Ecosyste.ms: Papers

10.7717/peerj-cs.175

Software engineering principles to improve quality and performance of R software
Cited by: 0
Author(s): Seth Russell, Tellen D. Bennett, Debashis Ghosh
Software Mentions: 29
Published: almost 6 years ago

10.3390/ani9070417

Talking to Dogs: Companion Animal-Directed Speech in a Stress Test
Cited by: 9
Author(s): Raffaela Lesch, Kurt Kotrschal, Iris Schöberl, Andrea Beetz, Judith Solomon, W. Tecumseh Fitch
Software Mentions: 25
Published: over 5 years ago

10.3389/fimmu.2021.616967

A Multi-Omics Analysis of Mucosal-Associated-Invariant T Cells Reveals Key Drivers of Distinct Modes of Activation
Cited by: 12
Author(s): Kristin Schubert, Isabel Karkossa, Jana Schor, Beatrice Engelmann, Lisa Maria Steinheuer, Tony Bruns, Ulrike Rolle-Kampczyk, Jörg Hackermüller, Martin von Bergen
Software Mentions: 24
Published: over 3 years ago

10.1155/2021/6613151

Genomic and Transcriptome Analysis to Identify the Role of the mTOR Pathway in Kidney Renal Clear Cell Carcinoma and Its Potential Therapeutic Significance
Cited by: 6
Author(s): Xiangyu Che, Xiaochen Qi, Yingkun Xu, Qifei Wang, Guangzhen Wu
Software Mentions: 19
Published: over 3 years ago

10.3389/fimmu.2021.620270

Non-Genomic AhR-Signaling Modulates the Immune Response in Endotoxin-Activated Macrophages After Activation by the Environmental Stressor BaP
Cited by: 18
Author(s): Henning Großkopf, Katharina Walter, Isabel Karkossa, Martin von Bergen, Kristin Schubert
Software Mentions: 18
Published: over 3 years ago

10.3389/fimmu.2021.700501

Interferon-γ-Producing CD4+ T Cells Drive Monocyte Activation in the Bone Marrow During Experimental Leishmania donovani Infection
Cited by: 6
Author(s): Audrey Romano, Najmeeyah Brown, Helen Ashwin, Johannes S. P. Doehl, Jonathan Hamp, Mohamed Osman, Nidhi Sharma Dey, Gulab Fatima Rani, Tiago Luiz Ferreira, Paul M. Kaye
Software Mentions: 18
Published: over 3 years ago

10.1073/pnas.2006024117

Diel variability of methane emissions from lakes
Cited by: 46
Author(s): Anna Sieczko, Nguyen Thanh Duc, Jonathan Schenk, Gustav Pajala, David Rudberg, Henrique O. Sawakuchi, David Bastviken
Software Mentions: 17
Published: over 4 years ago

10.3390/cells10092367

The Emerging Plasticizer Alternative DINCH and Its Metabolite MINCH Induce Oxidative Stress and Enhance Inflammatory Responses in Human THP-1 Macrophages
Cited by: 16
Author(s): Alexandra Schaffert, Josi Arnold, Isabel Karkossa, Matthias Blüher, Martin von Bergen, Kristin Schubert
Software Mentions: 16
Published: over 3 years ago

10.1186/s12866-019-1598-0

Characterization of Salmonella Dublin isolated from bovine and human hosts
Cited by: 35
Author(s): Narayan Paudyal, Hang Pan, Mohammed Elbediwi, Xiao Hua Zhou, Xianqi Peng, Xiaoliang Li, Weihuan Fang, Min Yue
Software Mentions: 15
Published: about 5 years ago

10.1371/journal.pone.0212956

Enhanced in vivo-imaging in medaka by optimized anaesthesia, fluorescent protein selection and removal of pigmentation
Cited by: 24
Author(s): Colin Lischik, Leonie Adelmann, Joachim Wittbrodt
Software Mentions: 13
Published: almost 6 years ago

10.1186/s12874-020-01121-9

COVID19-world: a shiny application to perform comprehensive country-specific data visualization for SARS-CoV-2 epidemic
Cited by: 19
Author(s): Cristian Tebé, Joan Valls, Pau Satorra, Aurelio Tobías
Software Mentions: 13
Published: over 4 years ago

10.3389/fneur.2020.00539

Longitudinal Effects of Immediate and Delayed Estradiol on Cognitive Performance in a Spatial Maze and Hippocampal Volume in Menopausal Macaques Under an Obesogenic Diet
Cited by: 6
Author(s): Benjamin Zimmerman, Payel Kundu, Zheng Liu, Henryk F. Urbanski, Christopher D. Kroenke, Steven G. Kohama, Cynthia L. Bethea, Jacob Raber
Software Mentions: 13
Published: over 4 years ago

10.3389/fvets.2019.00406

An Epidemiological and Economic Simulation Model to Evaluate Strategies for the Control of Bovine Virus Diarrhea in Germany
Cited by: 17
Author(s): Jörn Gethmann, Carolina Probst, Jason Bassett, Pascal Blunk, Philipp Hövel, Franz Josef Conraths
Software Mentions: 13
Published: about 5 years ago

10.3389/fnbeh.2018.00187

Exhaustive Multi-Parametric Assessment of the Behavioral Array of Daily Activities of Mice Using Cluster and Factor Analysis
Cited by: 7
Author(s): Kenzo Yamamoto, Katsiaryna V. Gris, Jesús E. Sotelo Fonseca, Marjan Gharagozloo, Shaimaa Mahmoud, Camille Simard, Daphné Houle-Martel, Theodore Cloutier, Pavel Gris, Denis Gris
Software Mentions: 12
Published: over 6 years ago

10.1371/journal.pone.0231500

Propensity score adjustment using machine learning classification algorithms to control selection bias in online surveys
Cited by: 23
Author(s): Ramón Ferri‐García, María del Mar Rueda
Software Mentions: 12
Published: over 4 years ago

10.4269/ajtmh.20-0757

A Computational Modeling Study of COVID-19 in Bangladesh
Cited by: 7
Author(s): Irtesam Mahmud Khan, Ubydul Haque, Samiha Kaisar, Md. Saidur Rahman
Software Mentions: 12
Published: almost 4 years ago

10.3389/fpsyg.2018.00776

Spatial and Verbal Routes to Number Comparison in Young Children
Cited by: 9
Author(s): Francesco Sella, Daniela Lucangeli, Marco Zorzi
Software Mentions: 12
Published: over 6 years ago

10.1186/s12920-015-0121-1

Integrating microbial and host transcriptomics to characterize asthma-associated microbial communities
Cited by: 52
Author(s): Eduardo Castro-Nallar, Ying Shen, Robert J. Freishtat, Marcos Pérez‐Losada, Solaiappan Manimaran, Gang Lv, W. Evan Johnson, Keith A. Crandall
Software Mentions: 12
Published: over 9 years ago

10.7717/peerj.1140

Composition, taxonomy and functional diversity of the oropharynx microbiome in individuals with schizophrenia and controls
Cited by: 190
Author(s): Eduardo Castro-Nallar, Matthew L. Bendall, Marcos Pérez‐Losada, Sarven Sabuncyan, Emily G. Severance, Faith Dickerson, Jennifer R. Schroeder, Robert H. Yolken, Keith A. Crandall
Software Mentions: 11
Published: over 9 years ago

10.3897/BDJ.8.e56876

Environmental DNA revealed the fish community of Hokkaido Island, Japan, after invasion by rainbow trout
Cited by: 5
Author(s): Akio Imamura, Kana Hayami, Masato Sakata, Toshifumi Minamoto
Software Mentions: 11
Published: about 4 years ago

10.3389/fpsyg.2020.555576

Trail Pheromone Does Not Modulate Subjective Reward Evaluation in Lasius niger Ants
Cited by: 3
Author(s): Felix B. Oberhauser, Stephanie Wendt, Tomer J. Czaczkes
Software Mentions: 10
Published: about 4 years ago

10.1371/journal.pone.0252488

PlateEditor: A web-based application for the management of multi-well plate layouts and associated data
Cited by: 2
Author(s): Vincent Delorme, Minjeong Woo, Virgínia Carla de Almeida Falcão, Connor Wood
Software Mentions: 10
Published: over 3 years ago

10.1038/s41598-019-52520-y

Naturally-primed life strategy plasticity of dimorphic Aethionema arabicum facilitates optimal habitat colonization
Cited by: 14
Author(s): Samik Bhattacharya, Katja Sperber, Barış Özüdoğru, Gerhard Leubner‐Metzger, Klaus Mummenhoff
Software Mentions: 10
Published: about 5 years ago

10.1038/s41598-021-95185-2

The food patterns of a multicenter cohort of Brazilian nulliparous pregnant women
Cited by: 3
Author(s): Maria J Miele, Renato Teixeira Souza, Iracema de Mattos Paranhos Calderon, Francisco Edson de Lucena Feitosa, Débora Farias Batista Leite, Edilberto A. Rocha Filho, Janete Vettorazzi, Jussara Mayrink, Karayna Gil Fernandes, Matias C. Vieira, Rodolfo C. Pacagnella, José Guilherme Cecatti
Software Mentions: 9
Published: over 3 years ago

10.1098/rsos.160815

Concurrence in the ability for lipid synthesis between life stages in insects
Cited by: 20
Author(s): Bertanne Visser, Denis S. Willett, Jeffrey A. Harvey, Hans T. Alborn
Software Mentions: 9
Published: almost 8 years ago

10.3390/antiox10091424

S-Methyl-L-Ergothioneine to L-Ergothioneine Ratio in Urine Is a Marker of Cystine Lithiasis in a Cystinuria Mouse Model
Cited by: 2
Author(s): Miguel López de Heredia, Lourdes Muñoz, Ciriaco Carru, Salvatore Sotgia, Angelo Zinellu, C. Serra, Amadeu Llebaría, Yukio Kato, Virginia Nunes
Software Mentions: 9
Published: over 3 years ago

10.1186/s12859-021-04020-y

MeltingPlot, a user-friendly online tool for epidemiological investigation using High Resolution Melting data
Cited by: 4
Author(s): Matteo Perini, Gherard Batisti Biffignandi, Domenico Di Carlo, Ajay Ratan Pasala, Aurora Piazza, Simona Panelli, Gian Vincenzo Zuccotti, Francesco Comandatore
Software Mentions: 9
Published: almost 4 years ago

10.3390/v13060962

Evaluation of Dried Blood Spot Testing for SARS-CoV-2 Serology Using a Quantitative Commercial Assay
Cited by: 15
Author(s): Davor Brinc, Mia J Biondi, Daniel Li, Hao Sun, Camelia Capraru, David Smookler, Muhammad Atif Zahoor, Joseph R. Casey, Vathany Kulasingam, Jordan J. Feld
Software Mentions: 9
Published: over 3 years ago

10.1186/s12940-016-0152-x

Assessing urinary flow rate, creatinine, osmolality and other hydration adjustment methods for urinary biomonitoring using NHANES arsenic, iodine, lead and cadmium data
Cited by: 69
Author(s): Daniel Middleton, Michael J. Watts, R. M. Lark, Chris Milne, David A. Polya
Software Mentions: 8
Published: over 8 years ago

10.3389/fmicb.2018.01868

Exposure to Yeast Shapes the Intestinal Bacterial Community Assembly in Zebrafish Larvae
Cited by: 29
Author(s): Prabhugouda Siriyappagouder, Jorge Galindo-Villegas, Jep Lokesh, Victoriano Mulero, Jorge M. O. Fernandes, Viswanath Kiron
Software Mentions: 8
Published: over 6 years ago

10.1038/s41598-017-10807-y

A Metabolomics Signature Linked To Liver Fibrosis In The Serum Of Transplanted Hepatitis C Patients
Cited by: 22
Author(s): Ainara Cano, Zoe Mariñó, Óscar Millet, Ibon Martínez‐Arranz, Miquel Navasa, Juan Manuel Falcón‐Pérez, Miriam Pérez-Cormenzana, Joan Caballería, Nieves Embade, Xavier Forns, Jaume Bosch, Azucena Castro, José M. Mato
Software Mentions: 7
Published: over 7 years ago

10.1155/2020/8850199

Forecasting COVID-19 Cases Using Alpha-Sutte Indicator: A Comparison with Autoregressive Integrated Moving Average (ARIMA) Method
Cited by: 5
Author(s): A. M. C. H. Attanayake, S. S. N. Perera
Software Mentions: 7
Published: about 4 years ago

10.1002/ece3.3234

The other white‐nose syndrome transcriptome: Tolerant and susceptible hosts respond differently to the pathogen <i>Pseudogymnoascus destructans</i>
Cited by: 21
Author(s): Christina M. Davy, Michael E. Donaldson, Craig K. R. Willis, Barry J. Saville, L. McGuire, Heather W. Mayberry, Alana Wilcox, Gudrun Wibbelt, Vikram Misra, Trent K. Bollinger, Christopher J. Kyle
Software Mentions: 7
Published: over 7 years ago

10.1016/j.diabres.2019.01.008

Differential methylation of the type 2 diabetes susceptibility locus KCNQ1 is associated with insulin sensitivity and is predicted by CpG site specific genetic variation
Cited by: 14
Author(s): Ushma Jaykamal Shah, Wenting Xie, Allan Flyvbjerg, John J. Nolan, Kurt Højlund, Mark Walker, Caroline L Relton, Hannah R Elliott
Software Mentions: 7
Published: almost 6 years ago

10.1038/s41598-018-32229-0

Soil resources and element stocks in drylands to face global issues
Cited by: 98
Author(s): César Plaza, Claudio Zaccone, Kasia Sawicka, Ana Méndez, Ana M. Tarquis, Gabriel Gascó, G.B.M. Heuvelink, Edward A. G. Schuur, Fernando T. Maestre
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-020-60476-7

EPDR1 up-regulation in human colorectal cancer is related to staging and favours cell proliferation and invasiveness
Cited by: 11
Author(s): Francisco Gimeno-Valiente, Ángela L. Riffo‐Campos, Guillermo Ayala, Noelia Tarazona, Fernanda Mariel Rodríguez, Marisol Huerta, J. Montón-Bueno, Susana Roselló, Luís Franco, Gerardo López-Rodas, Josefa Castillo
Software Mentions: 6
Published: almost 5 years ago

10.3390/biomedicines9020206

Zoom in on Antibody Aggregates: A Potential Pitfall in the Search of Rare EV Populations
Cited by: 1
Author(s): Rikke Wehner Rasmussen, Jaco Botha, Frederik Prip, Mathilde Sanden, Mads Nielsen, Aase Handberg
Software Mentions: 6
Published: almost 4 years ago

10.3390/biomedicines9020124

Conventional, High-Resolution and Imaging Flow Cytometry: Benchmarking Performance in Characterisation of Extracellular Vesicles
Cited by: 18
Author(s): Jaco Botha, Haley R. Pugsley, Aase Handberg
Software Mentions: 6
Published: almost 4 years ago

10.1371/journal.pone.0252233

A novel method of screening combinations of angiostatics identifies bevacizumab and temsirolimus as synergistic inhibitors of glioma-induced angiogenesis
Cited by: 3
Author(s): Michael I. Dorrell, Heidi R. Kast-Woelbern, Ryan T. Botts, Stephen Bravo, Jacob R. Tremblay, Sarah Giles, Jessica F. Wada, MaryAnn Alexander, Eric Alejandro García, Gabriel Villegas, Caylor B. Booth, Kaitlyn J. Purington, Haylie M. Everett, Erik N. Siles, Michael Wheelock, Jordan A. Silva, Bridget M. Fortin, Connor A. Lowey, Allison L. Hale, Troy L. Kurz, Jack C. Rusing, Dawn M. Goral, Paul Thompson, Alec M. Johnson, Daniel J. Elson, Roujih Tadros, Charisa E. Gillette, Carley Coopwood, Amy L. Rausch, Jeffrey M. Snowbarger
Software Mentions: 6
Published: over 3 years ago

10.7554/eLife.24260

Standardized mean differences cause funnel plot distortion in publication bias assessments
Cited by: 123
Author(s): Peter-Paul Zwetsloot, Mira van der Naald, Emily S. Sena, David W. Howells, Joanna IntHout, Joris A. H. de Groot, Steven A.J. Chamuleau, Malcolm Macleod, Kimberley E. Wever
Software Mentions: 6
Published: over 7 years ago

10.1016/j.isci.2021.102452

Scaling relation between genome length and particle size of viruses provides insights into viral life history
Cited by: 8
Author(s): Harshali V. Chaudhari, Mandar M. Inamdar, Kiran Kondabagil
Software Mentions: 6
Published: over 3 years ago

10.3389/fbioe.2020.00353

AScall – Automatic Allele-Specific qPCR Analysis
Cited by: 0
Author(s): Konstantin A. Blagodatskikh, Dmitrii Romaniuk, Dmitry B. Malko
Software Mentions: 6
Published: over 4 years ago

10.7717/peerj.6174

Kelpie: generating full-length ‘amplicons’ from whole-metagenome datasets
Cited by: 9
Author(s): Paul Greenfield, Nai Tran‐Dinh, David J. Midgley
Software Mentions: 6
Published: almost 6 years ago

10.1186/s13568-016-0191-2

Automation of antimicrobial activity screening
Cited by: 8
Author(s): Samuel P. Forry, Meggan C. Madonna, Daneli López-Pérez, Nancy J. Lin, Madeleine D. Pasco
Software Mentions: 6
Published: almost 9 years ago

10.3389/fimmu.2020.00425

Interleukin-17A/F1 Deficiency Reduces Antimicrobial Gene Expression and Contributes to Microbiome Alterations in Intestines of Japanese medaka (Oryzias latipes)
Cited by: 18
Author(s): Yo Okamura, Natsuki Morimoto, Daisuke Ikeda, Naoki Mizusawa, Shugo Watabe, Hiroshi Miyanishi, Yuichi Saeki, Haruko Takeyama, Takashi Aoki, Masato Kinoshita, Tomoya Kono, Masahiro Sakai, Jun ichi Hikima
Software Mentions: 5
Published: almost 5 years ago

10.1016/j.clon.2019.08.008

Time to Surgery Following Short-Course Radiotherapy in Rectal Cancer and its Impact on Postoperative Outcomes. A Population-Based Study Across the English National Health Service, 2009–2014
Cited by: 7
Author(s): Bethany Levick, Alexandra Gilbert, Katie Spencer, Amy Downing, John Taylor, P. J. Finan, David Sebag‐Montefiore, Eva Morris
Software Mentions: 5
Published: almost 5 years ago

10.1093/conphys/coz101

Does environmental stress affect cortisol biodistribution in freshwater mussels?
Cited by: 3
Author(s): Anna Ronja Dorothea Binder, Michael W. Pfaffl, Felix Hiltwein, Juergen Geist, Sebastian Beggel
Software Mentions: 5
Published: almost 6 years ago

10.3389/fmicb.2016.02079

Fuerstia marisgermanicae gen. nov., sp. nov., an Unusual Member of the Phylum Planctomycetes from the German Wadden Sea
Cited by: 49
Author(s): Timo Kohn, Anja Heuer, Mareike Jogler, John Vollmers, Christian Boedeker, Boyke Bunk, Patrick Rast, Daniela Borchert, Ines Glöckner, Heike M. Freese, Hans‐Peter Klenk, Jörg Overmann, Anne‐Kristin Kaster, Manfred Rohde, Sandra Wiegand, Christian Jogler
Software Mentions: 5
Published: almost 8 years ago

10.3390/ma14102543

Application of Selective Induction Heating for Improvement of Mechanical Properties of Elastic Hinges
Cited by: 5
Author(s): Paweł Muszyński, Przemysław Poszwa, Andrzej Gessner, Krzysztof Mrozek
Software Mentions: 5
Published: over 3 years ago

10.1155/2015/469675

Effects of Diagnostic Errors in Pattern Differentiation and Acupuncture Prescription: A Single-Blinded, Interrater Agreement Study
Cited by: 3
Author(s): Ingrid Jardim de Azeredo Souza Oliveira, Arthur de Sá Ferreira
Software Mentions: 5
Published: almost 10 years ago

10.1186/s40064-015-1609-z

Structural homology guided alignment of cysteine rich proteins
Cited by: 16
Author(s): Thomas Shafee, Andrew Robinson, Nicole. Van Der Weerden, Marilyn A. Anderson
Software Mentions: 5
Published: almost 9 years ago

10.1111/gcb.15548

Systemic effects of rising atmospheric vapor pressure deficit on plant physiology and productivity
Cited by: 74
Author(s): José R. López, Danielle A. Way, Walid Sadok
Software Mentions: 5
Published: almost 4 years ago

10.1002/ece3.7098

Complex postbreeding molt strategies in a songbird migrating along the East Asian Flyway, the Pallas’s Grasshopper Warbler <i>Locustella certhiola</i>
Cited by: 5
Author(s): Hans‐Jürgen Eilts, Nele Feuerbach, Philip D. Round, O. V. Bourski, John A Allcock, Paul J. Leader, Batmunkh Davaasuren, Tuvshinjargal Erdenechimeg, Jong‐Gil Park, Wieland Heim
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pone.0154712

Stimulation of the Salicylic Acid Pathway Aboveground Recruits Entomopathogenic Nematodes Belowground
Cited by: 21
Author(s): Camila C. Filgueiras, Denis S. Willett, Alcides Moino, Martín Pareja, Fahiem El Borai, D. W. Dickson, Lukasz L. Stelinski, Larry W. Duncan
Software Mentions: 5
Published: over 8 years ago

10.3390/v10100576

Gene Gangs of the Chloroviruses: Conserved Clusters of Collinear Monocistronic Genes
Cited by: 10
Author(s): Phillip Seitzer, Adrien Jeanniard, Fangrui Ma, James L. Van Etten, Marc T. Facciotti, David D. Dunigan
Software Mentions: 4
Published: about 6 years ago

10.3390/metabo7030034

Natural Product Discovery Using Planes of Principal Component Analysis in R (PoPCAR)
Cited by: 22
Author(s): Shaurya Chanana, Chris S. Thomas, D. C. Braun, Yunfei Hou, Thomas P. Wyche, Tim S. Bugni
Software Mentions: 4
Published: over 7 years ago

10.12688/wellcomeopenres.15232.2

Genome-wide CRISPR screening identifies new regulators of glycoprotein secretion
Cited by: 2
Author(s): Stephanie Popa, Julien Villeneuve, Sarah E. Stewart, Esther Perez Garcia, Anna Petrunkina Harrison, Kévin Moreau
Software Mentions: 4
Published: almost 5 years ago

10.7717/peerj.3340

Effects of knee sleeves on coordination of lower-limb segments in healthy adults during level walking and one-leg hopping
Cited by: 3
Author(s): Chang-Yong Ko, Yun Hee Chang, Bora Jeong, Sungjae Kang, Jeicheong Ryu, Gyoosuk Kim
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pone.0251309

Dental wear patterns reveal dietary ecology and season of death in a historical chimpanzee population
Cited by: 5
Author(s): Julia Stuhlträger, Ellen Schulz‐Kornas, Ottmar Kullmer, Marcel M. Janocha, Roman M. Wittig, Kornelius Kupczik
Software Mentions: 4
Published: over 3 years ago

10.1002/ece3.2048

Tooth wear patterns in black rats ( <i>Rattus rattus</i> ) of Madagascar differ more in relation to human impact than to differences in natural habitats
Cited by: 23
Author(s): Daniela Winkler, Tolona H. Andrianasolo, Laza N. Andriamandimbiarisoa, Jörg U. Ganzhorn, S. Jacques Rakotondranary, Thomas M. Kaiser, Ellen Schulz‐Kornas
Software Mentions: 4
Published: almost 9 years ago

10.3390/insects9040150

Evaluating an Alleged Mimic of the Monarch Butterfly: Neophasia (Lepidoptera: Pieridae) Butterflies are Palatable to Avian Predators
Cited by: 4
Author(s): Dale A. Halbritter, Johnalyn M. Gordon, Kandy L. Keacher, Michael L. Avery, Jaret C. Daniels
Software Mentions: 4
Published: about 6 years ago

10.1186/s12986-018-0309-4

Bariatric surgery reduces CD36-bearing microvesicles of endothelial and monocyte origin
Cited by: 9
Author(s): Jaco Botha, Mads Nielsen, Maja Høegh Christensen, Henrik Vestergaard, Aase Handberg
Software Mentions: 4
Published: about 6 years ago

10.12688/f1000research.23847.2

Citations and metrics of journals discontinued from Scopus for publication concerns: the GhoS(t)copus Project
Cited by: 11
Author(s): Andrea Cortegiani, Mariachiara Ippolito, Giulia Ingoglia, Andrea Manca, Lucia Cugusi, Anna Severin, Michaela Strinzel, Vera Panzarella, Giuseppina Campisi, Manoj M Lalu, Cesare Gregoretti, Sharon Einav, David Moher, Antonino Giarratano
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pone.0162678

Population-Area Relationship for Medieval European Cities
Cited by: 60
Author(s): Rudolf Cesaretti, José Lobo, Luís M. A. Bettencourt, Scott G. Ortman, Michael E. Smith
Software Mentions: 3
Published: about 8 years ago

10.1371/journal.pone.0080921

Detecting Inter-Cusp and Inter-Tooth Wear Patterns in Rhinocerotids
Cited by: 41
Author(s): Lucy A. Taylor, Thomas M. Kaiser, Christoph Schwitzer, Dennis Müller, Daryl Codron, Marcus Clauss, Ellen Schulz
Software Mentions: 3
Published: about 11 years ago

10.1093/gigascience/giy047

SILAC-based phosphoproteomics reveals new PP2A-Cdc55-regulated processes in budding yeast
Cited by: 21
Author(s): Bàrbara Baró, Soraya Játiva, Inés Calabria, Judith Vinaixa, Joan Josep Bech-Serra, Carolina de LaTorre, João P. G. L. M. Rodrigues, María Luisa Hernáez, Concha Gil, Sílvia Barceló-Batllori, Martin R. Larsen, Ethel Queralt
Software Mentions: 3
Published: over 6 years ago

10.1038/srep13099

Label-free quantitative phosphoproteomics with novel pairwise abundance normalization reveals synergistic RAS and CIP2A signaling
Cited by: 48
Author(s): Otto Kauko, Teemu D. Laajala, Mikael Jumppanen, Petteri Hintsanen, Veronika Suni, Pekka Haapaniemi, Garry L. Corthals, Tero Aittokallio, Jukka Westermarck, Susumu Y. Imanishi
Software Mentions: 3
Published: over 9 years ago

10.1038/srep43486

Monitoring of dynamic changes in Keyhole Limpet Hemocyanin (KLH)-specific B cells in KLH-vaccinated cancer patients
Cited by: 16
Author(s): Florian Wimmers, Nienke de Haas, Anja Scholzen, Gerty Schreibelt, Elles Simonetti, Marc J. Eleveld, Huberdina M. L. M. Brouwers, Marjo Beldhuis-Valkis, Irma Joosten, Marien I. de Jonge, Winald R. Gerritsen, I. Jolanda M. de Vries, Dimitri A. Diavatopoulos, Joannes F M Jacobs
Software Mentions: 3
Published: almost 8 years ago

10.12688/wellcomeopenres.15403.2

Pathogenic FAM83G palmoplantar keratoderma mutations inhibit the PAWS1:CK1α association and attenuate Wnt signalling.
Cited by: 4
Author(s): Kevin Z. L. Wu, Rebecca A. Jones, Theresa Tachie-Menson, Thomas Macartney, Nicola T. Wood, Joby Varghese, Robert Gourlay, Renata Soares, James C. Smith, Gopal P. Sapkota
Software Mentions: 3
Published: almost 5 years ago

10.1038/s41598-017-15363-z

LPPtiger software for lipidome-specific prediction and identification of oxidized phospholipids from LC-MS datasets
Cited by: 45
Author(s): Zhixu Ni, Georgia Angelidou, Ralf Hoffmann, Maria Fedorova
Software Mentions: 3
Published: about 7 years ago

10.1074/mcp.RA118.001288

Analysis of 1508 Plasma Samples by Capillary-Flow Data-Independent Acquisition Profiles Proteomics of Weight Loss and Maintenance
Cited by: 133
Author(s): Roland Bruderer, Jan Muntel, Sebastian Müller, Oliver M. Bernhardt, Tejas Gandhi, Ornella Cominetti, Charlotte Macron, Jérôme Carayol, Oliver Rinner, Arne Astrup, Wim H. M. Saris, Jörg Hager, Armand Valsesia, Loïc Dayon, Lukas Reiter
Software Mentions: 3
Published: over 5 years ago

10.1016/j.mec.2019.e00120

Evaluation of freely available software tools for untargeted quantification of 13C isotopic enrichment in cellular metabolome from HR-LC/MS data
Cited by: 5
Author(s): Manohar C. Dange, Vivek Mishra, Bratati Mukherjee, Damini Jaiswal, Murtaza S. Merchant, Charulata B. Prasannan, Pramod P. Wangikar
Software Mentions: 3
Published: over 4 years ago

10.1186/s12870-020-02816-3

Characterization and functional analysis of phytoene synthase gene family in tobacco
Cited by: 15
Author(s): Zhaojun Wang, Lin Zhang, Chen Dong, Jinggong Guo, Lifeng Jin, Wei Pan, Liang Feng, Xiaoquan Zhang, Ran Wang
Software Mentions: 3
Published: almost 4 years ago

10.1186/1471-2180-9-255

Proteome analysis of Aspergillus niger: Lactate added in starch-containing medium can increase production of the mycotoxin fumonisin B2 by modifying acetyl-CoA metabolism
Cited by: 50
Author(s): Louise Marie Sørensen, René Lametsch, Mikael Rørdam Andersen, Per Væggemose Nielsen, Jens Christian Frisvad
Software Mentions: 3
Published: almost 16 years ago

10.3390/ijms21249600

Increased miR-142 Levels in Plasma and Atherosclerotic Plaques from Peripheral Artery Disease Patients with Post-Surgery Cardiovascular Events
Cited by: 11
Author(s): Teodora Barbălată, Oriana E Moraru, Camelia S. Stancu, Yvan Devaux, Maya Simionescu, Anca V. Sima, Loredan S. Niculescu
Software Mentions: 3
Published: about 4 years ago

10.1152/physiolgenomics.00103.2017

<i>TRIM63</i> (MuRF-1) gene polymorphism is associated with biomarkers of exercise-induced muscle damage
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Author(s): Philipp Baumert, Mark Lake, Barry Drust, Claire E. Stewart, Robert M. Erskine
Software Mentions: 2
Published: almost 7 years ago

10.12688/wellcomeopenres.16322.1

Integrative vectors for regulated expression of SARS-CoV-2 proteins implicated in RNA metabolism
Cited by: 0
Author(s): Stefan Bresson, Nicholas Robertson, Emanuela Sani, Tomasz W. Turowski, Vadim Shchepachev, Michaela Kompauerova, Christos Spanos, Aleksandra Helwak, David Tollervey
Software Mentions: 2
Published: about 4 years ago

10.1038/sdata.2017.178

Mountain hare transcriptome and diagnostic markers as resources to monitor hybridization with European hares
Cited by: 9
Author(s): João Pedro Marques, Mafalda S. Ferreira, Liliana Farelo, Colin M. Callahan, Klaus Hackländer, Hannes Jenny, W. Ian Montgomery, Neil Reid, Jeffrey M. Good, Paulo C. Alves, José Melo‐Ferreira
Software Mentions: 2
Published: about 7 years ago

10.1186/s40349-016-0051-1

Equipment, measurement and dose—a survey for therapeutic ultrasound
Cited by: 13
Author(s): Adam Shaw, Eleanor Martin, Julian Haller, Gail ter Haar
Software Mentions: 2
Published: almost 9 years ago

10.12688/f1000research.19308.2

Interleukin-1 receptor antagonist treatment in acute ischaemic stroke does not alter systemic markers of anti-microbial defence
Cited by: 6
Author(s): Laura McCulloch, Stuart M. Allan, Hedley Emsley, Craig J. Smith, Barry W. McColl
Software Mentions: 2
Published: about 5 years ago

10.7554/eLife.27566

Dopamine neuron dependent behaviors mediated by glutamate cotransmission
Cited by: 40
Author(s): Susana Mingote, Nao Chuhma, Abigail Kalmbach, Gretchen M. Thomsen, Yvonne Wang, Andra Mihali, Caroline E. Sferrazza, Ilana Zucker-Scharff, Anna-Claire Siena, Martha G. Welch, José E. Lizardi-Ortiz, David Sulzer, Holly Moore, Inna Gaisler‐Salomon, Stephen Rayport
Software Mentions: 2
Published: over 7 years ago

10.12688/f1000research.19341.4

The diversity of Anopheles blood feeding patterns suggests different malaria protection strategies in different localities
Cited by: 0
Author(s): Irfanul Chakim, Tepanata Pumpaibool
Software Mentions: 2
Published: about 4 years ago

10.1186/s12913-020-05494-x

Drug switching in the Netherlands: a cohort study of 20 active substances
Cited by: 8
Author(s): Pieter J. Glerum, Marc Maliepaard, Vincent de Valk, David M. Burger, Kees Neef
Software Mentions: 2
Published: over 4 years ago

10.3390/diagnostics11010086

Analyzing Neck Circumference as an Indicator of CPAP Treatment Response in Obstructive Sleep Apnea with Network Medicine
Cited by: 4
Author(s): Ştefan Mihăicuţă, Lucreţia Udrescu, Mihai Udrescu, Izabella-Anita Toth, Alexandru Topîrceanu, Roxana Pleavă, Carmen Ardelean
Software Mentions: 2
Published: almost 4 years ago

10.1016/j.dib.2015.07.012

Dataset for the validation and use of DiameterJ an open source nanofiber diameter measurement tool
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Author(s): Nathan Hotaling, Kapil Bharti, Haydn Kriel, Carl G. Simon
Software Mentions: 2
Published: about 9 years ago

10.1016/j.dib.2019.104984

Source code, input data, and sample output concerning the application of multistate density functional theory to the singdoublet and tripdoublet states of the ethylene cation
Cited by: 1
Author(s): Likun Yang, Adam Grofe, Jeffrey R. Reimers, Jiali Gao
Software Mentions: 2
Published: almost 5 years ago

10.1098/rsif.2021.0184

Quantifying biologically essential aspects of environmental light
Cited by: 24
Author(s): Dan-Eric Nilsson, Jochen Smolka
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0097922

Reconciling Pesticide Reduction with Economic and Environmental Sustainability in Arable Farming
Cited by: 111
Author(s): Martin Lechenet, Vincent Bretagnolle, Christian Bockstaller, François Boissinot, Marie-Sophie Petit, Sandrine Petit, Nicolas Munier‐Jolain
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0163644

Rapid Increase in Serum Low-Density Lipoprotein Cholesterol Concentration during Hepatitis C Interferon-Free Treatment
Cited by: 75
Author(s): Satoru Hashimoto, Hiroshi Yatsuhashi, Seigo Abiru, Kazumi Yamasaki, Atsumasa Komori, Shinya Nagaoka, Akira Saeki, Shinjiro Uchida, Shigemune Bekki, Yuki Kugiyama, Kazuyoshi Nagata, Minoru Nakamura, Kiyoshi Migita, Kazuwa Nakao
Software Mentions: 2
Published: about 8 years ago

10.3390/ma14061390

Designing the Composition of Cement-Stabilized Rammed Earth with the Association Analysis Application
Cited by: 4
Author(s): Wojciech Rogala, Piotr Narloch
Software Mentions: 2
Published: almost 4 years ago

10.1371/journal.pntd.0008634

The environmental drivers of bacterial meningitis epidemics in the Democratic Republic of Congo, central Africa
Cited by: 12
Author(s): Serge Mazamay, Hélène Broutin, Didier Bompangue, Jean-Jacques Muyembe, Jean‐François Guégan
Software Mentions: 2
Published: about 4 years ago

10.1186/1742-9994-10-18

Phylostratigraphic profiles reveal a deep evolutionary history of the vertebrate head sensory systems
Cited by: 33
Author(s): Martin Sebastijan Šestak, Vedran Božičević, Robert Bakarić, Vedran Dunjko, Tomislav Domazet-Lošo
Software Mentions: 2
Published: over 11 years ago

10.1186/s13104-019-4343-8

Human protein-coding genes and gene feature statistics in 2019
Cited by: 98
Author(s): Allison Piovesan, Francesca Antonaros, Lorenza Vitale, Pierluigi Strippoli, Maria Chiara Pelleri, Maria Caracausi
Software Mentions: 2
Published: over 5 years ago

10.1152/physiolgenomics.00085.2017

Attempted replication of SNPs in RANKL and OPG with musculoskeletal adverse events during aromatase inhibitor treatment for breast cancer
Cited by: 4
Author(s): Jacqueline M Dempsey, Jingyue Xi, Norah Lynn Henry, James M. Rae, Daniel L Hertz
Software Mentions: 2
Published: almost 7 years ago

10.1186/1471-2164-15-797

Muscle transcriptomic investigation of late fetal development identifies candidate genes for piglet maturity
Cited by: 26
Author(s): Valentin Voillet, Magali SanCristobal, Yannick Lippi, Pascal G.P. Martin, Nathalie Iannuccelli, Christine Lascor, Florence Vignoles, Yvon Billon, Laurianne Canario, Laurence Liaubet
Software Mentions: 2
Published: over 10 years ago