pypi: Tree | Projects | Ecosyste.ms: Papers

10.1002/ece3.5645

Testing adaptive hypotheses on the evolution of larval life history in acorn and stalked barnacles
Cited by: 11
Author(s): Christine Ewers‐Saucedo, Paula Pappalardo
Software Mentions: 13
Published: about 5 years ago

10.1186/s13073-016-0384-y

XGR software for enhanced interpretation of genomic summary data, illustrated by application to immunological traits
Cited by: 131
Author(s): Hai Fang, Bogdan Knezevic, Katie L Burnham, Julian C. Knight
Software Mentions: 12
Published: almost 8 years ago

10.3390/jcm7100322

Derivation and Validation of Machine Learning Approaches to Predict Acute Kidney Injury after Cardiac Surgery
Cited by: 100
Author(s): Hyung Chul Lee, Hyun Kyu Yoon, Karam Nam, Youn Joung Cho, Tae Kyoung Kim, Won Ho Kim, Jae Hyon Bahk
Software Mentions: 12
Published: about 6 years ago

10.1186/s12862-020-01671-y

Sex determination systems in reptiles are related to ambient temperature but not to the level of climatic fluctuation
Cited by: 12
Author(s): Paola Cornejo‐Páramo, Andrés Lira‐Noriega, Ciro Ramírez-Suástegui, Fausto Méndez-de-la-Cruz, Tamás Székely, Araxi O. Urrutia, Diego Cortez
Software Mentions: 9
Published: about 4 years ago

10.1186/1471-2164-9-S1-S5

Transcription network construction for large-scale microarray datasets using a high-performance computing approach
Cited by: 14
Author(s): Mengxia Zhu, Qishi Wu
Software Mentions: 7
Published: almost 17 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 6 years ago

10.1186/1471-2105-13-S10-S17

Gene network modular-based classification of microarray samples
Cited by: 4
Author(s): Pingzhao Hu, Shelley B. Bull, Hui Jiang
Software Mentions: 7
Published: over 12 years ago

10.1371/currents.tol.099161de5eabdee073fd3d21a44518dc

Arbor: Comparative Analysis Workflows for the Tree of Life
Cited by: 14
Author(s): Luke J. Harmon, Jeffrey Baumes, Charles E. Hughes, Jorge Soberón, Chelsea D. Specht, Wesley Turner, Curtis Lisle, Robert Thacker
Software Mentions: 6
Published: almost 12 years ago

10.26508/lsa.201900612

Interferon lambda 4 can directly activate human CD19+ B cells and CD8+ T cells
Cited by: 4
Author(s): Mairene Coto‐Llerena, Marco Lepore, Julian Spagnuolo, Daniela Di Blasi, Diego Calabrese, Aleksei Suslov, Glenn R. Bantug, François H. T. Duong, Luigi Terracciano, Gennaro De Libero, Markus H. Heim
Software Mentions: 6
Published: almost 4 years ago

10.1371/journal.pcbi.1007553

Scalable phylogenetic profiling using MinHash uncovers likely eukaryotic sexual reproduction genes
Cited by: 18
Author(s): David Moi, Laurent Kilchoer, Pablo S. Aguilar, Christophe Dessimoz
Software Mentions: 6
Published: over 4 years ago

10.1038/sdata.2014.15

Tree of Sex: A database of sexual systems
Cited by: 199
Author(s): Tia‐Lynn Ashman, Doris Bachtrog, Heath Blackmon, Emma E. Goldberg, Matthew W. Hahn, Mark Kirkpatrick, Jun Kitano, Judith E. Mank, Itay Mayrose, Ray Ming, Sarah P. Otto, Catherine L. Peichel, Matthew W. Pennell, Nicolas Perrin, Laura Ross, Nicole Valenzuela, Jana C. Vamosi
Software Mentions: 5
Published: over 10 years ago

10.1186/s13059-014-0511-2

A genomic and evolutionary approach reveals non-genetic drug resistance in malaria
Cited by: 34
Author(s): Jonathan D. Herman, Daniel P. Rice, Ulf Ribacke, Jacob Silterra, Amy Deik, Eli L. Moss, Kate M Broadbent, Daniel E. Neafsey, Michael M. Desai, Clary B. Clish, Ralph Mazitschek, Dyann F. Wirth
Software Mentions: 5
Published: about 10 years ago

10.1177/1176934319899384

Phylotastic: Improving Access to Tree-of-Life Knowledge With Flexible, on-the-Fly Delivery of Trees
Cited by: 2
Author(s): Van Duc Nguyen, Thanh Hai Nguyen, Abu Saleh Md Tayeen, Haywood Dail Laughinghouse, Luna L. Sánchez‐Reyes, Jodie Wiggins, Enrico Pontelli, Dmitry Mozzherin, Brian C. O’Meara, Arlin Stoltzfus
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0257005

Comparison of machine learning methods for estimating case fatality ratios: An Ebola outbreak simulation study
Cited by: 1
Author(s): Alpha Forna, Ilaria Dorigatti, Pierre Nouvellet, Christl A. Donnelly
Software Mentions: 5
Published: about 3 years ago

10.7717/peerj.3712

PrePhyloPro: phylogenetic profile-based prediction of whole proteome linkages
Cited by: 15
Author(s): Yulong Niu, Chengcheng Liu, Shayan Moghimyfiroozabad, Yi Yang, Kambiz N. Alavian
Software Mentions: 5
Published: about 7 years ago

10.1038/s41598-021-90145-2

An in-depth analysis of the mitochondrial phylogenetic landscape of Cambodia
Cited by: 5
Author(s): Anita Kloss‐Brandstätter, Monika Summerer, David Horst, Basil A. Horst, Gertraud Streiter, Julia Raschenberger, Florian Kronenberg, Torpong Sanguansermsri, Jürgen Horst, Hansi Weißensteiner
Software Mentions: 5
Published: over 3 years ago

10.1093/bioinformatics/bty767

Methods for automatic reference trees and multilevel phylogenetic placement
Cited by: 35
Author(s): Lucas Czech, Pierre Barbera, Alexandros Stamatakis
Software Mentions: 4
Published: about 6 years ago

10.1016/j.immuni.2019.12.007

Regulatory T Cells Restrain Interleukin-2- and Blimp-1-Dependent Acquisition of Cytotoxic Function by CD4+ T Cells
Cited by: 112
Author(s): Anna Śledzińska, Maria Vila de Mucha, Katharina Bergerhoff, Alastair Hotblack, Dafne Franz Demane, Ehsan Ghorani, Ayse U. Akarca, Maria A V Marzolini, Isabelle Solomon, Frederick Arce Vargas, Martin Pulé, Masahiro Ono, Benedict Seddon, George Kassiotis, Charlotte E. Ariyan, Thomas Korn, Teresa Marafioti, Graham M. Lord, Hans J. Stauss, Richard G. Jenner, Karl S. Peggs, Sergio A. Quezada
Software Mentions: 4
Published: almost 5 years ago

10.1038/s41598-019-44445-3

Epidemiologic evaluation of Nhanes for environmental Factors and periodontal disease
Cited by: 8
Author(s): Pinar Emecen‐Huja, H. F. Li, Jeffrey L. Ebersole, Joshua Lambert, Heather Bush
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-019-45237-5

A sensitive and simple targeted proteomics approach to quantify transcription factor and membrane proteins of the unfolded protein response pathway in glioblastoma cells
Cited by: 23
Author(s): Chi Nguyen, Sebastian Malchow, Stefan Reich, Sascha Steltgens, Konstantin V. Shuvaev, Stefan Loroch, Christin Lorenz, Albert Sickmann, Christiane B. Knobbe-Thomsen, Björn Tews, Jan Medenbach, Robert Ahrends
Software Mentions: 4
Published: over 5 years ago

10.15252/msb.20156505

A cell‐based model system links chromothripsis with hyperploidy
Cited by: 113
Author(s): Balca R. Mardin, Alexandros P. Drainas, Sebastian M. Waszak, Joachim Weischenfeldt, Mayumi Isokane, Adrian M. Stütz, Benjamin Raeder, Theocharis Efthymiopoulos, Christopher Buccitelli, Maia Segura-Wang, Paul A. Northcott, Stefan M. Pfister, Peter Lichter, Jan Ellenberg, Jan Korbel
Software Mentions: 4
Published: about 9 years ago

10.1002/hbm.25028

An automated machine learning approach to predict brain age from cortical anatomical measures
Cited by: 29
Author(s): Jessica Dafflon, Walter Hugo Lopez Pinaya, Federico Turkheimer, James H. Cole, Robert Leech, Mathew A. Harris, Simon R. Cox, Heather C. Whalley, Andrew M. McIntosh, Peter J. Hellyer
Software Mentions: 4
Published: over 4 years ago

10.3390/molecules24142529

High Impact: The Role of Promiscuous Binding Sites in Polypharmacology
Cited by: 8
Author(s): Natacha Cerisier, Michel Petitjean, Leslie Regad, Quentin Bayard, Manon Réau, Anne Badel, Anne-Claude Camproux
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1008390

Ten simple rules for writing a paper about scientific software
Cited by: 1
Author(s): Joseph D. Romano, Jason H. Moore
Software Mentions: 4
Published: almost 4 years ago

10.3389/fmicb.2020.00364

Comparison of the Bacterial Gut Microbiome of North American Triatoma spp. With and Without Trypanosoma cruzi
Cited by: 20
Author(s): Allison E. Mann, Elizabeth A. Mitchell, Yan Zhang, Rachel Curtis‐Robles, Santosh Thapa, Sarah A. Hamer, Michael S. Allen
Software Mentions: 4
Published: over 4 years ago

10.1186/1471-2105-5-195

Cited by: 20
Author(s): Joachim Theilhaber, Anatoly Ulyanov, Anish Malanthara, Jack Cole, Dapeng Xu, Robert Nahf, Michael Heuer, Christoph Brockel, Steven Bushnell
Software Mentions: 4
Published: almost 21 years ago

10.1371/journal.pone.0253741

Transcriptome and proteome of the corm, leaf and flower of Hypoxis hemerocallidea (African potato)
Cited by: 0
Author(s): Mihai-Silviu Tomescu, Selisha A. Sooklal, Thuto Ntsowe, Previn Naicker, Barbara Darnhofer, Robert H. Archer, Stoyan Stoychev, Dirk Swanevelder, Ruth Birner‐Grünberger, Karl Rumbold
Software Mentions: 4
Published: over 3 years ago

10.1186/s12859-020-03755-4

Embedding covariate adjustments in tree-based automated machine learning for biomedical big data analyses
Cited by: 9
Author(s): Elisabetta Manduchi, Weixuan Fu, Joseph D. Romano, Stefano Ruberto, Jason H. Moore
Software Mentions: 3
Published: about 4 years ago

10.1128/AEM.01851-20

Ecophysiological Study of Paraburkholderia sp. Strain 1N under Soil Solution Conditions: Dynamic Substrate Preferences and Characterization of Carbon Use Efficiency
Cited by: 6
Author(s): K. Taylor Cyle, Annaleise R. Klein, Ludmilla Aristilde, Carmen Enid Martı́nez
Software Mentions: 3
Published: almost 4 years ago

10.1186/1742-4690-8-18

Genome-wide analysis of primary CD4+ and CD8+ T cell transcriptomes shows evidence for a network of enriched pathways associated with HIV disease
Cited by: 53
Author(s): Jing Qin Wu, Dominic E. Dwyer, Wayne B. Dyer, Jean Yee Hwa Yang, Binbin Wang, Nitin K. Saksena
Software Mentions: 3
Published: over 13 years ago

10.1038/s41598-018-35492-3

DolFin: an innovative digital platform for studying Risso’s dolphins in the Northern Ionian Sea (North-eastern Central Mediterranean)
Cited by: 29
Author(s): Rosalia Maglietta, Vito Renò, Giulia Cipriano, Carmelo Fanizza, Annalisa Milella, Ettore Stella, Roberto Carlucci
Software Mentions: 3
Published: almost 6 years ago

10.3390/genes12060862

Improved Models of Coalescence Ages of Y-DNA Haplogroups
Cited by: 2
Author(s): Iain McDonald
Software Mentions: 3
Published: over 3 years ago

10.3390/genes11121398

Evaluation of the Ion AmpliSeq™ PhenoTrivium Panel: MPS-Based Assay for Ancestry and Phenotype Predictions Challenged by Casework Samples
Cited by: 18
Author(s): Marta Diepenbroek, Birgit Bayer, Kristina Schwender, Roberta Schiller, Jessica Lim, Robert Lagacé, Katja Anslinger
Software Mentions: 3
Published: almost 4 years ago

10.1002/ece3.2664

Eggshell coloration and its importance in postmating sexual selection
Cited by: 19
Author(s): Miroslav Poláček, Matteo Griggio, Ivan Mikšı́k, Michaela Bartíková, Manfred Eckenfellner, Herbert Hoi
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pgen.1008949

The Paramecium histone chaperone Spt16-1 is required for Pgm endonuclease function in programmed genome rearrangements
Cited by: 11
Author(s): Augustin de Vanssay, Amandine Touzeau, Olivier Arnaiz, Andrea Frapporti, Jamie Phipps, Sandra Duharcourt
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pone.0161196

Expanding the UniFrac Toolbox
Cited by: 51
Author(s): Ruth G. Wong, Jia Rong Wu, Gregory B. Gloor
Software Mentions: 3
Published: about 8 years ago

10.1371/journal.pone.0125265

Roles of Climate, Vegetation and Soil in Regulating the Spatial Variations in Ecosystem Carbon Dioxide Fluxes in the Northern Hemisphere
Cited by: 19
Author(s): Zhi Chen, Guirui Yu, Jianping Ge, Qiufeng Wang, Xianjin Zhu, Zhinan Xu
Software Mentions: 3
Published: over 9 years ago

10.3389/fnhum.2020.599802

Hybrid EEG-fNIRS BCI Fusion Using Multi-Resolution Singular Value Decomposition (MSVD)
Cited by: 13
Author(s): Muhammad Umer Khan, Mustafa A. H. Hasan
Software Mentions: 3
Published: almost 4 years ago

10.1371/journal.pone.0103357

Purifying Selection in Deeply Conserved Human Enhancers Is More Consistent than in Coding Sequences
Cited by: 8
Author(s): Dilrini De Silva, Richard A. Nichols, Greg Elgar
Software Mentions: 3
Published: over 10 years ago

10.7717/peerj.5365

More of the same: allopatric humpback whale populations share acoustic repertoire
Cited by: 14
Author(s): Michelle E. H. Fournet, Lauren Jacobsen, Christine M. Gabriele, David K. Mellinger, Holger Klinck
Software Mentions: 3
Published: over 6 years ago

10.15252/emmm.201911592

STIM1‐mediated calcium influx controls antifungal immunity and the metabolic function of non‐pathogenic Th17 cells
Cited by: 22
Author(s): Sascha Kahlfuß, Ulrike Kaufmann, Axel R. Concepcion, Lucile Noyer, Dimitrius Raphael, Martin Vaeth, Jun J. Yang, Priya Pancholi, Máté Maus, James Muller, Lina Kozhaya, Alireza Khodadadi‐Jamayran, Zhengxi Sun, Patrick J. Shaw, Derya Unutmaz, Peter B. Stathopulos, Cori Feist, Scott Cameron, Stuart E. Turvey, Stefan Feske
Software Mentions: 3
Published: over 4 years ago

10.1186/1471-2105-7-229

Meta-analysis discovery of tissue-specific DNA sequence motifs from mammalian gene expression data
Cited by: 38
Author(s): Bertrand R. Huber, Martha L. Bulyk
Software Mentions: 3
Published: over 18 years ago

10.1371/journal.pone.0072506

Evolutionary History of the Grey-Faced Sengi, Rhynchocyon udzungwensis, from Tanzania: A Molecular and Species Distribution Modelling Approach
Cited by: 8
Author(s): Lucinda P. Lawson, Cristiano Vernesi, Silvia Ricci, Francesco Rovero
Software Mentions: 3
Published: about 11 years ago

10.1186/1471-2105-11-96

SING: Subgraph search In Non-homogeneous Graphs
Cited by: 45
Author(s): Raffaele Di Natale, Alfredo Ferro, Rosalba Giugno, Misael Mongiovì, Alfredo Pulvirenti, Dennis Shasha
Software Mentions: 3
Published: over 14 years ago

10.3390/molecules23112892

In Silico Prediction of O6-Methylguanine-DNA Methyltransferase Inhibitory Potency of Base Analogs with QSAR and Machine Learning Methods
Cited by: 23
Author(s): Guizhi Sun, Ting Fan, Xiaodong Sun, Yuxing Hao, Xin Cui, Lu Zhao, Tongxiang Ren, Yue Zhou, Rugang Zhong, Yongzhen Peng
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pone.0085006

Cytochrome b Divergence between Avian Sister Species Is Linked to Generation Length and Body Mass
Cited by: 7
Author(s): Caroline Thomson, James D. J. Gilbert, M. de L. Brooke
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0229085

Inter-species variation in monovalent anion substrate selectivity and inhibitor sensitivity in the sodium iodide symporter (NIS)
Cited by: 12
Author(s): Susanna C. Concilio, Hristina R. Zhekova, Sergei Y. Noskov, Stephen J. Russell
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pbio.1001994

Thermodynamic System Drift in Protein Evolution
Cited by: 74
Author(s): Kathryn M. Hart, Michael J. Harms, Bryan H. Schmidt, Carolyn Elya, Joseph W. Thornton, Susan Marqusee
Software Mentions: 3
Published: almost 10 years ago

10.1038/s41598-020-73237-3

Prognostic value of FDG-PET radiomics with machine learning in pancreatic cancer
Cited by: 34
Author(s): Yoshitaka Toyama, Masatoshi Hotta, Fuyuhiko Motoi, Kentaro Takanami, Ryogo Minamimoto, Kei Takase
Software Mentions: 3
Published: about 4 years ago

10.1007/s00122-018-3171-x

The western Mediterranean region provided the founder population of domesticated narrow-leafed lupin
Cited by: 24
Author(s): Mahsa Mousavi‐Derazmahalleh, Bruno Nevado, Philipp E. Bayer, Dmitry A. Filatov, James K. Hane, David Edwards, William Erskine, Matthew N. Nelson
Software Mentions: 3
Published: about 6 years ago

10.1038/s41598-018-37678-1

Intelectin 3 is dispensable for resistance against a mycobacterial infection in zebrafish (Danio rerio)
Cited by: 11
Author(s): Markus Ojanen, Meri Uusi-Mäkelä, Sanna-Kaisa E. Harjula, Anni Saralahti, Kaisa Oksanen, Niklas Kähkönen, Juha Määttä, Vesa P. Hytönen, Marko Pesu, Mika Rämet
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-019-43356-7

The role of gut microbiota in shaping the relapse-remitting and chronic-progressive forms of multiple sclerosis in mouse models
Cited by: 59
Author(s): K. Alexa Orr Gandy, Jiajia Zhang, Prakash Nagarkatti, Mitzi Nagarkatti
Software Mentions: 2
Published: over 5 years ago

10.1186/s12875-020-01286-8

Substance use identification and follow-up rates among commercial and Medicare health insurance members in primary care and other settings
Cited by: 1
Author(s): J. G. Baker, David R. Doxbeck, Melanie E. Washington, A. V. M. Horton, Adam Dunning
Software Mentions: 2
Published: about 4 years ago

10.1128/JB.00125-17

Reclassification of the Specialized Metabolite Producer Pseudomonas mesoacidophila ATCC 31433 as a Member of the Burkholderia cepacia Complex
Cited by: 25
Author(s): E. Joel Loveridge, Jones Ca, Matthew Bull, Suzy C. Moody, M. W. Kahl, Zulfiqar Ali Khan, Louis Neilson, Marina Tomeva, Steven Adams, Andrew C. Wood, Daniel Rodríguez-Martín, Ingrid Pinel, Julian Parkhill, Eshwar Mahenthiralingam, John Crosby
Software Mentions: 2
Published: over 7 years ago

10.1111/irv.12782

Adenovirus infection in children hospitalized with pneumonia in Guangzhou, China
Cited by: 19
Author(s): Lirong Zou, Yi Liu, YU Jian-xiang, Yinchao Song, Lijun Liang, Qianfang Guo, Xue Zhuang, Yunqiang Zhang, Min Kang, Jie Wu
Software Mentions: 2
Published: over 4 years ago

10.1093/bioinformatics/btz078

PROSSTT: probabilistic simulation of single-cell RNA-seq data for complex differentiation processes
Cited by: 40
Author(s): Νικόλαος Παπαδόπουλος, Parra R Gonzalo, Johannes Söding
Software Mentions: 2
Published: almost 6 years ago

10.1093/bioinformatics/btx440

VICTOR: genome-based phylogeny and classification of prokaryotic viruses
Cited by: 344
Author(s): Jan P. Meier‐Kolthoff, Markus Göker
Software Mentions: 2
Published: over 7 years ago

10.1001/jamanetworkopen.2018.1755

Association of Hemoglobin A1c Levels With Use of Sulfonylureas, Dipeptidyl Peptidase 4 Inhibitors, and Thiazolidinediones in Patients With Type 2 Diabetes Treated With Metformin
Cited by: 53
Author(s): Rohit Vashisht, Kenneth Jung, Alejandro Schuler, Juan M. Banda, Rae Woong Park, Sanghyung Jin, Li Li, Joel T. Dudley, Kipp W. Johnson, Mark Shervey, Hua Xu, Yonghui Wu, Karthik Natrajan, George Hripcsak, Jin Peng, Mui Van Zandt, Anthony Reckard, Christian Reich, James Weaver, Martijn J. Schuemie, Patrick B. Ryan, Alison Callahan, Nigam H. Shah
Software Mentions: 2
Published: about 6 years ago

10.1029/2021GH000391

Statistical Emulation of Winter Ambient Fine Particulate Matter Concentrations From Emission Changes in China
Cited by: 11
Author(s): Luke Conibear, Carly L. Reddington, Ben Silver, Ying Chen, Christoph Knote, S. R. Arnold, Dominick V. Spracklen
Software Mentions: 2
Published: over 3 years ago

10.1186/s12983-015-0099-8

Proposal for a revised classification of the Demospongiae (Porifera)
Cited by: 209
Author(s): Christine Morrow, Paco Cárdenas
Software Mentions: 2
Published: over 9 years ago

10.1038/srep27480

Reassortment compatibility between PB1, PB2, and HA genes of the two influenza B virus lineages in mammalian cells
Cited by: 10
Author(s): Sang Hyun Kim, Ilseob Lee, Sehee Park, Jin‐Young Bae, Kyoung Shin Yoo, Philippe Lemey, Mee Sook Park, Jin Won Song, Sun‐Ho Kee, Ki-Joon Song, Man Seong Park
Software Mentions: 2
Published: over 8 years ago

10.1186/s12862-017-1016-x

Hostplant change and paleoclimatic events explain diversification shifts in skipper butterflies (Family: Hesperiidae)
Cited by: 44
Author(s): Ranjit Kumar Sahoo, Andrew Warren, Steve C. Collins, Ullasa Kodandaramaiah
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2021.601490

Molecular Characterization of Enterococcus Isolates From Different Sources in Estonia Reveals Potential Transmission of Resistance Genes Among Different Reservoirs
Cited by: 13
Author(s): Erki Aun, Veljo Kisand, Mailis Laht, Kaidi Telling, Piret Kalmus, Ülo Väli, Age Brauer, Maido Remm, Tanel Tenson
Software Mentions: 2
Published: over 3 years ago

10.3390/genes10090632

Tree Lab: Portable genomics for Early Detection of Plant Viruses and Pests in Sub-Saharan Africa
Cited by: 68
Author(s): Laura M. Boykin, Peter Sseruwagi, Titus Alicai, Elijah Ateka, Ibrahim Umar Mohammed, Jo Ann L. Stanton, Charles Kayuki, Deogratius Mark, Tarcisius Fute, Joel Erasto, Hilda Bachwenkizi, Brenda Muga, Naomi Nzilani Mumo, Jenniffer Mwangi, Phillip Abidrabo, Geoffrey Okao-Okuja, Geresemu Omuut, Jacinta Akol, Hellen B. Apio, Francis Osingada, Monica A. Kehoe, David Eccles, Anders Savill, Stephen Lamb, Tonny Kinene, Christopher B. Rawle, Abishek Muralidhar, Kirsty Mayall, Fred Tairo, Joseph Ndunguru
Software Mentions: 2
Published: about 5 years ago

10.1093/gbe/evaa104

Viviparous Reptile Regarded to Have Temperature-Dependent Sex Determination Has Old XY Chromosomes
Cited by: 32
Author(s): Paola Cornejo‐Páramo, Duminda S. B. Dissanayake, Andrés Lira‐Noriega, Mónica Martínez-Pacheco, Armando Acosta, Ciro Ramírez-Suástegui, Fausto Méndez-de-la-Cruz, Tamás Székely, Araxi O. Urrutia, Arthur Georges, Diego Cortez
Software Mentions: 2
Published: over 4 years ago

10.1007/s00330-017-4755-6

A simple classification system (the Tree flowchart) for breast MRI can reduce the number of unnecessary biopsies in MRI-only lesions
Cited by: 55
Author(s): Ramona Woitek, Claudio Spick, Melanie Schernthaner, Margaretha Rudas, Panagiotis Kapetas, Maria Bernathova, Julia Furtner, Katja Pinker, Thomas H. Helbich, Pascal Baltzer
Software Mentions: 2
Published: over 7 years ago

10.3389/fendo.2020.575469

Increased Plasma Soluble Interleukin-2 Receptor Alpha Levels in Patients With Long-Term Type 1 Diabetes With Vascular Complications Associated With IL2RA and PTPN2 Gene Polymorphisms
Cited by: 3
Author(s): Magdalena Keindl, Olena Fedotkina, Elsa du Plessis, Ruchi Jain, Brith Bergum, Troels Mygind Jensen, Cleide Oliveira de Almeida Møller, Henrik Falhammar, Thomas Nyström, Sergiu‐Bogdan Catrina, Gun Jörneskog, Leif Groop, Mats Eliasson, Björn Eliasson, Kerstin Brismar, Peter M. Nilsson, Tore Julsrud Berg, Silke Appel, Valeriya Lyssenko
Software Mentions: 2
Published: about 4 years ago

10.1093/database/baw086

A comprehensive view of the web-resources related to sericulture
Cited by: 2
Author(s): Deepika Singh, Hasnahana Chetia, Debajyoti Kabiraj, Swati Sharma, Anil Kumar, Pragya Sharma, Manab Deka, Utpal Bora
Software Mentions: 2
Published: almost 9 years ago

10.7717/peerj.3055

Specimen-level phylogenetics in paleontology using the Fossilized Birth-Death model with sampled ancestors
Cited by: 14
Author(s): Andrea Cau
Software Mentions: 2
Published: over 7 years ago

10.3390/diagnostics11061094

Risk of Pre-Malignancy or Malignancy in Postmenopausal Endometrial Polyps: A CHAID Decision Tree Analysis
Cited by: 4
Author(s): Michael L. Wong, Nikolaos Thanatsis, Federica Nardelli, T. Amin, D. Jurkovic
Software Mentions: 2
Published: over 3 years ago

10.3389/fgene.2016.00094

Logical Modeling and Dynamical Analysis of Cellular Networks
Cited by: 176
Author(s): Wassim Abou-Jaoudé, Pauline Traynard, Pedro T. Monteiro, Julio Sáez-Rodríguez, Tomáš Helikar, Denis Thieffry, Claudine Chaouiya
Software Mentions: 2
Published: over 8 years ago

10.1093/cid/ciab255

Unusual Localization of Blood-Borne Loa loa Microfilariae in the Skin Depends on Microfilarial Density in the Blood: Implications for Onchocerciasis Diagnosis in Coendemic Areas
Cited by: 3
Author(s): Yannick Niamsi-Emalio, Hugues C. Nana-Djeunga, Cédric B. Chesnais, Sébastien Pion, Jules Brice Tchatchueng-Mbougua, Michel Boussinesq, Marı́a-Gloria Basáñez, Joseph Kamgno
Software Mentions: 2
Published: over 3 years ago

10.3390/cancers10120497

Developments in Stereotactic Body Radiotherapy
Cited by: 14
Author(s): A. Haridass
Software Mentions: 2
Published: almost 6 years ago

10.1007/s10339-020-01001-6

Reading and spelling skills of prematurely born children in light of the underlying cognitive factors
Cited by: 3
Author(s): Rózsa Gráf, Magda Kalmár, Andrea Harnos, Gábor Boross, Anett Nagy
Software Mentions: 2
Published: about 4 years ago

10.1371/journal.pone.0073008

People’s Perceptions about the Importance of Forests on Borneo
Cited by: 89
Author(s): Erik Meijaard, Nicola K. Abram, Jessie A. Wells, Anne-Sophie Pellier, Marc Ancrenaz, David Gaveau, Rebecca K. Runting, Kerrie Mengersen
Software Mentions: 2
Published: about 11 years ago

10.1186/s12879-016-1737-2

Whole genome sequencing reveals mycobacterial microevolution among concurrent isolates from sputum and blood in HIV infected TB patients
Cited by: 7
Author(s): Willy Ssengooba, Bouke C. de Jong, Moses Joloba, Frank Cobelens, Conor J. Meehan
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0223220

The prediction model of suicidal thoughts in Korean adults using Decision Tree Analysis: A nationwide cross-sectional study
Cited by: 8
Author(s): Sung‐Man Bae
Software Mentions: 2
Published: about 5 years ago

10.1155/2016/3874086

The Reliability of Classification of Terminal Nodes in GUIDE Decision Tree to Predict the Nonalcoholic Fatty Liver Disease
Cited by: 2
Author(s): Mehdi Birjandi, Seyyed Mohammad Taghi Ayatollahi, Saeedeh Pourahmad
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.pone.0182097

Similarities between plant traits based on their connection to underlying gene functions
Cited by: 0
Author(s): Jan-Peter Nap, Gabino F. Sánchez-Pérez, Aalt D. J. van Dijk
Software Mentions: 2
Published: about 7 years ago

10.3390/v9040084

Seasonal Dynamics of Haptophytes and dsDNA Algal Viruses Suggest Complex Virus-Host Relationship
Cited by: 27
Author(s): Torill Vik Johannessen, Aud Larsen, Gunnar Bratbak, António Pagarete, Bente Edvardsen, Elianne Dunthorn Egge, Ruth‐Anne Sandaa
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0108714

Mycobiome of the Bat White Nose Syndrome Affected Caves and Mines Reveals Diversity of Fungi and Local Adaptation by the Fungal Pathogen Pseudogymnoascus (Geomyces) destructans
Cited by: 37
Author(s): Tao Zhang, Tanya R. Victor, S. Rajkumar, Xiaojiang Li, Joseph C. Okoniewski, Alan C. Hicks, April Davis, Kelly Broussard, Shannon L. LaDeau, Sudha Chaturvedi
Software Mentions: 2
Published: about 10 years ago

10.1371/journal.pone.0189423

Analysis of the tonsillar microbiome in young adults with sore throat reveals a high relative abundance of Fusobacterium necrophorum with low diversity
Cited by: 15
Author(s): T. Prescott Atkinson, Robert M. Centor, Li Xiao, Fuchenchu Wang, Xiangqin Cui, William Van Der Pol, Casey D. Morrow, Amy E. Ratliff, Donna M. Crabb, Arthur H. Totten, Carlos A. Estrada, Michael B. Faircloth, Ken B. Waites
Software Mentions: 2
Published: almost 7 years ago

10.1186/s12859-016-1090-x

Bagging survival tree procedure for variable selection and prediction in the presence of nonsusceptible patients
Cited by: 8
Author(s): Cyprien Mbogning, Philippe Broët
Software Mentions: 2
Published: over 8 years ago

10.3390/cancers13153799

Altona Prognostic Index: A New Prognostic Index for ER-Positive and Her2-Negative Breast Cancer of No Special Type
Cited by: 2
Author(s): Anne-Sophie Wegscheider, Bernhard Ulm, Kay Friedrichs, Christoph Lindner, Axel Niendorf
Software Mentions: 2
Published: over 3 years ago

10.1007/s00412-020-00745-6

Analysis of the small chromosomal Prionium serratum (Cyperid) demonstrates the importance of reliable methods to differentiate between mono- and holocentricity
Cited by: 4
Author(s): Mariana Báez, Yi‐Tzu Kuo, Yhanndra Dias, Thaíssa Boldieri de Souza, Anastassia Boudichevskaia, Joerg Fuchs, Veit Schubert, André Luís Laforga Vanzela, Andrea Pedrosa‐Harand
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12913-018-3290-8

Integration of care for hypertension and diabetes: a scoping review assessing the evidence from systematic reviews and evaluating reporting
Cited by: 8
Author(s): Kristy C.Y. Yiu, Anke Rohwer, Taryn Young
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0227399

Do genetic ancestry tests increase racial essentialism? Findings from a randomized controlled trial
Cited by: 32
Author(s): Wendy D. Roth, Şule Yaylacı, Kaitlyn Jaffe, Lindsey Richardson
Software Mentions: 2
Published: almost 5 years ago

10.1371/journal.pone.0226567

The treeness of the tree of historical trees of life
Cited by: 2
Author(s): Marie Fisler, Cédric Crémière, Pierre Darlu, Guillaume Lecointre
Software Mentions: 2
Published: almost 5 years ago

10.1186/s12866-019-1690-5

Gut bacteria of weevils developing on plant roots under extreme desert conditions
Cited by: 12
Author(s): Fei Meng, Nitsan Bar‐Shmuel, R. Shavit, Adi Behar, Michal Segoli
Software Mentions: 2
Published: almost 5 years ago

10.1016/j.dib.2016.02.062

Data on phylogenetic analyses of gazelles (genus Gazella) based on mitochondrial and nuclear intron markers
Cited by: 3
Author(s): Hannes Lerp, Sebastian Klaus, Stefanie Allgöwer, Torsten Wronski, Markus Pfenninger, Martin Plath
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0097178

A Coding Method for Efficient Subgraph Querying on Vertex- and Edge-Labeled Graphs
Cited by: 1
Author(s): Lei Zhu, Qinbao Song, Yuchen Guo, Lei Du, Xiaoyan Zhu, Guangtao Wang
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0035532

Asymmetric Bidirectional Transcription from the FSHD-Causing D4Z4 Array Modulates DUX4 Production
Cited by: 20
Author(s): Gregory J. Block, Lisa M. Petek, Divya Narayanan, Amanda M. Amell, James M. Moore, Natalia A. Rabaia, Ashlee E. Tyler, Silvère M. van der Maarel, Rabi Tawil, Galina N. Filippova, Daniel G. Miller
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0020583

Multi-Scale Approach for Predicting Fish Species Distributions across Coral Reef Seascapes
Cited by: 206
Author(s): Simon J. Pittman, Kerry A. Brown
Software Mentions: 2
Published: over 13 years ago

10.1371/journal.pone.0137592

Biomarkers of Host Response Predict Primary End-Point Radiological Pneumonia in Tanzanian Children with Clinical Pneumonia: A Prospective Cohort Study
Cited by: 34
Author(s): Laura K. Erdman, Valérie D’Acremont, Kyla Hayford, Nimerta Rajwans, Mary Kilowoko, Esther Kyungu, Philipina Hongoa, Leonor Alamo, David L. Streiner, Blaise Genton, Kevin C. Kain
Software Mentions: 2
Published: about 9 years ago

10.1099/mgen.0.000429

Ancestral state reconstruction of metabolic pathways across pangenome ensembles
Cited by: 3
Author(s): Fotis Psomopoulos, Jacques van Helden, Claudine Médigue, Anastasia Chasapi, Christos A. Ouzounis
Software Mentions: 2
Published: about 4 years ago

10.3390/membranes10090211

The Best-Practice Organism for Single-Species Studies of Antimicrobial Efficacy against Biofilms Is Pseudomonas aeruginosa
Cited by: 3
Author(s): Anna Curtin, Matthew C. Thibodeau, Heather L. Buckley
Software Mentions: 2
Published: about 4 years ago

10.1186/s12864-018-4832-5

Grafting or pruning in the animal tree: lateral gene transfer and gene loss?
Cited by: 20
Author(s): Julie C. Dunning Hotopp
Software Mentions: 2
Published: over 6 years ago

10.3389/fnins.2021.669410

High Fructose Corn Syrup-Moderate Fat Diet Potentiates Anxio-Depressive Behavior and Alters Ventral Striatal Neuronal Signaling
Cited by: 10
Author(s): Ayanabha Chakraborti, Christopher D. Graham, Sophie B. Chehade, Bijal Vashi, Alan Umfress, Pradeep Kurup, Benjamin Vickers, H. Alexander Chen, Rahul Telange, Taylor F. Berryhill, William Van Der Pol, Mickie L. Powell, Stephen Barnes, Casey D. Morrow, Daniel L. Smith, M. Shahid Mukhtar, Stephen A. Watts, Gregory D. Kennedy, James A. Bibb
Software Mentions: 2
Published: over 3 years ago

10.1186/1471-2164-10-18

Identification of putative regulatory motifs in the upstream regions of co-expressed functional groups of genes in Plasmodium falciparum
Cited by: 23
Author(s): Prathima Iengar, N. V. Joshi
Software Mentions: 2
Published: almost 16 years ago

10.1371/journal.pone.0215901

Genome-wide identification and gene expression pattern of ABC transporter gene family in Capsicum spp.
Cited by: 34
Author(s): Carlos Lopez-Ortiz, Sunil Dutta, Purushothaman Natarajan, Yadira Peña-Garcia, Venkata Lakshmi Abburi, Thangasamy Saminathan, Padma Nimmakayala, Umesh K. Reddy
Software Mentions: 2
Published: over 5 years ago

Projects: pypi: Tree

Papers Mentioning Tree 286