.3389/fphar.2021.726529

CD3D, GZMK, and KLRB1 Are Potential Markers for Early Diagnosis of Rheumatoid Arthritis, Especially in Anti-Citrullinated Protein Antibody-Negative Patients
Cited by: 8
Author(s): Junqin Lu, Yihui Bi, Yapeng Zhu, Hanyu Shi, Wenxiu Duan, Jian Zhou
Software Mentions: 12
Published: about 3 years ago

10.1038/s41598-019-48495-5

Latent-period stool proteomic assay of multiple sclerosis model indicates protective capacity of host-expressed protease inhibitors
Cited by: 9
Author(s): Carlos Gutiérrez González, Stephanie Tankou, Laura M. Cox, Ellen P. Casavant, Howard L. Weiner, Joshua E. Elias
Software Mentions: 11
Published: about 5 years ago

10.12688/wellcomeopenres.15477.2

Feasibility of informing syndrome-level empiric antibiotic recommendations using publicly available antibiotic resistance datasets
Cited by: 5
Author(s): Quentin J. Leclerc, Nichola R. Naylor, Alexander M. Aiken, Francesc Español i Coll, Gwenan M. Knight
Software Mentions: 11
Published: over 4 years ago

10.18632/oncotarget.22928

Comparing the genomes of cutaneous melanoma tumors to commercially available cell lines
Cited by: 10
Author(s): Stephen A. Luebker, Weiwei Zhang, Scott A. Koepsell
Software Mentions: 11
Published: almost 7 years ago

10.15252/msb.20177697

Screening drug effects in patient‐derived cancer cells links organoid responses to genome alterations
Cited by: 153
Author(s): Julia Jabs, Franziska Maria Zickgraf, Jeongbin Park, Sven Wagner, Xiaoqi Jiang, Katharina Jechow, Kortine Kleinheinz, Umut Toprak, Marc A. Schneider, Michael Meister, Saskia Spaich, Marc Sütterlin, Matthias Schlesner, Andreas Trumpp, Martin R. Sprick, Roland Eils, Christian Conrad
Software Mentions: 11
Published: about 7 years ago

10.1186/1756-0500-3-10

A collection of bioconductor methods to visualize gene-list annotations
Cited by: 46
Author(s): Gang Feng, Pan Du, Nancy L. Krett, Michael A. Tessel, Steven T. Rosen, Warren A. Kibbe, Simon Lin
Software Mentions: 11
Published: almost 15 years ago

10.1186/s12859-020-3360-x

ShinyOmics: collaborative exploration of omics-data
Cited by: 11
Author(s): Defne Surujon, Tim van Opijnen
Software Mentions: 11
Published: almost 5 years ago

10.1093/molbev/msab091

Piggybacking on Niche Adaptation Improves the Maintenance of Multidrug-Resistance Plasmids
Cited by: 20
Author(s): Julia Maria Kloos, João Alves Gama, Joachim Hegstad, Ørjan Samuelsen, Pål Jarle Johnsen
Software Mentions: 11
Published: over 3 years ago

10.3389/fmicb.2020.00926

Chromosome Architecture and Gene Content of the Emergent Pathogen Acinetobacter haemolyticus
Cited by: 3
Author(s): Semiramis Castro-Jaimes, Elena Bello-López, Consuelo Velázquez-Acosta, Patricia Volkow-Fernández, Patricia Lozano-Zaraín, Santiago Castillo-Ramírez, Miguel A. Cevallos
Software Mentions: 11
Published: over 4 years ago

10.1371/journal.pone.0041169

Global Transcriptome Analysis in Influenza-Infected Mouse Lungs Reveals the Kinetics of Innate and Adaptive Host Immune Responses
Cited by: 93
Author(s): Claudia Pommerenke, Esther Wilk, Barkha Srivastava, Annika Schulze, Natalia Novoselova, Robert Geffers, Klaus Schughart
Software Mentions: 11
Published: over 12 years ago

10.7554/eLife.49064

Stepwise polarisation of developing bilayered epidermis is mediated by aPKC and E-cadherin in zebrafish
Cited by: 10
Author(s): Prateek Arora, Shivali Dongre, Renuka Raman, Mahendra Sonawane
Software Mentions: 11
Published: almost 5 years ago

10.3389/fmolb.2021.635074

Decoding Neuromuscular Disorders Using Phenotypic Clusters Obtained From Co-Occurrence Networks
Cited by: 3
Author(s): Elena Díaz-Santiago, M. Gonzalo Claros, Raquel Yahyaoui, Yolanda de Diego-Otero, Rocío Velasco Calvo, Janet Hoenicka, Francesc Palau, Juan A. G. Ranea, James R. Perkins
Software Mentions: 11
Published: over 3 years ago

10.3389/fpls.2020.01132

Intra and Inter-specific Variability of Salt Tolerance Mechanisms in Diospyros Genus
Cited by: 3
Author(s): Francisco Gil-Muñoz, Juan G. Pérez-Pérez, Ana Quiñones, María del Mar Naval, M. L. Badenes
Software Mentions: 11
Published: over 4 years ago

10.1007/s11306-016-1090-x

Discovery of A-type procyanidin dimers in yellow raspberries by untargeted metabolomics and correlation based data analysis
Cited by: 6
Author(s): Elisabete Carvalho, Pietro Franceschi, Antje Feller, Lorena Herrera, L. Palmieri, Panagiotis Arapitsas, Samantha Riccadonna, Stefan Martens
Software Mentions: 11
Published: over 8 years ago

10.1371/journal.pcbi.1008316

Ten simple rules for writing Dockerfiles for reproducible data science
Cited by: 36
Author(s): Daniel Nüst, Vanessa Sochat, Ben Marwick, Stephen J. Eglen, T. Head, Tony Hirst, Benjamin D. Evans
Software Mentions: 11
Published: about 4 years ago

10.1016/j.eclinm.2021.101118

Unraveling the concepts of distress, burnout, and depression in type 1 diabetes: A scoping review
Cited by: 9
Author(s): Dona A. Kiriella, Sumaiya Islam, Olutobi Oridota, Nancy Sohler, Coralie Dessenne, Carine de Beaufort, Guy Fagherazzi, Gloria Aguayo
Software Mentions: 11
Published: about 3 years ago

10.1128/mSystems.00200-20

High-Throughput Stool Metaproteomics: Method and Application to Human Specimens
Cited by: 14
Author(s): Carlos Gutiérrez González, Hannah C. Wastyk, Madeline Topf, Christopher D. Gardner, Justin L. Sonnenburg, Joshua E. Elias
Software Mentions: 11
Published: over 4 years ago

10.1007/s11250-021-02620-7

Risk factors associated with Ctenocephalides felis flea infestation of peri-urban goats: a neglected parasite in an under-appreciated host
Cited by: 4
Author(s): Julia Rose Dahm, Jordana Burdon Bailey, Robert F. Kelly, Patrick Chikungwa, Julius L.C. Chulu, Lívio Martins Costa, Emily June Freeman, Dagmar Mayer, Stella Mazeri, Neil Sargison
Software Mentions: 10
Published: over 3 years ago

10.1172/jci.insight.145854

Cell-autonomous retinoic acid receptor signaling has stage-specific effects on mouse enteric nervous system
Cited by: 6
Author(s): Tao Gao, Elizabeth C. Wright-Jin, Rajarshi Sengupta, Jessica B. Anderson, Robert O. Heuckeroth
Software Mentions: 10
Published: over 3 years ago

10.1186/1751-0473-5-3

MADAM - An open source meta-analysis toolbox for R and Bioconductor
Cited by: 20
Author(s): Karl G. Kugler, Laurin A. J. Mueller, Armin Graber
Software Mentions: 10
Published: over 14 years ago

10.1093/plankt/fbaa017

Rapid succession drives spring community dynamics of small protists at Helgoland Roads, North Sea
Cited by: 11
Author(s): Laura Käse, Alexandra Kraberg, Katja Metfies, Stefan Neuhaus, Pim Sprong, Bernhard M. Fuchs, Maarten Boersma, Karen Helen Wiltshire
Software Mentions: 10
Published: over 4 years ago

10.1155/2021/7404927

A Comprehensive Multiomics Analysis Identified Ubiquilin 4 as a Promising Prognostic Biomarker of Immune-Related Therapy in Pan-Cancer
Cited by: 4
Author(s): Jie Li, Ye Tong, Zhi Wang, Yi Liu, Xiaofeng Dai, Yubing Zhu
Software Mentions: 10
Published: about 3 years ago

10.1186/s40360-021-00505-x

Causal inference multiple imputation investigation of the impact of cannabinoids and other substances on ethnic differentials in US testicular cancer incidence
Cited by: 26
Author(s): Albert Stuart Reece, Gary Kenneth Hulse
Software Mentions: 10
Published: over 3 years ago

10.3389/fpls.2020.00136

The Bacterial Microbiome of Meloidogyne-Based Disease Complex in Coffee and Tomato
Cited by: 17
Author(s): Araceli Lamelas, Damaris Desgarennes, Daniel López-Lima, Luc Villain, Alexandro Alonso-Sánchez, Alejandro Artacho, Amparo Latorre, Andrés Moya, Gloria Carrión
Software Mentions: 10
Published: over 4 years ago

10.1371/journal.pone.0041762

Large-scale identification of microRNA targets in murine Dgcr8-deficient embryonic stem cell lines.
Cited by: 7
Author(s): Matthew P Davis, Cei Abreu‐Goodger, Stijn van Dongen, Dong Lu, P. Täte, Nenad Bartoniček, Claudia Kutter, Pentao Liu, William C. Skarnes, Anton J. Enright, Ian Dunham
Software Mentions: 10
Published: almost 13 years ago

10.1371/journal.pone.0191601

Highly multiplexed single-cell quantitative PCR
Cited by: 12
Author(s): Michael VanInsberghe, Hans Zahn, Alexander D. White, Oleh I. Petriv, Carl L. Hansen
Software Mentions: 10
Published: almost 7 years ago

10.1186/s12859-017-1847-x

Tissue-aware RNA-Seq processing and normalization for heterogeneous and sparse data
Cited by: 42
Author(s): Joseph N. Paulson, Cho-Yi Chen, Camila M. Lopes‐Ramos, Marieke L. Kuijjer, John Platig, Abhijeet R. Sonawane, Maud Fagny, Kimberly Glass, John Quackenbush
Software Mentions: 10
Published: about 7 years ago

10.1038/s41598-020-65160-4

Influence of climate variation on phenolic composition and antioxidant capacity of Medicago minima populations
Cited by: 45
Author(s): Souhir Kabtni, Dorra Sdouga, Ines Bettaib Rebey, Mattew Save, Neïla Trifi-Farah, Marie‐Laure Fauconnier, Sonia Marghali
Software Mentions: 10
Published: over 4 years ago

10.1371/journal.pgen.1008126

Identification of novel genes involved in phosphate accumulation in Lotus japonicus through Genome Wide Association mapping of root system architecture and anion content
Cited by: 14
Author(s): Marco Giovannetti, Christian Göschl, Christof Dietzen, Stig Uggerhøj Andersen, Stanislav Kopriva, Wolfgang Busch
Software Mentions: 10
Published: almost 5 years ago

10.1371/journal.pone.0034594

Heterogeneity of Inflammatory and Cytokine Networks in Chronic Plaque Psoriasis
Cited by: 71
Author(s): William R. Swindell, Xianying Xing, Philip E. Stuart, Cynthia S. Chen, Abhishek Aphale, Rajan P. Nair, John J. Voorhees, James T. Elder, Andrew Johnston, Jóhann E. Guðjónsson
Software Mentions: 10
Published: over 12 years ago

10.1186/s13046-019-1212-1

The kinase inhibitor SI113 induces autophagy and synergizes with quinacrine in hindering the growth of human glioblastoma multiforme cells
Cited by: 23
Author(s): Silvia Matteoni, Claudia Abbruzzese, Paola Matarrese, Gabriele De Luca, Anna Maria Mileo, Stefania Miccadei, Silvia Schenone, Francesca Musumeci, Tobias Haas, Giovanni Sette, Carmine Maria Carapella, Rosario Amato, Nicola Perrotti, Michele Signore, Marco G. Paggi
Software Mentions: 10
Published: over 5 years ago

10.1371/journal.pbio.3001053

Identification of 3′ UTR motifs required for mRNA localization to myelin sheaths in vivo
Cited by: 13
Author(s): Katie M. Yergert, Caleb A. Doll, Rebecca O’Rouke, Jacob H. Hines, Bruce Appel
Software Mentions: 10
Published: almost 4 years ago

10.1128/mSystems.00541-20

Evidence for Succession and Putative Metabolic Roles of Fungi and Bacteria in the Farming Mutualism of the Ambrosia Beetle Xyleborus affinis
Cited by: 17
Author(s): Luis A. Ibarra-Juárez, Maureen Burton, Peter H. W. Biedermann, Luisa F. Cruz, Damaris Desgarennes, Enrique Ibarra-Laclette, Amparo Latorre, Alexandro Alonso-Sánchez, Emanuel Villafán, Greta Hanako-Rosas, Loredana Lopez, Mirna Vázquez-Rosas-Landa, Gloria Carrión, Daniel Carrillo, Andrés Moya, Araceli Lamelas
Software Mentions: 10
Published: about 4 years ago

10.3389/fimmu.2021.722860

Transcriptional Changes in Regulatory T Cells From Patients With Autoimmune Polyendocrine Syndrome Type 1 Suggest Functional Impairment of Lipid Metabolism and Gut Homing
Cited by: 1
Author(s): A Berger, Eirik Bratland, Thea Sjøgren, Marte Heimli, Torgeir Tyssedal, Øyvind Bruserud, Stefan Johansson, Eystein S. Husebye, Bergithe E. Oftedal, Anette Susanne Bøe Wolff
Software Mentions: 10
Published: about 3 years ago

10.1002/brb3.2174

Co‐activation pattern alterations in autism spectrum disorder–A volume‐wise hierarchical clustering fMRI study
Cited by: 2
Author(s): Jyri‐Johan Paakki, Jukka S. Rahko, Aija Kotila, Marja‐Leena Mattila, Helena Miettunen, Tuula Hurtig, Katja Jussila, Sanna Kuusikko‐Gauffin, Irma Moilanen, Osmo Tervonen, Vesa Kiviniemi
Software Mentions: 10
Published: over 3 years ago

10.7717/peerj.10264

MutRank: an R shiny web-application for exploratory targeted mutual rank-based coexpression analyses integrated with user-provided supporting information
Cited by: 6
Author(s): Elly Poretsky, Alisa Huffaker
Software Mentions: 10
Published: about 4 years ago

10.1186/s13148-020-0824-9

Maternal diabetes and obesity influence the fetal epigenome in a largely Hispanic population
Cited by: 18
Author(s): Heather E. Rizzo, Elia N. Escaname, Nicholas B. Alana, Elizabeth Lavender, Jonathan Gelfond, Roman Fernandez, Matthew A. Hibbs, Julie King, Nicholas Carr, Cynthia L. Blanco
Software Mentions: 9
Published: almost 5 years ago

10.3897/mycokeys.81.66249

Soil fungal communities of ectomycorrhizal dominated woodlands across West Africa
Cited by: 6
Author(s): Peter Meidl, Brendan Furneaux, Kassim I. Tchan, Kerri L. Kluting, Martin Ryberg, Marie-Laure Guissou, Bakary Soro, Aïssata Traoré, Gbamon Konomou, Nourou S. Yorou, Anna Rosling
Software Mentions: 9
Published: over 3 years ago

10.15252/msb.20198849

High‐fat diet in a mouse insulin‐resistant model induces widespread rewiring of the phosphotyrosine signaling network
Cited by: 24
Author(s): Antje Dittmann, Norman J. Kennedy, Nina L Soltero, Nader Morshed, Miyeko Mana, Ömer H. Yılmaz, Roger J. Davis, Forest M. White
Software Mentions: 9
Published: over 5 years ago

10.1186/s12889-021-10715-x

Assessing critical gaps in COVID-19 testing capacity: the case of delayed results in Ecuador
Cited by: 28
Author(s): Irene Torres, Rachel Sippy, Fernando Sacoto
Software Mentions: 9
Published: over 3 years ago

10.1111/mec.15106

The right response at the right time: Exploring helminth immune modulation in sticklebacks by experimental coinfection
Cited by: 10
Author(s): Agnes Piecyk, Marc Ritter, Martin Kalbe
Software Mentions: 9
Published: over 5 years ago

10.1016/j.celrep.2020.107732

Variable Outcomes in Neural Differentiation of Human PSCs Arise from Intrinsic Differences in Developmental Signaling Pathways
Cited by: 43
Author(s): Alessio Strano, Eleanor J. Tuck, Victoria Stubbs, Frederick J. Livesey
Software Mentions: 9
Published: over 4 years ago

10.3390/microorganisms8050623

Framework as a Service, FaaS: Personalized Prebiotic Development for Infants with the Elements of Time and Parametric Modelling of In Vitro Fermentation
Cited by: 0
Author(s): Kwok Wai Lam, Wai‐Yin Cheng, Fan Yang, Shaoling Lin, Lijun You, Jiachi Chiou, Hoi Shan Kwan, Peter Chi Keung Cheung
Software Mentions: 9
Published: over 4 years ago

10.1111/1462-2920.14631

Effect of long‐term organic and mineral fertilization strategies on rhizosphere microbiota assemblage and performance of lettuce
Cited by: 41
Author(s): Soumitra Paul Chowdhury, Doreen Babin, Martin Sandmann, Samuel Jacquiod, Loreen Sommermann, Søren J. Sørensen, Andreas Fließbach, Paul Mäder, Joerg Geistlinger, Kornelia Smalla, Michael Rothballer, Rita Grosch
Software Mentions: 9
Published: over 5 years ago

10.2196/16442

Quality Awareness and Its Influence on the Evaluation of App Meta-Information by Physicians: Validation Study
Cited by: 8
Author(s): Urs‐Vito Albrecht, Theodor Framke, Ute von Jan
Software Mentions: 9
Published: about 5 years ago

10.1038/s41598-019-56288-z

Interactions with humans are jointly influenced by life history stage and social network factors and reduce group cohesion in moor macaques (Macaca maura)
Cited by: 26
Author(s): Kristen S. Morrow, Hunter Glanz, Putu Oka Ngakan, Erin P. Riley
Software Mentions: 9
Published: almost 5 years ago

10.1371/journal.pone.0249858

Morpho-agronomic, biochemical and molecular analysis of genetic diversity in the Mesoamerican common bean panel
Cited by: 5
Author(s): Alexandre Simões Nogueira, Vânia Moda-Cirino, Jéssica Delfini, Luriam Aparecida Brandão, Silas Mian, Leonel Vinícius Constantino, Douglas Mariani Zeffa, José dos Santos Neto, Leandro Simões Azeredo Gonçalves
Software Mentions: 9
Published: over 3 years ago

10.1186/s12867-018-0111-x

Coincidence cloning recovery of Brucella melitensis RNA from goat tissues: advancing the in vivo analysis of pathogen gene expression in brucellosis
Cited by: 4
Author(s): Paola M. Boggiatto, Daniel Fitzsimmons, Darrell O. Bayles, David P. Alt, Catherine E. Vrentas, Steven C. Olsen
Software Mentions: 9
Published: over 6 years ago

10.3389/fpsyg.2020.599788

Faster Visual Information Processing in Video Gamers Is Associated With EEG Alpha Amplitude Modulation
Cited by: 5
Author(s): Yannik Hilla, Jörg von Mankowski, Julia Föcker, Paul Sauseng
Software Mentions: 9
Published: almost 4 years ago

10.1186/s12939-018-0750-z

Detecting spatio-temporal mortality clusters of European countries by sex and age
Cited by: 9
Author(s): Patricia Carracedo, Ana Debón, Adina Iftimi, Francisco Montes
Software Mentions: 9
Published: over 6 years ago

10.1186/1471-2105-8-221

Ringo – an R/Bioconductor package for analyzing ChIP-chip readouts
Cited by: 156
Author(s): Joern Toedling, Oleg Sklyar, Wolfgang Huber
Software Mentions: 9
Published: over 17 years ago

10.1038/s41598-021-93699-3

Analysing omics data sets with weighted nodes networks (WNNets)
Cited by: 1
Author(s): Gabriele Tosadori, Dario Di Silvestre, Fausto Spoto, Pierluigi Mauri, Carlo Laudanna, Giovanni Scardoni
Software Mentions: 9
Published: over 3 years ago

10.7554/eLife.34058

A transcriptomics resource reveals a transcriptional transition during ordered sarcomere morphogenesis in flight muscle
Cited by: 63
Author(s): Maria L. Spletter, Christiane Barz, Assa Yeroslaviz, Xu Zhang, Sandra B. Lemke, Adrien Bonnard, Erich Brunner, Giovanni Cardone, Konrad Basler, Bianca Habermann, Frank Schnorrer
Software Mentions: 9
Published: over 6 years ago

10.1371/journal.pone.0149237

Optimizing Viral Discovery in Bats
Cited by: 35
Author(s): Caroline Young, Kevin J. Olival
Software Mentions: 9
Published: almost 9 years ago

10.1371/journal.pone.0220770

Characterizing the soil microbiome and quantifying antibiotic resistance gene dynamics in agricultural soil following swine CAFO manure application
Cited by: 40
Author(s): Edward Lopatto, Jinlyung Choi, Alfredo Colina, Lanying Ma, Adina Howe, Shannon M. Hinsa-Leasure
Software Mentions: 9
Published: over 5 years ago

10.1038/s41598-019-53903-x

Proteome characterization of used nesting material and potential protein sources from group housed male mice, Mus musculus
Cited by: 16
Author(s): Amanda J. Barabas, Uma K. Aryal, Brianna N. Gaskill
Software Mentions: 9
Published: almost 5 years ago

10.3390/ijerph18010318

Mapping the Scientific Landscape of Diabetes Research in Malaysia (2000–2018): A Systematic Scientometrics Study
Cited by: 5
Author(s): Kurubaran Ganasegeran, Chee Peng Hor, Mohd Fadzly Amar Jamil, Purnima Devi Suppiah, Juliana Mohd Noor, Norshahida Abdul Hamid, Deik Roy Chuan, Mohd Rizal Abdul Manaf, Alan Swee Hock Ch’ng, Irene Looi
Software Mentions: 9
Published: almost 4 years ago

10.15698/mic2021.08.757

Genome, transcriptome and secretome analyses of the antagonistic, yeast-like fungus Aureobasidium pullulans to identify potential biocontrol genes
Cited by: 13
Author(s): Maria Paula Rueda‐Mejia, Lukas Nägeli, Stefanie Lutz, Richard D. Hayes, Adithi R. Varadarajan, Igor V. Grigoriev, Christian H. Ahrens, Florian M. Freimoser
Software Mentions: 9
Published: over 3 years ago

10.1038/s41598-018-33109-3

Bayesian spatiotemporal analysis for association of environmental factors with hand, foot, and mouth disease in Guangdong, China
Cited by: 8
Author(s): Zhicheng Du, Wayne R. Lawrence, Wangjian Zhang, Dingmei Zhang, Shicheng Yu, Yuantao Hao
Software Mentions: 9
Published: about 6 years ago

10.3390/metabo10030086

Local Phenomena Shape Backyard Soil Metabolite Composition
Cited by: 9
Author(s): Tra D Nguyen, Mahbobeh Lesani, Ines Forrest, Yunpeng Lan, Danya A. Dean, Quentin M. R. Gibaut, Yanting Guo, Ekram Hossain, Marcela Olvera, Hannah Panlilio, Adwaita R. Parab, Chao‐Yi Wu, Jean A. Bernatchez, Robert H. Cichewicz, Laura-Isobel McCall
Software Mentions: 9
Published: over 4 years ago

10.3389/fnana.2018.00010

Cerebral Artery Diameter in Inbred Mice Varies as a Function of Strain
Cited by: 23
Author(s): Baogang Qian, Robert F. Rudy, Tianxi Cai, Rose Du
Software Mentions: 9
Published: almost 7 years ago

10.7717/peerj.3795

Multivariate ordination identifies vegetation types associated with spider conservation in brassica crops
Cited by: 4
Author(s): Hafiz Sohaib Ahmed Saqib, Minsheng You, Geoff M. Gurr
Software Mentions: 9
Published: about 7 years ago

10.1186/s12864-019-5692-3

Expanding the biodiversity of Oenococcus oeni through comparative genomics of apple cider and kombucha strains
Cited by: 14
Author(s): Marc Lorentzen, Hugo Campbell-Sills, Tue Sparholt Jørgensen, Tue Kjærgaard Nielsen, Monika Coton, Emmanuel Coton, Lars Hansen, Patrick Lucas
Software Mentions: 9
Published: over 5 years ago

10.1038/s41419-019-1775-y

A new bioavailable fenretinide formulation with antiproliferative, antimetabolic, and cytotoxic effects on solid tumors
Cited by: 34
Author(s): Isabella Orienti, Federica Francescangeli, Maria Laura De Angelis, Katia Fecchi, Lucilla Bongiorno-Borbone, Michele Signore, Angelo Peschiaroli, Alessandra Boe, Alessandro Bruselles, Angelita Costantino, Adriana Eramo, Valentina Salvati, Giovanni Sette, Paola Contavalli, Lello Zolla, Toshihiko Oki, Toshio Kitamura, Massimo Spada, Alessandro Giuliani, Marta Baiocchi, Filippo La Torre, Gerry Melino, Marco Tartaglia, Ruggero De Maria, Ann Zeuner
Software Mentions: 9
Published: over 5 years ago

10.1002/cam4.4203

Comprehensive analysis of pan‐cancer reveals potential of ASF1B as a prognostic and immunological biomarker
Cited by: 25
Author(s): Xinyao Hu, Hua Zhu, Xiaoyu Zhang, Xueling He, Ximing Xu
Software Mentions: 9
Published: about 3 years ago

10.1186/s12864-021-07995-3

Neurogenomic divergence during speciation by reinforcement of mating behaviors in chorus frogs (Pseudacris)
Cited by: 4
Author(s): Oscar E. Ospina, Alan R. Lemmon, Mysia Dye, Christopher Zdyrski, Sean Holland, Daniel Stribling, Michelle L Kortyna, Emily Moriarty Lemmon
Software Mentions: 9
Published: about 3 years ago

10.7717/peerj.9017

Population structure and microbial community diversity of two common tetillid sponges in a tropical reef lagoon
Cited by: 10
Author(s): Jake Ivan P. Baquiran, Michael Angelou L. Nada, Niño Posadas, Dana P. Manogan, Patrick C. Cabaitan, Cecilia Conaco
Software Mentions: 9
Published: over 4 years ago

10.3390/toxins13080583

Metaproteomics Reveals Alteration of the Gut Microbiome in Weaned Piglets Due to the Ingestion of the Mycotoxins Deoxynivalenol and Zearalenone
Cited by: 6
Author(s): Johan S. Sáenz, Alina Kurz, Ursula Ruczizka, Moritz Bünger, Maximiliane Dippel, Veronika Nagl, Bertrand Grenier, Andrea Ladinig, Jana Seifert, Evelyne Selberherr
Software Mentions: 8
Published: over 3 years ago

10.3390/nu11122892

Dietary Determinants of Metabolic Syndrome Parameters Differ by Gender in College Students
Cited by: 4
Author(s): Sara Saltzgiver, Alexander Nielson, Heidi Costello, Adam Baker, Julian Chan, David Aguilar
Software Mentions: 8
Published: almost 5 years ago

10.1128/AEM.02755-17

Microbial Diversity and Putative Opportunistic Pathogens in Dishwasher Biofilm Communities
Cited by: 45
Author(s): Prem K. Raghupathi, Jerneja Zupančič, Asker Brejnrod, Samuel Jacquiod, Kurt Houf, Mette Burmølle, Nina Gunde‐Cimerman, Søren J. Sørensen
Software Mentions: 8
Published: over 6 years ago

10.1371/journal.ppat.1006525

Abundance and co-occurrence of extracellular capsules increase environmental breadth: Implications for the emergence of pathogens
Cited by: 53
Author(s): Olaya Rendueles, Marc García-Garcerá, Bertrand Néron, Marie Touchon, Eduardo P. C. Rocha
Software Mentions: 8
Published: over 7 years ago

10.3389/fmicb.2016.00517

Spatio-Temporal Interdependence of Bacteria and Phytoplankton during a Baltic Sea Spring Bloom
Cited by: 57
Author(s): Carina Bunse, Mireia Bertos‐Fortis, Ingrid Sassenhagen, Sirje Sildever, Conny Sjöqvist, Anna Godhe, Susanna Gross, Anke Kremp, Inga Lips, Nina Lundholm, Karin Rengefors, Josefin Sefbom, Jarone Pinhassi, Catherine Legrand
Software Mentions: 8
Published: over 8 years ago

10.3390/v12090956

Human Endogenous Retrovirus Expression Is Associated with Head and Neck Cancer and Differential Survival
Cited by: 17
Author(s): Allison R. Kolbe, Matthew L. Bendall, Alexander T. Pearson, Doru Paul, Douglas F. Nixon, Marcos Pérez‐Losada, Keith A. Crandall
Software Mentions: 8
Published: about 4 years ago

10.1093/toxsci/kfaa058

Blinded, Multicenter Evaluation of Drug-induced Changes in Contractility Using Human-induced Pluripotent Stem Cell-derived Cardiomyocytes
Cited by: 44
Author(s): Umber Saleem, Berend J. van Meer, Puspita A Katili, Nurul A N Mohd Yusof, Ingra Mannhardt, Ana Krotenberg Garcia, Leon G.J. Tertoolen, Tessa de Korte, Maria L. H. Vlaming, Karen McGlynn, Jessica Nebel, Anthony Bahinski, Kate Harris, Eric I. Rossman, Xiaoping Xu, Francis L. Burton, Godfrey L. Smith, Peter Clements, Christine L. Mummery, Thomas Eschenhagen, Arne Hansen, Chris Denning
Software Mentions: 8
Published: over 4 years ago

10.15252/msb.20188238

Unraveling mitotic protein networks by 3D multiplexed epitope drug screening
Cited by: 1
Author(s): Lorenz Maier, Stefan M. Kallenberger, Katharina Jechow, Marcel Waschow, Roland Eils, Christian Conrad
Software Mentions: 8
Published: over 6 years ago

10.1186/1471-2105-11-450

Filtering, FDR and power
Cited by: 43
Author(s): Maarten van Iterson, Judith M. Boer, Renée X. de Menezes
Software Mentions: 8
Published: about 14 years ago

10.1016/j.molcel.2021.03.041

DNAJC9 integrates heat shock molecular chaperones into the histone chaperone network
Cited by: 28
Author(s): Colin M. Hammond, Hongyu Bao, Ivo A. Hendriks, Massimo Carraro, Alberto García-Nieto, Yanhong Liu, Nazaret Reverón-Gómez, Christos Spanos, Liu Chen, Juri Rappsilber, Michael L. Nielsen, Dinshaw J. Patel, Hongda Huang, Anja Groth
Software Mentions: 8
Published: over 3 years ago

10.1080/16549716.2018.1440783

Health Equity Assessment Toolkit Plus (HEAT Plus): software for exploring and comparing health inequalities using uploaded datasets
Cited by: 42
Author(s): Ahmad Reza Hosseinpoor, Anne Schlotheuber, Devaki Nambiar, Zev Ross
Software Mentions: 8
Published: over 6 years ago

10.1186/gm385

Exploiting the noise: improving biomarkers with ensembles of data analysis methodologies
Cited by: 14
Author(s): Maud H.W. Starmans, Melania Pintilie, Thomas John, Sandy D. Der, Frances A. Shepherd, Igor Jurišica, Philippe Lambin, Ming‐Sound Tsao, Paul C. Boutros
Software Mentions: 8
Published: almost 13 years ago

10.1534/g3.118.200892

Isolation by Distance, Source-Sink Population Dynamics and Dispersal Facilitation by Trade Routes: Impact on Population Genetic Structure of a Stored Grain Pest
Cited by: 14
Author(s): Erick M. G. Cordeiro, James F. Campbell, Thomas W. Phillips, Eduard Akhunov
Software Mentions: 8
Published: over 5 years ago

10.1371/journal.pone.0179623

Estimating the basic reproduction rate of HFMD using the time series SIR model in Guangdong, China
Cited by: 28
Author(s): Zhicheng Du, Wangjian Zhang, Dingmei Zhang, Shicheng Yu, Yuantao Hao
Software Mentions: 8
Published: over 7 years ago

10.3390/cancers13071734

Role for the Histone Demethylase KDM4B in Rhabdomyosarcoma via CDK6 and CCNA2: Compensation by KDM4A and Apoptotic Response of Targeting Both KDM4B and KDM4A
Cited by: 5
Author(s): Zoë S. Walters, Ewa Aładowicz, Bárbara Villarejo-Balcells, Gary Nugent, Joanna Selfe, Paul D. Eve, Julian Blagg, Olivia W. Rossanese, Janet Shipley
Software Mentions: 8
Published: over 3 years ago

10.1186/s40168-017-0235-0

Mentholation affects the cigarette microbiota by selecting for bacteria resistant to harsh environmental conditions and selecting against potential bacterial pathogens
Cited by: 30
Author(s): Jessica Chopyk, Suhana Chattopadhyay, Prachi Kulkarni, Emma Claye, Kelsey R. Babik, Molly C. Reid, Eoghan M. Smyth, Lauren E. Hittle, Joseph N. Paulson, Raul Cruz‐Cano, Mihai Pop, Stephanie Buehler, Pamela I. Clark, Amy R. Sapkota, Emmanuel F. Mongodin
Software Mentions: 8
Published: almost 8 years ago

10.1186/s40168-019-0716-4

The association between pneumococcal vaccination, ethnicity, and the nasopharyngeal microbiota of children in Fiji
Cited by: 11
Author(s): Laura K. Boelsen, Eileen M. Dunne, Moana Mika, Stefanie Eggers, Cattram Nguyen, Felisita Tupou Ratu, Fiona M. Russell, E. Kim Mulholland, Markus Hilty, Catherine Satzke
Software Mentions: 8
Published: over 5 years ago

10.3389/fvets.2020.00523

Mind the Queue: A Case Study in Visualizing Heterogeneous Behavioral Patterns in Livestock Sensor Data Using Unsupervised Machine Learning Techniques
Cited by: 11
Author(s): Catherine McVey, Fushing Hsieh, Diego Manríquez, Pablo Pinedo, Kristina Horback
Software Mentions: 8
Published: over 4 years ago

10.1371/journal.pone.0203346

Feasibility of developing reliable gene expression modules from FFPE derived RNA profiled on Affymetrix arrays
Cited by: 3
Author(s): Vinu José, Debora Fumagalli, Françoise Rothé, Samira Majjaj, Sherene Loi, Stefan Michiels, Christos Sotiriou
Software Mentions: 8
Published: about 6 years ago

10.7150/ijms.48244

Identification of Key Genes and Pathways in Myeloma side population cells by Bioinformatics Analysis
Cited by: 21
Author(s): Yang Qin, Kaihu Li, Xin Li, Jing Liu
Software Mentions: 8
Published: almost 5 years ago

10.1186/s42523-021-00096-2

Salmon gut microbiota correlates with disease infection status: potential for monitoring health in farmed animals
Cited by: 65
Author(s): Davide Bozzi, Jacob Agerbo Rasmussen, Christian Carøe, Harald Sveier, Kristian Nordøy, M. Thomas P. Gilbert, Morten T. Limborg
Software Mentions: 8
Published: over 3 years ago

10.1097/MD.0000000000026194

Integrated analysis of ceRNA network in hepatocellular carcinoma using bioinformatics analysis
Cited by: 5
Author(s): Yu Luo, Hongjuan Li, Hongli Huang, Ling Xue, Haiwen Li, Li Liu, Haiyan Fu
Software Mentions: 8
Published: over 3 years ago

10.1038/srep46658

Metabolism dysregulation induces a specific lipid signature of nonalcoholic steatohepatitis in patients
Cited by: 148
Author(s): Franck Chiappini, Audrey Coilly, Hanane Kadar, Philippe Gual, Albert Tran, Christophe Desterke, Didier Samuel, Jean‐Charles Duclos‐Vallée, David Touboul, Justine Bertrand‐Michel, Alain Brunelle, Catherine Guettier, François Le Naour
Software Mentions: 8
Published: over 7 years ago

10.3390/md18060313

A Metabolomics Exploration of the Sexual Phase in the Marine Diatom Pseudo-nitzschia multistriata
Cited by: 15
Author(s): Federica Fiorini, Camilla Borgonuovo, Maria Immacolata Ferrante, Mark Brönstrup
Software Mentions: 8
Published: over 4 years ago

10.7717/peerj.8667

Element concentrations in pelagic<i>Sargassum</i>along the Mexican Caribbean coast in 2018-2019
Cited by: 78
Author(s): Rosa E. Rodríguez-Martínez, Priyadarsi D. Roy, Nuria Torrescano-Valle, Nancy Cabañillas-Terán, Silvia Carrillo‐Domínguez, Ligia Collado‐Vides, Marta García-Sánchez, Brigitta I. van Tussenbroek
Software Mentions: 8
Published: over 4 years ago

10.3389/fonc.2021.597447

A Dynamic Transcription Factor Signature Along the Colorectal Adenoma-Carcinoma Sequence in Patients With Co-Occurrent Adenoma and Carcinoma
Cited by: 3
Author(s): Zongfu Pan, Ying He, Wei Zhu, Tao Xu, Xiaoping Hu, Ping Huang
Software Mentions: 8
Published: over 3 years ago

10.7717/peerj.11370

Ecosystem services show variable responses to future climate conditions in the Colombian páramos
Cited by: 4
Author(s): Mauricio Diazgranados, Carolina Tovar, Thomas R. Etherington, Paula A. Rodríguez‐Zorro, Carolina Castellanos-Castro, Manuel Galvis Rueda, Suzette G. A. Flantua
Software Mentions: 8
Published: over 3 years ago

10.1128/mSphere.00176-18

High Rate of Infection by Only Oncogenic Human Papillomavirus in Amerindians
Cited by: 10
Author(s): Daniela Vargas-Robles, Magda Magris, Natalia Morales, Maurits N.C. de Koning, Iveth Rodríguez, Tahidid Nieves, Filipa Godoy-Vitorino, Gloria Inés Sánchez, Luis David Alcaraz, Larry J. Forney, María-Eglée Pérez, Luis García-Briceño, Leen–Jan van Doorn, Maria Gloria Domínguez-Bello
Software Mentions: 8
Published: over 6 years ago

10.1101/2020.12.03.20242032

Cortical Mechanisms of Visual Hypersensitivity in Women at Risk for Chronic Pelvic Pain
Cited by: 0
Author(s): Matthew J. Kmiecik, Frank F. Tu, Rebecca L. Silton, Katlyn E Dillane, Genevieve E. Roth, Steven E. Harte, Kevin M. Hellman
Software Mentions: 8
Published: almost 4 years ago

10.1186/s13054-021-03503-x

Fluid proteomics of CSF and serum reveal important neuroinflammatory proteins in blood–brain barrier disruption and outcome prediction following severe traumatic brain injury: a prospective, observational study
Cited by: 26
Author(s): Caroline Lindblad, Elisa Pin, David R. Just, Faiez Al Nimer, Peter Nilsson, Bo‐Michael Bellander, Mikael Svensson, Fredrik Piehl, Eric Peter Thelin
Software Mentions: 7
Published: over 3 years ago

10.3389/fmicb.2017.02624

Characterization of the Skin Microbiota of the Cane Toad Rhinella cf. marina in Puerto Rico and Costa Rica
Cited by: 15
Author(s): Juan G. Abarca, Ibrahim Zuñiga, Gilmary Ortiz-Morales, Armando Lugo, Mariel Viquez-Cervilla, Natalia Rodríguez-Hernández, Frances Vázquez-Sánchez, Catalina Murillo‐Cruz, Ernesto A. Torres-Rivera, Adrián A. Pinto‐Tomás, Filipa Godoy-Vitorino
Software Mentions: 7
Published: almost 7 years ago

10.3389/fgene.2019.00292

Identification of Long Non-coding and Messenger RNAs Differentially Expressed Between Primary and Metastatic Melanoma
Cited by: 16
Author(s): Lichang Sun, Zhiguang Guan, Shanshan Wei, Rui Tan, Pengfei Li, Yan Liu
Software Mentions: 7
Published: over 5 years ago

10.1016/j.dib.2021.107324

Data for modeling nitrogen dioxide concentration levels across Germany
Cited by: 2
Author(s): Markus Fritsch, Svenia Behm
Software Mentions: 7
Published: about 3 years ago

Projects: cran: RColorBrewer

Papers Mentioning RColorBrewer 490