10.7554/eLife.59654

HNRNPM controls circRNA biogenesis and splicing fidelity to sustain cancer cell fitness
Cited by: 19
Author(s): Jessica Sy Ho, Federico Di Tullio, Megan Schwarz, Diana Low, Danny Incarnato, Tommaso Tabaglio, Jingxian Zhang, Heike Wollmann, Leilei Chen, Ömer An, Tim Chan, Alexander Hall Hickman, Simin Zheng, Vladimir Roudko, Sujun Chen, Alcida Karz, Musaddeque Ahmed, Housheng Hansen He, Benjamin Greenbaum, Salvatore Oliviero, Michela Serresi, Gaetano Gargiulo, Karen Mann, Eva Hernando, David J. Mulholland, Ivan Marazzi, Dave Keng Boon Wee, Ernesto Guccione
Software Mentions: 7
Published: about 5 years ago

10.2196/15554

Longitudinal Study of the Variation in Patient Turnover and Patient-to-Nurse Ratio: Descriptive Analysis of a Swiss University Hospital
Cited by: 11
Author(s): Sarah N. Musy, Olga Endrich, Alexander Benedikt Leichtle, Peter Griffiths, Christos T. Nakas, Michaël Simon
Software Mentions: 7
Published: about 6 years ago

10.1038/s41598-017-16050-9

Computational derivation of a molecular framework for hair follicle biology from disease genes
Cited by: 4
Author(s): Rachel K. Severin, Xinwei Li, Kun Qian, Andreas Mueller, Lynn Petukhova
Software Mentions: 7
Published: over 8 years ago

10.1007/s10841-021-00327-6

Consistent oviposition preferences of the Duke of Burgundy butterfly over 14 years on a chalk grassland reserve in Bedfordshire, UK
Cited by: 0
Author(s): Matthew Hayes, Esme Ashe‐Jepson, GE Hitchcock, Richard Knock, Cbh Lucas, Andrew J. Bladon, Edgar C. Turner
Software Mentions: 7
Published: about 5 years ago

10.1186/s12879-016-1475-5

DotMapper: an open source tool for creating interactive disease point maps
Cited by: 17
Author(s): Catherine M. Smith, Andrew Hayward
Software Mentions: 7
Published: about 10 years ago

10.1038/s41598-018-29373-y

Experimentally induced metamorphosis in highly regenerative axolotl (ambystoma mexicanum) under constant diet restructures microbiota
Cited by: 25
Author(s): Turan Demircan, Guvanch Ovezmyradov, Berna Yıldırım, İlknur Keskin, Ayşe Elif İlhan, Ece Cana Fesçioğlu, Gürkan Öztürk, Süleyman Yıldırım
Software Mentions: 7
Published: almost 8 years ago

10.7554/eLife.56689

Genome streamlining in a minute herbivore that manipulates its host plant
Cited by: 30
Author(s): Robert Greenhalgh, Wannes Dermauw, Joris J. Glas, Stéphane Rombauts, Nicky Wybouw, Jainy Thomas, Juan M. Alba, Ellen J. Pritham, Saioa Legarrea, René Feyereisen, Yves Van de Peer, Thomas Van Leeuwen, Richard M. Clark, Merijn R. Kant
Software Mentions: 7
Published: over 5 years ago

10.3389/fonc.2021.626961

Identification of Stemness Characteristics Associated With the Immune Microenvironment and Prognosis in Gastric Cancer
Cited by: 15
Author(s): Deli Mao, Zhijun Zhou, Shenglei Song, Dongsheng Li, Yulong He, Zhewei Wei, Changhua Zhang
Software Mentions: 7
Published: over 5 years ago

10.3389/fcell.2021.648279

Prognostic Value of a Novel Signature With Nine Hepatitis C Virus-Induced Genes in Hepatic Cancer by Mining GEO and TCGA Databases
Cited by: 5
Author(s): Jianming Wei, Bo Wang, Xibo Gao, Daqing Sun
Software Mentions: 7
Published: almost 5 years ago

10.1038/s41598-020-63565-9

Environmental DNA survey captures patterns of fish and invertebrate diversity across a tropical seascape
Cited by: 36
Author(s): Bryan Nguyen, Elaine W. Shen, Janina Seemann, Adrienne M. S. Correa, James L. O’Donnell, Andrew H. Altieri, Nancy­ Knowlton­, Keith A. Crandall, Scott P. Egan, W. Owen McMillan, Matthieu Leray
Software Mentions: 7
Published: about 6 years ago

10.1186/s12885-020-6565-5

Development and validation of a preoperative nomogram for predicting survival of patients with locally advanced prostate cancer after radical prostatectomy
Cited by: 12
Author(s): Xianghong Zhou, Qingyang Ning, Kun Jin, Tao Zhang, Xuelei Ma
Software Mentions: 7
Published: over 6 years ago

10.1093/bfgp/elx018

Epigenetic regulation of gene expression in cancer: techniques, resources and analysis
Cited by: 91
Author(s): Luciane T. Kagohara, Genevieve Stein-O’Brien, Dylan Z. Kelley, Emily Flam, Heather C. Wick, Ludmila Danilova, Hariharan Easwaran, Alexander V. Favorov, Jiang Qian, Daria A. Gaykalova, Elana J. Fertig
Software Mentions: 7
Published: almost 9 years ago

10.1534/g3.117.300479

Multivariate Analysis of the Cotton Seed Ionome Reveals a Shared Genetic Architecture
Cited by: 13
Author(s): Duke Pauli, Gregory R. Ziegler, Min Ren, Matthew A. Jenks, Douglas J. Hunsaker, Min Zhang, Ivan Baxter, Michael A. Gore
Software Mentions: 7
Published: about 8 years ago

10.1038/s41597-019-0207-2

Compendiums of cancer transcriptomes for machine learning applications
Cited by: 13
Author(s): Su Bin Lim, Swee Jin Tan, Wan-Teck Lim, Chwee Teck Lim
Software Mentions: 7
Published: over 6 years ago

10.3389/fvets.2020.580523

The Influence of Predictability and Controllability on Stress Responses to the Aversive Component of a Virtual Fence
Cited by: 16
Author(s): Tellisa Kearton, Danila Marini, Frances Cowley, Sue Belson, Hamideh Keshavarzi, Bonnie T. Mayes, Lee C
Software Mentions: 7
Published: over 5 years ago

10.3389/fgene.2021.635863

Identification and Validation of a Novel DNA Damage and DNA Repair Related Genes Based Signature for Colon Cancer Prognosis
Cited by: 16
Author(s): Xuequan Wang, Shiwen Xu, Wei Wang, Shang Guo Piao, Xin-Li Mao, Xian-Bin Zhou, Yi Wang, Weidan Wu, Liping Ye, Shaowei Li
Software Mentions: 7
Published: over 5 years ago

10.3389/fvets.2020.00214

Cultural “Blind Spots,” Social Influence and the Welfare of Working Donkeys in Brick Kilns in Northern India
Cited by: 16
Author(s): Tamlin Watson, Laura M Kubasiewicz, Natasha Chamberlain, Caroline Nye, Zoe Raw, Faith Burden
Software Mentions: 7
Published: about 6 years ago

10.3389/fgene.2021.739470

Construction on of a Ferroptosis-Related lncRNA-Based Model to Improve the Prognostic Evaluation of Gastric Cancer Patients Based on Bioinformatics
Cited by: 19
Author(s): Jing Pan, Xinyue Zhang, Xuedong Fang, Zhuoyuan Xin
Software Mentions: 7
Published: almost 5 years ago

10.1098/rsos.170073

Predictors and immunological correlates of sublethal mercury exposure in vampire bats
Cited by: 44
Author(s): Daniel J. Becker, Matthew M. Chumchal, Alexandra B. Bentz, Steven G. Platt, Gábor Á. Czirják, Thomas R. Rainwater, Sonia Altizer, Daniel G. Streicker
Software Mentions: 7
Published: about 9 years ago

10.1186/s13059-020-1945-3

Protein velocity and acceleration from single-cell multiomics experiments
Cited by: 43
Author(s): Gennady Gorin, Valentine Svensson, Lior Pachter
Software Mentions: 7
Published: over 6 years ago

10.3390/plants10010029

Factors Influencing Genomic Prediction Accuracies of Tropical Maize Resistance to Fall Armyworm and Weevils
Cited by: 6
Author(s): Arfang Badji, Lewis Machida, Daniel Bomet Kwemoi, Frank Kumi, Dennis Okii, Natasha Mwila, Symphorien Agbahoungba, Angele Ibanda, Astère Bararyenya, Selma Ndapewa Nghituwamhata, Thomas Odong, Peter Wasswa, Michael Otim, Mildred Ochwo-Ssemakula, Herbert Talwana, Godfrey Asea, Samuel Kyamanywa, Patrick Rubaihayo
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.pone.0179557

Plio-Pleistocene phylogeography of the Southeast Asian Blue Panchax killifish, Aplocheilus panchax
Cited by: 21
Author(s): Samantha V. Beck, Gary R. Carvalho, Axel Barlow, Lukas Rüber, Heok Hui Tan, Estu Nugroho, Daisy Wowor, Siti Azizah Mohd Nor, Fabian Herder, Zainal A. Muchlisin, Mark de Bruyn
Software Mentions: 7
Published: almost 9 years ago

10.3389/fphar.2021.688528

Explore the Usefulness of Concurrent Chemotherapy in Stage II Nasopharyngeal Carcinoma: A Retrospective Study
Cited by: 3
Author(s): Peijing Li, YuLin Lai, Fang He, Yuan-Yuan Chen, Zhuo‐Sheng Gu, Wei Luo, Qun Zhang
Software Mentions: 7
Published: almost 5 years ago

10.3389/fnmol.2018.00225

NFIX Circular RNA Promotes Glioma Progression by Regulating miR-34a-5p via Notch Signaling Pathway
Cited by: 86
Author(s): Haidong Xu, Yu Zhang, Qi Ling, Lijuan Ding, Hong Jiang, Haojun Yu
Software Mentions: 7
Published: almost 8 years ago

10.7717/peerj.11430

Identification of Vitamin D-related gene signature to predict colorectal cancer prognosis
Cited by: 1
Author(s): Luping Bu, Fengxing Huang, Mengting Li, Yanan Peng, Haizhou Wang, Meng Zhang, Linfa Peng, Lan Liu, Qiu Zhao
Software Mentions: 7
Published: about 5 years ago

10.1371/journal.pntd.0006035

Drivers of house invasion by sylvatic Chagas disease vectors in the Amazon-Cerrado transition: A multi-year, state-wide assessment of municipality-aggregated surveillance data
Cited by: 34
Author(s): Raíssa N. Brito, David Eladio Gorla, Liléia Diotaiuti, Anália Celencina Fagundes Gomes, Rita C. M. Souza, Fernando Abad‐Franch
Software Mentions: 7
Published: over 8 years ago

10.1371/journal.pmed.1002699

Deep-learning-assisted diagnosis for knee magnetic resonance imaging: Development and retrospective validation of MRNet
Cited by: 385
Author(s): Nicholas Bien, Pranav Rajpurkar, Robyn L. Ball, Jeremy Irvin, Allison Park, Erik Jones, Michael Bereket, Bhavik N. Patel, Kristen W. Yeom, Katie Shpanskaya, Safwan Halabi, Evan J. Zucker, Gary S. Fanton, Derek F. Amanatullah, Christopher F. Beaulieu, Geoffrey M. Riley, Russell J. Stewart, Francis G. Blankenberg, David B. Larson, Ricky Jones, Curtis P. Langlotz, Andrew Y. Ng, Matthew P. Lungren
Software Mentions: 7
Published: over 7 years ago

10.1371/journal.pone.0155826

Elevational Distribution of Flightless Ground Beetles in the Tropical Rainforests of North-Eastern Australia
Cited by: 10
Author(s): Kyran M. Staunton, Akihiro Nakamura, Chris J. Burwell, Simon K. A. Robson, Stephen E. Williams
Software Mentions: 7
Published: about 10 years ago

10.1002/ece3.3242

Using digital soil maps to infer edaphic affinities of plant species in Amazonia: Problems and prospects
Cited by: 29
Author(s): Gabriel M. Moulatlet, Gabriela Zuquim, Fernando O. G. Figueiredo, Samuli Lehtonen, Thaíse Emilio, Kalle Ruokolainen, Hanna Tuomisto
Software Mentions: 7
Published: almost 9 years ago

10.3389/fcimb.2021.604129

Using scRNA-seq to Identify Transcriptional Variation in the Malaria Parasite Ookinete Stage
Cited by: 6
Author(s): Kathrin Witmer, Farah A. Dahalan, Tom Metcalf, Arthur M. Talman, Virginia M. Howick, Mara K. N. Lawniczak
Software Mentions: 7
Published: over 5 years ago

10.3390/ani11061835

An Investigation into the Influence of Different Types of Nesting Materials upon the Welfare of Captive Chimpanzees (Pan troglodytes)
Cited by: 2
Author(s): N. Anderson, Bala Amarasekaran, David Riba
Software Mentions: 7
Published: about 5 years ago

10.1186/s12935-020-01382-w

Establishment and validation of a novel nomogram incorporating clinicopathological parameters into the TNM staging system to predict prognosis for stage II colorectal cancer
Cited by: 15
Author(s): Shaobo Mo, Zheng Zhou, Yaqi Li, Xiang Hu, Xiaolong Ma, Long Zhang, Sanjun Cai, Junjie Peng
Software Mentions: 7
Published: almost 6 years ago

10.3897/CompCytogen.11(2).11395

The Cerrado (Brazil) plant cytogenetics database
Cited by: 6
Author(s): Fernando Roa, Mariana Pires de Campos Telles
Software Mentions: 7
Published: about 9 years ago

10.1186/s12859-016-0970-4

MetICA: independent component analysis for high-resolution mass-spectrometry based non-targeted metabolomics
Cited by: 22
Author(s): Youzhong Liu, Kirill S. Smirnov, Marianna Lucio, Régis D. Gougeon, Hervé Alexandre, Philippe Schmitt‐Kopplin
Software Mentions: 7
Published: over 10 years ago

10.1038/s42003-020-01626-5

Mash-based analyses of Escherichia coli genomes reveal 14 distinct phylogroups
Cited by: 44
Author(s): Kaleb Z. Abram, Zulema Udaondo, Carissa Bleker, Visanu Wanchai, Trudy M. Wassenaar, Michael S. Robeson, David W. Ussery
Software Mentions: 7
Published: over 5 years ago

10.1525/collabra.116

Individual Importance Weighting of Domain Satisfaction Ratings does Not Increase Validity
Cited by: 21
Author(s): Julia M. Rohrer, Stefan C. Schmukle
Software Mentions: 7
Published: over 8 years ago

10.1155/2021/5538643

A Network Pharmacology and Molecular Docking Strategy to Explore Potential Targets and Mechanisms Underlying the Effect of Curcumin on Osteonecrosis of the Femoral Head in Systemic Lupus Erythematosus
Cited by: 4
Author(s): Pan Kang, Zhigen Wu, Yue Zhong, Zihao Wang, Chi Zhou, Shaochuan Huo, Hai Bin Guo, Songtao Li, Kun Xu, Ling-yun Liu, Shuai Chen, Hong-Yu Tang, Haibin Wang
Software Mentions: 7
Published: almost 5 years ago

10.1093/database/baw160

FirebrowseR: an R client to the Broad Institute’s Firehose Pipeline
Cited by: 123
Author(s): Mario C. Deng, Johannes Brägelmann, Ivan Kryukov, Nuno Saraiva-Agostinho, Sven Perner
Software Mentions: 7
Published: over 9 years ago

10.1186/s12859-020-03652-w

SpectralTAD: an R package for defining a hierarchy of topologically associated domains using spectral clustering
Cited by: 22
Author(s): Kellen Garrison Cresswell, John C. Stansfield, Mikhail G. Dozmorov
Software Mentions: 7
Published: almost 6 years ago

10.1186/s12864-017-4268-3

GHOST: global hepatitis outbreak and surveillance technology
Cited by: 32
Author(s): Atkinson G. Longmire, Seth Sims, Inna Rytsareva, David S. Campo, Pavel Skums, Zoya Dimitrova, Sumathi Ramachandran, Magdalena Medrzycki, Hong Thai, Lilia Ganova-Raeva, Yulin Lin, Lili Punkova, Amanda Sue, Massimo Mirabito, Silver Wang, Robin Tracy, Victor Bolet, Thom Sukalac, Chris Lynberg, Yury Khudyakov
Software Mentions: 7
Published: over 8 years ago

10.3389/fphar.2020.00076

Efficacy of Chinese Herbal Formula Sini Zuojin Decoction in Treating Gastroesophageal Reflux Disease: Clinical Evidence and Potential Mechanisms
Cited by: 10
Author(s): Shaowei Li, Mengfen Huang, Guojing Wu, Wei-Han Huang, Zhanhui Huang, Xiaoqian Yang, Jinming Ou, Qipeng Wei, Chengli Liu, YU Shaoyuan
Software Mentions: 7
Published: over 6 years ago

10.3389/fpls.2021.684192

Agrobacterium VirE2 Protein Modulates Plant Gene Expression and Mediates Transformation From Its Location Outside the Nucleus
Cited by: 7
Author(s): Rachelle A. Lapham, Lan‐Ying Lee, Eder Xhako, Esteban Gañán Gómez, V. M. Nivya, Stanton B. Gelvin
Software Mentions: 7
Published: about 5 years ago

10.1038/s41598-020-70967-2

Transcriptomics uncovers substantial variability associated with alterations in manufacturing processes of macrophage cell therapy products
Cited by: 14
Author(s): Olga L. Gurvich, Katja A. Puttonen, Aubrey Bailey, Anssi Kailaanmäki, Vita Skirdenko, Minna Sivonen, Sanna Pietikäinen, Nigel R. Parker, Seppo Ylä‐Herttuala, Tuija Kekarainen
Software Mentions: 7
Published: almost 6 years ago

10.15252/msb.20188689

Defining the <scp>RNA</scp> interactome by total <scp>RNA</scp> ‐associated protein purification
Cited by: 103
Author(s): Vadim Shchepachev, Stefan Bresson, Christos Spanos, Elisabeth Petfalski, Lutz Fischer, Juri Rappsilber, David Tollervey
Software Mentions: 7
Published: about 7 years ago

10.3389/fonc.2020.614487

Distinguishable Prognostic miRNA Signatures of Head and Neck Squamous Cell Cancer With or Without HPV Infection
Cited by: 10
Author(s): Xinmei Luo, Min Zheng, Mingxin Cao, Weilong Zhang, Mengyuan Huang, Li Dai, Yaling Tang, Xin‐hua Liang
Software Mentions: 7
Published: over 5 years ago

10.3390/microorganisms8101528

Metabolic Response of Faecalibacterium prausnitzii to Cell-Free Supernatants from Lactic Acid Bacteria
Cited by: 14
Author(s): Mathilde Lebas, Peggy Garault, Daniel Carrillo, Francisco M. Codoñer, Muriel Derrien
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.pone.0205076

Non-significant p-values? Strategies to understand and better determine the importance of effects and interactions in logistic regression
Cited by: 25
Author(s): Zarina I. Vakhitova, Clair Alston-Knox
Software Mentions: 7
Published: over 7 years ago

10.1186/s12859-018-2074-9

BpWrapper: BioPerl-based sequence and tree utilities for rapid prototyping of bioinformatics pipelines
Cited by: 11
Author(s): Yözen Hernández, Rocky Bernstein, Pedro Pagan, Levy C. Vargas, William D. McCaig, Girish Ramrattan, Saymon Akther, Amanda M. Larracuente, Lia Di, Filipe Garrett Vieira, Wang Qiu
Software Mentions: 7
Published: over 8 years ago

10.3389/fnsys.2021.692152

Age-Related Variations in Regional White Matter Volumetry and Microstructure During the Post-adolescence Period: A Cross-Sectional Study of a Cohort of 1,713 University Students
Cited by: 4
Author(s): Ami Tsuchida, Alexandre Laurent, Fabrice Crivello, Laurent Petit, Antonietta Pepe, Naka Beguedou, Stéphanie Debette, Christophe Tzourio, Bernard Mazoyer
Software Mentions: 7
Published: almost 5 years ago

10.1002/hbm.25449

Neural processing of vision and language in kindergarten is associated with prereading skills and predicts future literacy
Cited by: 9
Author(s): Johanna Liebig, Eva Froehlich, Teresa Sylvester, Mario Braun, Hauke R. Heekeren, Johannes C. Ziegler, Arthur Jacobs
Software Mentions: 7
Published: about 5 years ago

10.3390/genes11020226

Integrative Analysis Identifies Candidate Tumor Microenvironment and Intracellular Signaling Pathways that Define Tumor Heterogeneity in NF1
Cited by: 10
Author(s): Jineta Banerjee, Robert J. Allaway, Jaclyn N. Taroni, Aaron Baker, Xiaochun Zhang, Chang In Moon, Christine A. Pratilas, Jaishri O. Blakeley, Justin Guinney, Angela C. Hirbe, Casey S. Greene
Software Mentions: 7
Published: over 6 years ago

10.26508/lsa.202000897

Tissue-selective alternate promoters guide NLRP6 expression
Cited by: 1
Author(s): Nathan A. Bracey, Jaye M. Platnich, Arthur Lau, Hyunsoo Chung, M. Eric Hyndman, Justin A. MacDonald, Justin Chun, Paul L. Beck, Stephen E. Girardin, Paul M. Gordon, Daniel A. Muruve
Software Mentions: 7
Published: over 5 years ago

10.1007/s10021-018-0275-8

Vertical Redistribution of Soil Organic Carbon Pools After Twenty Years of Nitrogen Addition in Two Temperate Coniferous Forests
Cited by: 21
Author(s): Stefan J. Forstner, Viktoria Wechselberger, Stefanie Müller, Katharina M. Keibinger, Eugenio Díaz‐Pinés, Wolfgang Wanek, Patrick Scheppi, Frank Hagedorn, Per Gundersen, Michael Tatzber, Martin H. Gerzabek, Sophie Zechmeister‐Boltenstern
Software Mentions: 7
Published: about 8 years ago

10.1371/journal.pone.0230767

The design and implementation of restraint devices for the injection of pathogenic microorganisms into Galleria mellonella
Cited by: 8
Author(s): Lance R. Fredericks, Mark D. Lee, Cooper R. Roslund, Angela Crabtree, Peter B. Allen, Paul A. Rowley
Software Mentions: 7
Published: almost 6 years ago

10.1038/s41598-018-32721-7

Termites shape their collective behavioural response based on stage of infection
Cited by: 41
Author(s): Hannah E. Davis, Stefania Meconcelli, Renate Radek, Dino P. McMahon
Software Mentions: 7
Published: almost 8 years ago

10.1002/ece3.5622

Consequences of marine barriers for genetic diversity of the coral‐specialist yellowbar angelfish from the Northwestern Indian Ocean
Cited by: 17
Author(s): Felipe Torquato, Pedro Range, Radhouane Ben‐Hamadou, Eva Egelyng Sigsgaard, Philip Francis Thomsen, Rodrigo Riera, Michael L. Berumen, John A. Burt, David A. Feary, Alyssa Marshell, Daniele D’Agostino, Joseph D. DiBattista, Peter Rask Møller
Software Mentions: 7
Published: almost 7 years ago

10.1186/s12859-021-04049-z

R.ROSETTA: an interpretable machine learning framework
Cited by: 15
Author(s): Mateusz Garbulowski, Klev Diamanti, Karolina Smolińska, Nicholas Baltzer, Patricia Stoll, Susanne Bornelöv, Aleksander Øhrn, Lars Feuk, Jan Komorowski
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.pone.0094246

Winemaking and Bioprocesses Strongly Shaped the Genetic Diversity of the Ubiquitous Yeast Torulaspora delbrueckii
Cited by: 60
Author(s): Warren Albertin, Laura Chasseriaud, Guillaume Comte, Aurélie Panfili, Adline Delcamp, Franck Salin, Philippe Marullo, Marina Bely
Software Mentions: 7
Published: about 12 years ago

10.1186/s12882-018-0995-1

Low agreement between modified-Schwartz and CKD-EPI eGFR in young adults: a retrospective longitudinal cohort study
Cited by: 15
Author(s): Michael Webster‐Clark, Byron C. Jaeger, Yi Zhong, Guido Filler, Ana Catalina Álvarez-Elías, Nora Franceschini, Maria Ferris
Software Mentions: 7
Published: almost 8 years ago

10.1371/journal.pone.0256038

Exogenous corticosterone and melanin-based coloration explain variation in juvenile dispersal behaviour in the barn owl (Tyto alba)
Cited by: 3
Author(s): Bettina Almasi, Carolina Massa, Lukas Jenni, Alexandre Roulin
Software Mentions: 7
Published: almost 5 years ago

10.3390/jcm8112024

Monitoring of Bactericidal Effects of Silver Nanoparticles Based on Protein Signatures and VOC Emissions from Escherichia coli and Selected Salivary Bacteria
Cited by: 11
Author(s): Monedeiro, Pomastowski, Milanowski, Ligor, Buszewski
Software Mentions: 7
Published: over 6 years ago

10.1038/s41598-018-33326-w

Spotlight on islands: on the origin and diversification of an ancient lineage of the Italian wall lizard Podarcis siculus in the western Pontine Islands
Cited by: 11
Author(s): Gabriele Senczuk, Katja Havenstein, Valentina Milana, Chiara Ripa, Emanuela De Simone, Ralph Tiedemann, Riccardo Castiglia
Software Mentions: 7
Published: over 7 years ago

10.1186/s12870-019-1791-1

Size matters: three methods for estimating nuclear size in mycorrhizal roots of Medicago truncatula by image analysis
Cited by: 9
Author(s): Gennaro Carotenuto, Ivan Arcangelo Sciascia, Ludovica Oddi, Veronica Volpe, Andrea Genre
Software Mentions: 7
Published: about 7 years ago

10.1186/s12862-017-0954-7

Phenotypic disparity in Iberian short-horned grasshoppers (Acrididae): the role of ecology and phylogeny
Cited by: 8
Author(s): Vicente García‐Navas, Víctor Noguerales, Pedro J. Cordero, Joaquín Ortego
Software Mentions: 7
Published: about 9 years ago

10.1371/journal.pgen.1006864

Functional convergence of histone methyltransferases EHMT1 and KMT2C involved in intellectual disability and autism spectrum disorder
Cited by: 101
Author(s): Tom S. Koemans, Tjitske Kleefstra, Melissa C. Chubak, Max H. Stone, Margot R.F. Reijnders, Sonja de Munnik, Marjolein H. Willemsen, Michaela Fencková, Connie Stumpel, Levinus A. Bok, Margarita Saenz, Kyna A. Byerly, Linda B. Baughn, Alexander P.A. Stegmann, Rolph Pfundt, Huiqing Zhou, Hans van Bokhoven, Annette Schenck, Jamie M. Kramer
Software Mentions: 7
Published: over 8 years ago

10.1098/rsif.2018.0084

Understanding the ontogeny of foraging behaviour: insights from combining marine predator bio-logging with satellite-derived oceanography in hidden Markov models
Cited by: 72
Author(s): W. James Grecian, Jude V. Lane, Théo Michelot, Helen M. Wade, Keith C. Hamer
Software Mentions: 7
Published: about 8 years ago

10.1186/s12915-020-0752-3

Bivalent promoter hypermethylation in cancer is linked to the H327me3/H3K4me3 ratio in embryonic stem cells
Cited by: 33
Author(s): Donnchadh S. Dunican, Heidi K. Mjoseng, Leanne Duthie, Ilya M. Flyamer, Wendy A. Bickmore, Richard R. Meehan
Software Mentions: 7
Published: over 6 years ago

10.3389/fcell.2021.624053

“All-In-One” Genetic Tool Assessing Endometrial Receptivity for Personalized Screening of Female Sex Steroid Hormones
Cited by: 7
Author(s): Pavel Deryabin, А. П. Домнина, Inga V. Gorelova, M. V. Rulev, М. А. Petrosyan, Nikolay Nikolsky, Aleksandra Borodkina
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.pone.0076051

Alterations in miRNA Levels in the Dentate Gyrus in Epileptic Rats
Cited by: 79
Author(s): Anna Bot, Konrad J. Dębski, Katarzyna Łukasiuk
Software Mentions: 7
Published: over 12 years ago

10.3389/fmicb.2019.00173

Thermal and Herbicide Tolerances of Chromerid Algae and Their Ability to Form a Symbiosis With Corals
Cited by: 14
Author(s): Leela J. Chakravarti, Andrew P. Negri, Madeleine J. H. van Oppen
Software Mentions: 7
Published: over 7 years ago

10.1186/s12859-021-04043-5

OmicLoupe: facilitating biological discovery by interactive exploration of multiple omic datasets and statistical comparisons
Cited by: 4
Author(s): Jakob Willforss, Valentina Siino, Fredrik Levander
Software Mentions: 7
Published: over 5 years ago

10.3389/fnhum.2017.00454

Cold-Blooded Attention: Finger Temperature Predicts Attentional Performance
Cited by: 5
Author(s): Rodrigo C. Vergara, Cristóbal Moënne‐Loccoz, Pedro Maldonado
Software Mentions: 7
Published: almost 9 years ago

10.1186/s12859-021-04392-1

shinyCurves, a shiny web application to analyse multisource qPCR amplification data: a COVID-19 case study
Cited by: 1
Author(s): Sonia Olaechea-Lázaro, Iraia García-Santisteban, José Ramón Pineda, Iker Badiola, Santos Alonso, José Ramón Bilbao, Nora Fernández-Jiménez
Software Mentions: 7
Published: over 4 years ago

10.1186/1476-069X-12-85

Statistical strategies for constructing health risk models with multiple pollutants and their interactions: possible choices and comparisons
Cited by: 112
Author(s): Zhichao Sun, Yuansheng Tao, Shi Li, Kelly K. Ferguson, John D. Meeker, Sung Kyun Park, Stuart Batterman, Bhramar Mukherjee
Software Mentions: 7
Published: over 12 years ago

10.3389/fpls.2019.01521

The Contribution of Functional Traits to the Breeding Progress of Central-European Winter Wheat Under Differing Crop Management Intensities
Cited by: 14
Author(s): Till Rose, Henning Kage
Software Mentions: 7
Published: over 6 years ago

10.1128/mSystems.00264-19

A Genome-Based Species Taxonomy of the <i>Lactobacillus</i> Genus Complex
Cited by: 46
Author(s): Stijn Wittouck, Sander Wuyts, Conor J. Meehan, Vera van Noort, Sarah Lebeer
Software Mentions: 7
Published: over 6 years ago

10.3389/fpls.2020.542153

Heritable Variation in Pea for Resistance Against a Root Rot Complex and Its Characterization by Amplicon Sequencing
Cited by: 9
Author(s): Lukas Wille, Monika Messmer, Natacha Bodenhausen, Bruno Studer, Pierre Hohmann
Software Mentions: 7
Published: over 5 years ago

10.1186/1471-2148-14-79

Do pre- and post-copulatory sexually selected traits covary in large herbivores?
Cited by: 18
Author(s): Mariona Ferrandiz‐Rovira, Jean‐François Lemaître, Sophie Lardy, Bernat Claramunt López, Aurélie Cohas
Software Mentions: 7
Published: about 12 years ago

10.7717/peerj.644

Unipro UGENE NGS pipelines and components for variant calling, RNA-seq and ChIP-seq data analyses
Cited by: 73
Author(s): Olga Golosova, Ross Henderson, Yuriy Vaskin, Andrei Gabrielian, German Grekhov, Vijayaraj Nagarajan, Andrew J. Oler, Mariam Quiñones, Darrell E. Hurt, Mikhail Fursov, Yentram Huyen
Software Mentions: 7
Published: over 11 years ago

10.1371/journal.pone.0248031

Evaluating the effects of embedded self-massage practice on strength performance: A randomized crossover pilot trial
Cited by: 4
Author(s): Yann Kerautret, Aymeric Guillot, Franck Di Rienzo
Software Mentions: 7
Published: over 5 years ago

10.1016/j.heliyon.2021.e06160

Genomic evidence supports the introgression between two sympatric stickleback species inhabiting the White Sea basin
Cited by: 4
Author(s): Artem Nedoluzhko, Fedor Sharko, Svetlana Tsygankova, Eugenia Boulygina, Amina S. Ibragimova, Anton Teslyuk, Jorge Galindo-Villegas, С. М. Расторгуев
Software Mentions: 7
Published: over 5 years ago

10.3390/genes12050637

Insight into the Genetic Population Structure of Wild Red Foxes in Poland Reveals Low Risk of Genetic Introgression from Escaped Farm Red Foxes
Cited by: 2
Author(s): Heliodor Wierzbicki, Magdalena Zatoń‐Dobrowolska, Anna Mucha, Magdalena Moska
Software Mentions: 7
Published: about 5 years ago

10.3389/fpls.2018.00029

Population Genetic Structure in Glyphosate-Resistant and -Susceptible Palmer Amaranth (Amaranthus palmeri) Populations Using Genotyping-by-sequencing (GBS)
Cited by: 26
Author(s): Anita Küpper, Harish Manmathan, Darci A. Giacomini, Eric Patterson, William B. McCloskey, Todd A. Gaines
Software Mentions: 7
Published: over 8 years ago

10.3389/fimmu.2021.651475

Novel Insights Into Rheumatoid Arthritis Through Characterization of Concordant Changes in DNA Methylation and Gene Expression in Synovial Biopsies of Patients With Differing Numbers of Swollen Joints
Cited by: 5
Author(s): Andrew Y. Li Yim, Enrico Ferrero, Klio Maratou, Huw D. Lewis, George C. Royal, David F. Tough, Chris Larminie, Marcel M.A.M. Mannens, Peter Henneman, Wouter J. de Jonge, Marleen G H van de Sande, Daniëlle M. Gerlag, Rab K. Prinjha, Paul P. Tak
Software Mentions: 7
Published: about 5 years ago

10.1007/s00330-020-07195-9

Improved differentiation between primary lung cancer and pulmonary metastasis by combining dual-energy CT–derived biomarkers with conventional CT attenuation
Cited by: 19
Author(s): Dominik Deniffel, Andreas Sauter, Alexander A. Fingerle, Ernst J. Rummeny, Marcus R. Makowski, Daniela Pfeiffer
Software Mentions: 7
Published: almost 6 years ago

10.1186/gb-2008-9-7-r118

MeV+R: using MeV as a graphical user interface for Bioconductor applications in microarray analysis
Cited by: 86
Author(s): Vu T. Chu, Raphaël Gottardo, Adrian E. Raftery, Roger E. Bumgarner, Ka Yee Yeung
Software Mentions: 7
Published: over 18 years ago

10.3390/jof7040253

Molecular and Environmental Triggering Factors of Pathogenicity of Fusarium oxysporum and F. solani Isolates Involved in the Coffee Corky-Root Disease
Cited by: 3
Author(s): Roberto Gamboa-Becerra, Daniel López-Lima, Luc Villain, Jean‐Christophe Breitler, Gloria Carrión, Damaris Desgarennes
Software Mentions: 7
Published: over 5 years ago

10.1186/1471-2105-15-132

Investigating perturbed pathway modules from gene expression data via structural equation models
Cited by: 19
Author(s): Daniele Pepe, Mario Grassi
Software Mentions: 7
Published: about 12 years ago

10.3390/cancers11060759

Detection of Epstein-Barr Virus Infection in Non-Small Cell Lung Cancer
Cited by: 31
Author(s): Fayez Kheir, Mengmeng Zhao, Michael J. Strong, Yi Yu, Asuka Nanbo, Erik K. Flemington, Gilbert F. Morris, Krzysztof Reiss, Li Li, Zhen Lin
Software Mentions: 7
Published: about 7 years ago

10.3389/fpsyt.2021.680811

TAPAS: An Open-Source Software Package for Translational Neuromodeling and Computational Psychiatry
Cited by: 55
Author(s): Stefan Frässle, Eduardo A. Aponte, Saskia Bollmann, Kay H. Brodersen, Ting Cao, Olivia K. Harrison, Sarah M. Harrison, Jakob Heinzle, Sandra Iglesias, Lars Kasper, Ekaterina I. Lomakina, Christoph Mathys, Matthias Müller-Schrader, Inês Pereira, Frederike H. Petzschner, Sudhir Raman, Dario Schöbi, Birte Toussaint, Lilian Weber, Yu Yao, Klaas Enno Stephan
Software Mentions: 7
Published: about 5 years ago

10.3389/fgene.2019.00579

A Review and Tutorial of Machine Learning Methods for Microbiome Host Trait Prediction
Cited by: 107
Author(s): Yi‐Hui Zhou, Paul J. Gallins
Software Mentions: 7
Published: about 7 years ago

10.3389/fcell.2021.682261

Immunity-Related Gene Signature Identifies Subtypes Benefitting From Adjuvant Chemotherapy or Potentially Responding to PD1/PD-L1 Blockage in Pancreatic Cancer
Cited by: 3
Author(s): Qian Hao, Hongzhe Li, Junjie Xie, Xiang Lü, Fanlu Li, Weishen Wang, Xiaomei Tang, Minmin Shi, Longyang Jiang, Hongwei Li, Hao Chen, Chenghong Peng, Zhiwei Xu, Xiaxing Deng, Baiyong Shen
Software Mentions: 7
Published: about 5 years ago

10.1186/s12870-021-03142-y

Maximizing genetic representation in seed collections from populations of self and cross-pollinated banana wild relatives
Cited by: 5
Author(s): Simon Kallow, Bart Panis, Dang Toan Vu, Tuong Dang Vu, J. Paofa, Arne Mertens, Rony Swennen, Steven Janssens
Software Mentions: 7
Published: almost 5 years ago

10.1186/s12864-019-5924-6

A catalog of CasX genome editing sites in common model organisms
Cited by: 4
Author(s): Elisha D.O. Roberson
Software Mentions: 7
Published: about 7 years ago

10.3390/biom11060796

Lower Gene Expression of Angiotensin Converting Enzyme 2 Receptor in Lung Tissues of Smokers With COVID-19Pneumonia
Cited by: 2
Author(s): Francesca Lunardi, Francesco Fortarezza, Luca Vedovelli, Federica Pezzuto, Annalisa Boscolo, Marco Rossato, Roberto Vettor, Anna María Cattelan, Claudia Del Vecchio, Andrea Crisanti, Paolo Navalesi, Darío Gregori, Fiorella Calabrese
Software Mentions: 7
Published: about 5 years ago

10.3390/genes11091107

Integrated Analysis of Gene Expression, SNP, InDel, and CNV Identifies Candidate Avirulence Genes in Australian Isolates of the Wheat Leaf Rust Pathogen Puccinia triticina
Cited by: 5
Author(s): Long Song, Jing Qin Wu, Chongmei Dong, Robert Park
Software Mentions: 7
Published: almost 6 years ago

10.7554/eLife.11215

Methylation of RNA polymerase II non-consensus Lysine residues marks early transcription in mammalian cells
Cited by: 35
Author(s): João D. Dias, Tiago Rito, Elena Torlai Triglia, Alexander Kukalev, Carmelo Ferrai, Mita Chotalia, Emily Brookes, Hiroshi Kimurâ, Ana Pombo
Software Mentions: 7
Published: over 10 years ago

10.1186/s12862-019-1510-4

Geographic isolation and climatic variability contribute to genetic differentiation in fragmented populations of the long-lived subalpine conifer Pinus cembra L. in the western Alps
Cited by: 26
Author(s): Endre György Tóth, Francine Tremblay, Johann M. Housset, Yves Bergeron, Christopher Carcaillet
Software Mentions: 7
Published: over 6 years ago

10.1371/journal.pcbi.1009302

Crowdsourced identification of multi-target kinase inhibitors for RET- and TAU- based disease: The Multi-Targeting Drug DREAM Challenge
Cited by: 5
Author(s): Zhitao Xiong, Minji Jeon, Robert J. Allaway, Jaewoo Kang, Donghyeon Park, Jinhyuk Lee, Hwisang Jeon, Miyoung Ko, Hualiang Jiang, Mingyue Zheng, Aik Choon Tan, Xindi Guo, Multi-Targeting Drug Dream Challenge Community, Kristen K. Dang, Alex Tropsha, Chana Hecht, Tirtha K. Das, Heather A. Carlson, Ruben Abagyan, Justin Guinney, Avner Schlessinger, Ross L. Cagan
Software Mentions: 7
Published: almost 5 years ago

10.3389/fgene.2021.604714

Coupling of Co-expression Network Analysis and Machine Learning Validation Unearthed Potential Key Genes Involved in Rheumatoid Arthritis
Cited by: 8
Author(s): Jianwei Xiao, Rongsheng Wang, Xu Cai, Zhizhong Ye
Software Mentions: 7
Published: over 5 years ago