10.1093/gigascience/giy049

Population genomic data reveal genes related to important traits of quail
Cited by: 23
Author(s): Yan Wu, Yaolei Zhang, Zhuocheng Hou, Guangyi Fan, Jinsong Pi, Shuai Sun, Chen Jiang, Huaqiao Liu, Xiao Du, Jie Shen, Gang Hu, Wenbin Chen, Angelo Pan, Yin PingPing, Xiaoli Chen, Yuejin Pu, Zhonghu He, Zhen-Hua Liang, Jianbo Jian, Hao Zhang, Bin Wu, Jing Sun, Jianwei Chen, Hu Tao, Ting Yang, Hong‐Wei Xiao, Huan Yang, Chuanwei Zheng, Mingzhou Bai, Xiaodong Fang, David W. Burt, Wen Wang, Qingyi Li, Xun Xu, Chengfeng Li, Huanming Yang, Jian Wang, Ning Yang, Xin Liu, Junzheng Du
Software Mentions: 4
Published: over 8 years ago

10.1371/journal.pone.0249583

Innovation indicators based on firm websites—Which website characteristics predict firm-level innovation activity?
Cited by: 8
Author(s): Janna Axenbeck, Patrick Breithaupt
Software Mentions: 4
Published: over 5 years ago

10.1002/1878-0261.12367

ABCA1 overexpression worsens colorectal cancer prognosis by facilitating tumour growth and caveolin‐1‐dependent invasiveness, and these effects can be ameliorated using the <scp>BET</scp> inhibitor apabetalone
Cited by: 70
Author(s): Cristina Aguirre-Portolés, Jaime Feliú, Guillermo Reglero, Ana Ramı́rez de Molina
Software Mentions: 4
Published: almost 8 years ago

10.1038/s41598-021-81329-x

Spatiotemporal clustering and Random Forest models to identify risk factors of African swine fever outbreak in Romania in 2018–2019
Cited by: 20
Author(s): Mathieu Andraud, Stéphanie Bougeard, Theodora Chesnoiu, Nicolas Rose
Software Mentions: 4
Published: over 5 years ago

10.3389/fendo.2021.714561

Biased Coupling to β-Arrestin of Two Common Variants of the CB2 Cannabinoid Receptor
Cited by: 9
Author(s): Gábor Turu, Eszter Soltész‐Katona, András Tóth, C.C. Juhasz, Miklós Cserző, Ádám Misák, András Balla, Marc G. Caron, László Hunyady
Software Mentions: 4
Published: almost 5 years ago

10.1186/s12893-020-00969-4

A novel nomogram for predicting liver metastasis in patients with gastrointestinal stromal tumor: a SEER-based study
Cited by: 8
Author(s): Guowei Zhou, Keshuai Xiao, Guanwen Gong, Jiabao Wu, Ya Zhang, Xinxin Liu, Zhiwei Jiang, Chaoqun Ma
Software Mentions: 4
Published: over 5 years ago

10.1186/s12915-021-01122-0

Single-cell analysis of cell fate bifurcation in the chordate Ciona
Cited by: 4
Author(s): Konner Winkley, Wendy Reeves, Michael Veeman
Software Mentions: 4
Published: almost 5 years ago

10.1186/s13072-020-00355-7

N6-Adenosine methylation on mRNA is recognized by YTH2 domain protein of human malaria parasite Plasmodium falciparum
Cited by: 11
Author(s): Gayathri Govindaraju, Rajashekar Varma Kadumuri, Devadathan Valiyamangalath Sethumadhavan, C. A. Jabeena, Sreenivas Chavali, Arumugam Rajavelu
Software Mentions: 4
Published: almost 6 years ago

10.1098/rstb.2019.0175

Pronounced somatic bottleneck in mitochondrial DNA of human hair
Cited by: 17
Author(s): Alison Barrett, Barbara Arbeithuber, Arslan Zaidi, Peter R. Wilton, Ian M. Paul, Rasmus Nielsen, Kateryna D. Makova
Software Mentions: 4
Published: over 6 years ago

10.3390/jcm10173943

Targeted Temperature Management after Cardiac Arrest: A Systematic Review and Meta-Analysis with Trial Sequential Analysis
Cited by: 14
Author(s): Filippo Sanfilippo, Luigi La Via, Bruno Lanzafame, Veronica Dezio, Diana Busalacchi, Antonio Messina, Giuseppe Ristagno, Paolo Pelosi, Marinella Astuto
Software Mentions: 4
Published: almost 5 years ago

10.1186/s12893-019-0513-9

Age-adjusted Charlson Comorbidity Index (ACCI) is a significant factor for predicting survival after radical gastrectomy in patients with gastric cancer
Cited by: 36
Author(s): Lin Ji, Yingqi Huang, Jian‐Wei Xie, Jia-Bin Wang, Jun Lü, Qi‐Yue Chen, Long‐Long Cao, Lin Ma, Ru‐Hong Tu, Ze‐Ning Huang, Ju‐Li Lin, Ping Li, Chang‐Ming Huang, Chao-Hui Zheng
Software Mentions: 4
Published: about 7 years ago

10.1186/1471-2105-14-S7-S14

Examples of sequence conservation analyses capture a subset of mouse long non-coding RNAs sharing homology with fish conserved genomic elements
Cited by: 16
Author(s): Swaraj Basu, Ferenc Müller, Remo Sanges
Software Mentions: 4
Published: over 13 years ago

10.1371/journal.pone.0215465

FDG PET based prediction of response in head and neck cancer treatment: Assessment of new quantitative imaging features
Cited by: 18
Author(s): Reinhard Beichel, Ethan Ulrich, Brian J. Smith, Christian Bauer, Bruce P. Brown, Thomas L. Casavant, John Sunderland, Michael M. Graham, John M. Buatti
Software Mentions: 4
Published: over 7 years ago

10.7554/eLife.51027

Estimates of the global burden of Japanese encephalitis and the impact of vaccination from 2000-2015
Cited by: 62
Author(s): Quan Minh Tran, Tran Thi Nhu Thao, Manh-Duy Nguyen, Tran Minh Nhat, Hannah E. Clapham
Software Mentions: 4
Published: about 6 years ago

10.1007/s10552-021-01453-x

Prostate cancer survival in sub-Saharan Africa by age, stage at diagnosis, and human development index: a population-based registry study
Cited by: 10
Author(s): Tobias Paul Seraphin, Walburga Yvonne Joko‐Fru, Shyam Shunker Manraj, Eric Chokunonga, Nontuthuzelo Somdyala, Anne Korir, Guy N’da, Anne Finesse, Henry Wabinga, Mathewos Assefa, Freddy Gnangnon, Rasmus Hvass Hansen, Nathan Buziba, Biying Liu, Eva Johanna Kantelhardt, Donald Maxwell Parkin
Software Mentions: 4
Published: about 5 years ago

10.1038/s41598-021-94696-2

Improving prediction of COVID-19 evolution by fusing epidemiological and mobility data
Cited by: 25
Author(s): Santi García-Cremades, Juan Morales-García, Rocío Hernández-Sanjaime, Raquel Martínez‐España, Andrés Bueno-Crespo, Enrique Hernández-Orallo, José J. López-Espín, José M. Cecilia
Software Mentions: 4
Published: about 5 years ago

10.2196/12443

Identifying Key Target Audiences for Public Health Campaigns: Leveraging Machine Learning in the Case of Hookah Tobacco Smoking
Cited by: 14
Author(s): Kar-Hai Chu, Jason B. Colditz, Momin M. Malik, Tabitha Yates, Brian A. Primack
Software Mentions: 4
Published: about 7 years ago

10.3389/fonc.2020.01638

Establishment of Decision Rules and Risk Assessment Model for Preoperative Prediction of Lymph Node Metastasis in Gastric Cancer
Cited by: 9
Author(s): Chao Huang, Cegui Hu, Jinfeng Zhu, Wenjun Zhang, Jun Huang, Zhengming Zhu
Software Mentions: 4
Published: almost 6 years ago

10.1038/s41598-020-73505-2

Germline BRCA 1-2 status prediction through ovarian ultrasound images radiogenomics: a hypothesis generating study (PROBE study)
Cited by: 12
Author(s): Camilla Nero, Francesca Ciccarone, Luca Boldrini, Jacopo Lenkowicz, Ida Paris, Ettore Capoluongo, Antonia Carla Testa, Anna Fagotti, Vincenzo Valentini, Giovanni Scambia
Software Mentions: 4
Published: almost 6 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: almost 8 years ago

10.1186/1471-2164-15-1081

Adaptive genomic structural variation in the grape powdery mildew pathogen, Erysiphe necator
Cited by: 137
Author(s): Laura M. Jones, Summaira Riaz, Abraham Morales‐Cruz, Katherine C. H. Amrine, Brianna McGuire, W. D. Gubler, Michael Walker, Dario Cantu
Software Mentions: 4
Published: over 11 years ago

10.1186/s12864-017-4183-7

Transcriptome analyses reveal SR45 to be a neutral splicing regulator and a suppressor of innate immunity in Arabidopsis thaliana
Cited by: 49
Author(s): Xiaoning Zhang, Yi-Fei Shi, Jordan J. Powers, Niraj Gowda, Chong Zhang, Heba M. M. Ibrahim, Hannah B. Ball, Samuel Chen, Hua Lu, Stephen M. Mount
Software Mentions: 4
Published: almost 9 years ago

10.1371/journal.pone.0177459

Singularity: Scientific containers for mobility of compute
Cited by: 895
Author(s): Gregory M. Kurtzer, Vanessa Sochat, Michael Bauer
Software Mentions: 4
Published: about 9 years ago

10.3389/fonc.2021.618677

Development and Validation a Nomogram Incorporating CT Radiomics Signatures and Radiological Features for Differentiating Invasive Adenocarcinoma From Adenocarcinoma In Situ and Minimally Invasive Adenocarcinoma Presenting as Ground-Glass Nodules Measuring 5-10mm in Diameter
Cited by: 11
Author(s): Lili Shi, Wei Shi, Xueqing Peng, Yi Zhan, Linxiao Zhou, Yunpeng Wang, Mingxiang Feng, Jing Zhao, Fei Shan, Lei Liu
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0254089

Cervical cancer risk and access: Utilizing three statistical tools to assess Haitian women in South Florida
Cited by: 2
Author(s): R Moïse, Raymond R. Balise, Camille Ragin, Erin Kobetz
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0178931

In silico discovery of substituted pyrido[2,3-d]pyrimidines and pentamidine-like compounds with biological activity in myotonic dystrophy models
Cited by: 10
Author(s): Àlex L. González, Piotr Konieczny, Beatriz Llamusí, Estefanía Delgado‐Pinar, José I. Borrell, Jordi Teixidó, Enrique García‐España, Manuel Pérez-Alonso, Roger Estrada‐Tejedor, Rubén Artero
Software Mentions: 4
Published: about 9 years ago

10.7554/eLife.22039

Mapping cell type-specific transcriptional enhancers using high affinity, lineage-specific Ep300 bioChIP-seq
Cited by: 48
Author(s): Pingzhu Zhou, Fei Gu, Lina Zhang, Brynn N. Akerberg, Qing Ma, Kai Li, Aibin He, Zhiqiang Lin, Sean Stevens, Bin Zhou, William T. Pu
Software Mentions: 4
Published: over 9 years ago

10.1186/1752-0509-1-13

Systems biology by the rules: hybrid intelligent systems for pathway modeling and discovery
Cited by: 59
Author(s): William J. Bosl
Software Mentions: 4
Published: over 19 years ago

10.3390/healthcare9070884

Children’s Activity Classification for Domestic Risk Scenarios Using Environmental Sound and a Bayesian Network
Cited by: 3
Author(s): Antonio García-Domínguez, Carlos E. Galván-Tejada, Ramón F. Brena, Antonio A. Aguileta, Jorge I. Galván-Tejada, Hamurabi Gamboa-Rosales, José M. Celaya-Padilla, Huizilopoztli Luna-García
Software Mentions: 4
Published: about 5 years ago

10.1042/BSR20210583

Identification and validation of <i>ADME</i> genes as prognosis and therapy markers for hepatocellular carcinoma patients
Cited by: 4
Author(s): Jukun Wang, Ke Han, Chao Zhang, Xin Chen, Li Yu, Linzhong Zhu, Tao Luo
Software Mentions: 4
Published: over 5 years ago

10.2196/26953

Tweet Topics and Sentiments Relating to COVID-19 Vaccination Among Australian Twitter Users: Machine Learning Analysis
Cited by: 130
Author(s): Stephen Wai Hang Kwok, Sai Kumar Vadde, Guanjin Wang
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0200785

Identification of 613 new loci associated with heel bone mineral density and a polygenic risk score for bone mineral density, osteoporosis and fracture
Cited by: 125
Author(s): Stuart K. Kim
Software Mentions: 4
Published: about 8 years ago

10.3390/s140101155

A Methodology to Assess the Accuracy with which Remote Data Characterize a Specific Surface, as a Function of Full Width at Half Maximum (FWHM): Application to Three Italian Coastal Waters
Cited by: 12
Author(s): Rosa Maria Cavalli, Mattia Betti, Alessandra Campanelli, Annalisa Di Cicco, Daniela Guglietta, Pierluigi Penna, Viviana Piermattei
Software Mentions: 4
Published: over 12 years ago

10.1371/journal.pone.0165705

Propensity Scoring after Multiple Imputation in a Retrospective Study on Adjuvant Radiation Therapy in Lymph-Node Positive Vulvar Cancer
Cited by: 15
Author(s): Christine zu Eulenburg, Anna Suling, Petra Neuser, Alexander Reuß, Ulrich Canzler, Tanja Fehm, Alexander Luyten, Martin Hellriegel, Linn Woelber, Sven Mahner
Software Mentions: 4
Published: almost 10 years ago

10.1038/sdata.2018.55

Massively parallel recordings in macaque motor cortex during an instructed delayed reach-to-grasp task
Cited by: 41
Author(s): Thomas Brochier, Lyuba Zehl, Yaoyao Hao, Margaux Duret, Julia Sprenger, Michael Denker, Sonja Grün, Alexa Riehle
Software Mentions: 4
Published: over 8 years ago

10.3390/ijerph15051048

Reconciling the Entomological Hazard and Disease Risk in the Lyme Disease System
Cited by: 17
Author(s): Max McClure, Maria A. Diuk‐Wasser
Software Mentions: 4
Published: about 8 years ago

10.1186/s12859-017-1663-3

“gnparser”: a powerful parser for scientific names based on Parsing Expression Grammar
Cited by: 10
Author(s): Dmitry Mozzherin, Alexander A. Myltsev, David J. Patterson
Software Mentions: 4
Published: about 9 years ago

10.1002/acn3.50924

Impaired cognition predicts the risk of hospitalization and death in cirrhosis
Cited by: 9
Author(s): Minjee Kim, Eric M. Liotta, Phyllis C. Zee, Daniel Ganger, Daniela P. Ladner, Ameeta Karmarkar, John Devin Peipert, Farzaneh A. Sorond, Shyam Prabhakaran, Kathryn J. Reid, Andrew M. Naidech, Matthew B. Maas
Software Mentions: 4
Published: almost 7 years ago

10.3390/biology10020072

Plant Endemism Centres and Biodiversity Hotspots in Greece
Cited by: 45
Author(s): Konstantinos Kougioumoutzis, Ioannis Kokkoris, Maria Panitsa, Athanasios S. Kallimanis, Arne Strid, Panayotis Dimopoulos
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0098404

Deep Sequencing Reveals New Aspects of Progesterone Receptor Signaling in Breast Cancer Cells
Cited by: 12
Author(s): Anastasia Kougioumtzi, Panayiotis Tsaparas, Angeliki Magklara
Software Mentions: 4
Published: about 12 years ago

10.1371/journal.pone.0186435

Identification of cis-regulatory sequences reveals potential participation of lola and Deaf1 transcription factors in Anopheles gambiae innate immune response
Cited by: 14
Author(s): Bernardo Pérez-Zamorano, Sandra Rosas‐Madrigal, Oscar Arturo Migueles Lozano, Manuel Castillo Méndez, Verónica Valverde-Garduño
Software Mentions: 4
Published: almost 9 years ago

10.1038/s41598-020-63764-4

SEER and Gene Expression Data Analysis Deciphers Racial Disparity Patterns in Prostate Cancer Mortality and the Public Health Implication
Cited by: 7
Author(s): Wensheng Zhang, Yan Dong, Oliver Sartor, Erik K. Flemington, Kun Zhang
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pmed.1002683

Variable generalization performance of a deep learning model to detect pneumonia in chest radiographs: A cross-sectional study
Cited by: 809
Author(s): John R. Zech, Marcus A. Badgeley, Manway Liu, Anthony Costa, J. Titano, Eric K. Oermann
Software Mentions: 4
Published: almost 8 years ago

10.1534/g3.120.401479

Genomic Patterns of Introgression in Interspecific Populations Created by Crossing Wheat with Its Wild Relative
Cited by: 12
Author(s): Moses Nyine, Elina Adhikari, Marshall Clinesmith, Katherine Jordan, Allan K. Fritz, Eduard Akhunov
Software Mentions: 4
Published: almost 6 years ago

10.1038/s41597-019-0086-6

Posterior samples of the parameters of binary black holes from Advanced LIGO, Virgo’s second observing run
Cited by: 8
Author(s): S. De, C. Biwer, Collin D. Capano, A. Nitz, D. A. Brown
Software Mentions: 4
Published: about 7 years ago

10.3389/fpls.2014.00406

Use of whole genome sequences to develop a molecular phylogenetic framework for Rhodococcus fascians and the Rhodococcus genus
Cited by: 27
Author(s): Allison Creason, Edward W. Davis, M. L. Putnam, Olivier M. Vandeputte, Jeff H. Chang
Software Mentions: 4
Published: almost 12 years ago

10.1038/s41598-017-10558-w

Development and validation of a multivariate predictive model for rheumatoid arthritis mortality using a machine learning approach
Cited by: 45
Author(s): José M. Lezcano-Valverde, Fernando Salazar, Leticia León, Esther Toledano, Juan A. Jover, Eduardo Soudah, Isidoro González‐Álvaro, Lydia Abásolo, Luis Rodríguez‐Rodríguez
Software Mentions: 4
Published: almost 9 years ago

10.1016/j.cels.2019.11.006

Guiding the Refinement of Biochemical Knowledgebases with Ensembles of Metabolic Networks and Machine Learning
Cited by: 44
Author(s): Gregory L. Medlock, Jason A. Papin
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pcbi.1008489

A novel virtual screening procedure identifies Pralatrexate as inhibitor of SARS-CoV-2 RdRp and it reduces viral replication in vitro
Cited by: 40
Author(s): Haiping Zhang, Yang Yang, Junxin Li, Min Wang, Konda Mani Saravanan, Jinli Wei, Jiawei Ng, Tofazzal Hossain, Maoxuan Liu, Huiling Zhang, Xiaohu Ren, Yi Pan, Yin Peng, Yi Shi, Xiaochun Wan, Yingxia Liu, Yanjie Wei
Software Mentions: 4
Published: over 5 years ago

10.1002/ece3.6826

Are native and non‐native pollinator friendly plants equally valuable for native wild bee communities?
Cited by: 31
Author(s): Nicola Seitz, Dennis vanEngelsdorp, Sara D. Leonhardt
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12864-020-07132-6

Progress in quickly finding orthologs as reciprocal best hits: comparing blast, last, diamond and MMseqs2
Cited by: 35
Author(s): Julie E. Hernández-Salmerón, Gabriel Moreno‐Hagelsieb
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0255803

In silico identification of natural product inhibitors against Octamer-binding transcription factor 4 (Oct4) to impede the mechanism of glioma stem cells
Cited by: 5
Author(s): Chirasmita Nayak, Sanjeev Kumar Singh
Software Mentions: 4
Published: almost 5 years ago

10.1016/j.cmet.2020.02.016

Sugar-Induced Obesity and Insulin Resistance Are Uncoupled from Shortened Survival in Drosophila
Cited by: 62
Author(s): Esther van Dam, Lucie A.G. van Leeuwen, Eliano Dos Santos, Joanna L. James, Lena Best, Claudia Lennicke, Alec Vincent, Γεώργιος Μαρίνος, A. Reghan Foley, Marcela Buricova, João Benhur Mokochinski, Holger Kramer, Wolfgang Lieb, Matthias Laudes, André Franke, Christoph Kaleta, Helena M. Cochemé
Software Mentions: 4
Published: over 6 years ago

10.1101/2021.01.25.428049

Haploflow: Strain-resolved <i>de novo</i> assembly of viral genomes
Cited by: 3
Author(s): Adrian Fritz, Andreas Bremges, Zhi-Luo Deng, Till Robin Lesker, Jasper Götting, Tina Ganzenmüller, Alexander Sczyrba, Alexander Dilthey, Frank Klawonn, Alice C. McHardy
Software Mentions: 4
Published: over 5 years ago

10.1186/s12915-020-00802-7

A chromosome-level assembly of the cat flea genome uncovers rampant gene duplication and genome size plasticity
Cited by: 25
Author(s): Timothy Driscoll, Victoria I. Verhoeve, Joseph J. Gillespie, J. Spencer Johnston, Mark L. Guillotte, Kristen E. Rennoll-Bankert, M. Sayeedur Rahman, Darren E. Hagen, Christine G. Elsik, Kevin R. Macaluso, Abdu F. Azad
Software Mentions: 4
Published: about 6 years ago

10.3389/fpls.2015.00485

Context dependency and saturating effects of loss of rare soil microbes on plant productivity
Cited by: 52
Author(s): W. H. Gera Hol, Wietse de Boer, Mattias de Hollander, Eiko E. Kuramae, Annelein Meisner, Wim H. van der Putten
Software Mentions: 4
Published: about 11 years ago

10.1371/journal.pone.0215986

Characterization of the transcriptome of Haloferax volcanii, grown under four different conditions, with mixed RNA-Seq
Cited by: 27
Author(s): Sebastian Laaß, Vivian Monzon, Jana Kliemt, M Hammelmann, Friedhelm Pfeiffer, Konrad U. Förstner, Jörg Soppa
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pcbi.1008284

Dissecting the regulatory roles of ORM proteins in the sphingolipid pathway of plants
Cited by: 5
Author(s): Adil Alsiyabi, Ariadna González-Solís, Edgar B. Cahoon, Rajib Saha
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0127798

Olive Fruit Fly (Bactrocera oleae) Population Dynamics in the Eastern Mediterranean: Influence of Exogenous Uncertainty on a Monophagous Frugivorous Insect
Cited by: 30
Author(s): Mariano Ordano, Izhar Engelhard, Polychronis Rempoulakis, Esther Nemny-Lavy, Moshe Blum, Sami Yasin, Itamar M. Lensky, Nikos T. Papadopoulos, David Nestel
Software Mentions: 4
Published: about 11 years ago

10.1186/gb-2008-9-1-r7

Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments
Cited by: 2,092
Author(s): Brian J. Haas, Steven L. Salzberg, Wei Zhu, Mihaela Pertea, Jonathan Allen, Joshua Orvis, Owen White, C. Robin Buell, Jennifer Wortman
Software Mentions: 4
Published: over 18 years ago

10.7554/eLife.62438

Regulatory roles of Escherichia coli 5' UTR and ORF-internal RNAs detected by 3' end mapping
Cited by: 52
Author(s): Philip P. Adams, Gabriele Baniulyte, Caroline Esnault, Kavya Chegireddy, Navjot Singh, Molly Monge, Ryan Dale, Gisela Storz, Joseph T. Wade
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0132448

A Quantitative Profiling Tool for Diverse Genomic Data Types Reveals Potential Associations between Chromatin and Pre-mRNA Processing
Cited by: 5
Author(s): Isaac Kremsky, Nicolás Bellora, Eduardo Eyras
Software Mentions: 4
Published: about 11 years ago

10.1371/journal.pcbi.1007924

A validation framework for neuroimaging software: The case of population receptive fields
Cited by: 28
Author(s): Garikoitz Lerma-Usabiaga, Noah C. Benson, Jonathan Winawer, Brian A. Wandell
Software Mentions: 4
Published: about 6 years ago

10.1093/gbe/evw262

Salmonid chromosome evolution as revealed by a novel method for comparing RADseq linkage maps
Cited by: 38
Author(s): Ben J. G. Sutherland, Thierry Gosselin, Éric Normandeau, Manuel Lamothe, Nathalie Isabel, Céline Audet, Louis Bernatchez
Software Mentions: 4
Published: almost 10 years ago

10.1186/s12879-021-06041-7

Leprosy detection rate in patients under immunosuppression for the treatment of dermatological, rheumatological, and gastroenterological diseases: a systematic review of the literature and meta-analysis
Cited by: 5
Author(s): Daniel Holanda Barroso, Jurema Guerrieri Brandão, Elaine Silva Nascimento Andrade, Ana Clara Banhatto Correia, Danielle Costa Aquino, Ana Carolina Rios Chen, Sebastián Vernal, Wildo Navegantes de Araújo, Lícia Maria Henrique da Mota, Raimunda Nonata Ribeiro Sampaio, Patrícia Shu Kurizky, Ciro Martins Gomes
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0255545

Comparative efficacy of single-inhaler triple therapies for COPD: A protocol for systematic review and network meta-analysis
Cited by: 0
Author(s): Yu-Long Jiang, Hao Hu, Siu-wai Leung
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pcbi.1008476

Hi-C implementation of genome structure for in silico models of radiation-induced DNA damage
Cited by: 7
Author(s): Samuel Ingram, Nicholas Henthorn, John-William Warmenhoven, N.F. Kirkby, Ranald I Mackay, Karen J Kirkby, Michael J Merchant
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0199902

Annotation, classification, genomic organization and expression of the Vitis vinifera CYPome
Cited by: 8
Author(s): Tina Ilc, Gautier Arista, Raquel Tavares, Nicolas Navrot, Éric Duchêne, Amandine Velt, Frédéric Choulet, Etienne Paux, Marc Fischer, David R. Nelson, Philippe Hugueney, Danièle Werck‐Reichhart, Camille Rustenholz
Software Mentions: 4
Published: about 8 years ago

10.1186/1471-2164-15-218

Deciphering gamma-decalactone biosynthesis in strawberry fruit using a combination of genetic mapping, RNA-Seq and eQTL analyses
Cited by: 60
Author(s): José F. Sánchez-Sevilla, Eduardo Cruz-Rus, Victoriano Valpuesta, Miguel A. Botella, Iraida Amaya
Software Mentions: 4
Published: over 12 years ago

10.7717/peerj.4705

DNA metabarcoding of littoral hard-bottom communities: high diversity and database gaps revealed by two molecular markers
Cited by: 149
Author(s): Owen S. Wangensteen, Creu Palacín, Magdalena Guardiola, Xavier Turon
Software Mentions: 4
Published: over 8 years ago

10.1186/s12864-020-07200-x

iCLIP analysis of RNA substrates of the archaeal exosome
Cited by: 2
Author(s): Jochen Bathke, A. Susann Gauernack, Oliver Rupp, Lennart Weber, Christian Preußer, Marcus Lechner, Oliver Roßbach, Alexander Goesmann, Elena Evguenieva‐Hackenberg, Gabriele Klug
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pbio.3000123

Structural basis of DSF recognition by its receptor RpfR and its regulatory interaction with the DSF synthase RpfF
Cited by: 22
Author(s): E.J. Waldron, Donald R. Snyder, Nicolas L. Fernandez, Emily Sileo, Daigo Inoyama, Joel S. Freundlich, Christopher M. Waters, Vaughn S. Cooper, Matthew B. Neiditch
Software Mentions: 4
Published: over 7 years ago

10.3390/s19081933

A Review of Remote Sensing Approaches for Monitoring Blue Carbon Ecosystems: Mangroves, Seagrassesand Salt Marshes during 2010–2018
Cited by: 83
Author(s): Tien Dat Pham, Junshi Xia, Nam Thang Ha, Dieu Tien Bui, Nga Nhu Le, Wataru Tekeuchi
Software Mentions: 4
Published: over 7 years ago

10.3390/md17110601

Fungal Diversity in Intertidal Mudflats and Abandoned Solar Salterns as a Source for Biological Resources
Cited by: 18
Author(s): Young Mok Heo, Hanbyul Lee, Kyeongwon Kim, Sun Lul Kwon, Min Young Park, Ji Eun Kang, Gyu Hyeok Kim, Beom Seok Kim, Jae Jin Kim
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pcbi.1009040

A reaction-diffusion network model predicts a dual role of Cactus/IκB to regulate Dorsal/NFκB nuclear translocation in Drosophila
Cited by: 0
Author(s): Claudio D. T. Barros, Maira Arruda Cardoso, Paulo Mascarello Bisch, Helena Araujo, Francisco J. P. Lopes
Software Mentions: 4
Published: about 5 years ago

10.1107/S2059798316001224

Direct-methods structure determination of a trypanosome RNA-editing substrate fragment with translational pseudosymmetry
Cited by: 5
Author(s): Blaine H. M. Mooers
Software Mentions: 4
Published: over 10 years ago

10.1371/journal.pcbi.1003107

Bacteria-Human Somatic Cell Lateral Gene Transfer Is Enriched in Cancer Samples
Cited by: 125
Author(s): David R. Riley, Karsten B. Sieber, Kelly Robinson, James R. White, Ashwinkumar Ganesan, Syrus Nourbakhsh, Julie C. Dunning Hotopp
Software Mentions: 4
Published: about 13 years ago

10.3390/life11020113

Transcriptomic Analysis of the Anthocyanin Biosynthetic Pathway Reveals the Molecular Mechanism Associated with Purple Color Formation in Dendrobium Nestor
Cited by: 12
Author(s): Xueqiang Cui, Deng Jieling, Chongxing Huang, Xuan Tang, Xianmin Li, Xiuling Li, Lu JiaShi, Zibin Zhang
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0242677

Structures of three MORN repeat proteins and a re-evaluation of the proposed lipid-binding properties of MORN repeats
Cited by: 16
Author(s): Sara Sajko, Irina Grishkovskaya, Július Košťan, Melissa A. Graewert, Kim Setiawan, Linda Trübestein, Korbinian Niedermüller, Charlotte Gehin, Antonio Sponga, Martin Puchinger, Anne‐Claude Gavin, Thomas A. Leonard, D. I. Svergun, Terry Smith, Brooke Morriswood, Kristina Djinović-Carugo
Software Mentions: 4
Published: over 5 years ago

10.3390/s20247289

On the Fidelity of NS-3 Simulations of Wireless Multipath TCP Connections
Cited by: 3
Author(s): Monika Prakash, Atef Abdrabou
Software Mentions: 4
Published: over 5 years ago

10.1186/s12859-015-0644-7

SuRankCo: supervised ranking of contigs in de novo assemblies
Cited by: 13
Author(s): Mathias Kuhring, Piotr Wojtek Dabrowski, Vitor C. Piro, Andreas Nitsche, Bernhard Y. Renard
Software Mentions: 4
Published: about 11 years ago

10.1007/s00701-021-04794-3

Radiotherapy versus combination radiotherapy-bevacizumab for the treatment of recurrent high-grade glioma: a systematic review
Cited by: 17
Author(s): Daniel Kulinich, John P. Sheppard, Thien Nguyen, Aditya Kondajji, Ansley Unterberger, Courtney Duong, Adam Enomoto, Kunal Patel, Isaac Yang
Software Mentions: 4
Published: over 5 years ago

10.3389/fcimb.2020.594778

Biliary Microbial Structure of Gallstone Patients With a History of Endoscopic Sphincterotomy Surgery
Cited by: 6
Author(s): Haikang Shen, Juanjuan Zhu, Fuqiang Ye, Danyi Xu, Liang Fang, Jianfeng Yang, Huijie Lv, Qifeng Lou, Hangbin Jin, Ming Ni, Xiaofeng Zhang
Software Mentions: 4
Published: over 5 years ago

10.3389/fpls.2020.00765

Different Predictors Shape the Diversity Patterns of Epiphytic and Non-epiphytic Liverworts in Montane Forests of Uganda
Cited by: 3
Author(s): Karola Maul, Yu‐Mei Wei, Martin Nebel, Federico Luebert, Boon‐Chuan Ho, Dietmar Quandt, Michael Kessler
Software Mentions: 4
Published: about 6 years ago

10.7554/eLife.19893

The MBD7 complex promotes expression of methylated transgenes without significantly altering their methylation status
Cited by: 16
Author(s): Dongming Li, Ana Marie S. Palanca, So Youn Won, Lei Gao, Ying Feng, Ajay A. Vashisht, Li Liu, Yuanyuan Zhao, Xigang Liu, Xiuyun Wu, Shaofang Li, Brandon H. Le, Yun Ju Kim, Guodong Yang, Shengben Li, Jinyuan Liu, James A. Wohlschlegel, Hongwei Guo, Beixin Mo, Xuemei Chen, Julie A. Law
Software Mentions: 4
Published: over 9 years ago

10.3389/fpls.2017.01279

Sequence Polymorphisms and Structural Variations among Four Grapevine (Vitis vinifera L.) Cultivars Representing Sardinian Agriculture
Cited by: 23
Author(s): Luca Mercenaro, G. Nieddu, Andrea Porceddu, Mario Pezzotti, Salvatore Camiolo
Software Mentions: 4
Published: about 9 years ago

10.1038/s41598-020-80145-z

Sex-specific differences in peripheral blood leukocyte transcriptional response to LPS are enriched for HLA region and X chromosome genes
Cited by: 10
Author(s): Michelle M. Stein, Mitchell Conery, Kevin M. Magnaye, Selene M. Clay, Christine Billstrand, Raluca Nicolae, Katherine A. Naughton, Carole Ober, Emma E. Thompson
Software Mentions: 4
Published: over 5 years ago

10.3389/fcell.2021.649168

Pan-Cancer Genome-Wide DNA Methylation Analyses Revealed That Hypermethylation Influences 3D Architecture and Gene Expression Dysregulation in HOXA Locus During Carcinogenesis of Cancers
Cited by: 3
Author(s): Gang Liu, Zhenhao Liu, Xiaomeng Sun, Xiaoqiong Xia, Yunhe Liu, Lei Liu
Software Mentions: 4
Published: over 5 years ago

10.1128/mBio.00530-17

Methane-Fueled Syntrophy through Extracellular Electron Transfer: Uncovering the Genomic Traits Conserved within Diverse Bacterial Partners of Anaerobic Methanotrophic Archaea
Cited by: 53
Author(s): Connor T. Skennerton, Karuna Chourey, Ramsunder Iyer, Robert L. Hettich, Gene W. Tyson, Victoria J. Orphan
Software Mentions: 4
Published: almost 9 years ago

10.1371/journal.pone.0221855

Preferences and perceptions of the recreational spearfishery of the Great Barrier Reef
Cited by: 5
Author(s): Thea E. Bradford, Kennedy Wolfe, Peter J. Mumby
Software Mentions: 4
Published: almost 7 years ago

10.3390/s21020430

WSN-SES/MB: System Entity Structure and Model Base Framework for Large-Scale Wireless Sensor Networks
Cited by: 6
Author(s): Su Man Nam, Hyung Jong Kim
Software Mentions: 4
Published: over 5 years ago

10.1186/s13104-016-2064-9

DAMe: a toolkit for the initial processing of datasets with PCR replicates of double-tagged amplicons for DNA metabarcoding analyses
Cited by: 40
Author(s): Marie Lisandra Zepeda Mendoza, Kristine Bohmann, Aldo Carmona Baez, M. Thomas P. Gilbert
Software Mentions: 4
Published: over 10 years ago

10.1038/s41598-019-39142-0

Unlocking HDR-mediated nucleotide editing by identifying high-efficiency target sites using machine learning
Cited by: 30
Author(s): Aidan O’Brien, Laurence O.W. Wilson, Gaétan Burgio, Denis C. Bauer
Software Mentions: 4
Published: over 7 years ago

10.1186/s12918-018-0566-x

KF-finder: identification of key factors from host-microbial networks in cervical cancer
Cited by: 15
Author(s): Jialu Hu, Yiqun Gao, Yanyan Zheng, Xuequn Shang
Software Mentions: 4
Published: over 8 years ago

10.3390/s21113600

Development and Validation of an ISA100.11a Simulation Model for Accurate Industrial WSN Planning and Deployment
Cited by: 1
Author(s): Zoltan Padrah, Andra Pastrav, Tudor Palade, Ovidiu Ratiu, Emanuel Puşchiţă
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0213910

Using GPS collars to investigate the frequency and behavioural outcomes of intraspecific interactions among carnivores: A case study of male cheetahs in the Maasai Mara, Kenya
Cited by: 19
Author(s): Femke Broekhuis, Emily K. Madsen, Kosiom Keiwua, David W. Macdonald
Software Mentions: 4
Published: over 7 years ago

10.3389/fpls.2021.648026

Clarifying Recent Adaptive Diversification of the Chrysanthemum-Group on the Basis of an Updated Multilocus Phylogeny of Subtribe Artemisiinae (Asteraceae: Anthemideae)
Cited by: 10
Author(s): Chen Shen, Chujie Zhang, Jie Chen, Yanping Guo
Software Mentions: 4
Published: about 5 years ago

10.3389/fimmu.2020.01192

Behçet's Disease Under Microbiotic Surveillance? A Combined Analysis of Two Cohorts of Behçet's Disease Patients
Cited by: 21
Author(s): Tim B. van der Houwen, Jan A. M. van Laar, Jasper H Kappen, P. Martin van Hagen, Marcel R. de Zoete, Guus H. van Muijlwijk, Roos-Marijn Berbers, Ad C. Fluit, Malbert R. C. Rogers, James Groot, C. Marijn Hazelbag, Clarissa Consolandi, Marco Severgnini, Clelia Peano, Mario Milco D’Elios, Giacomo Emmi, Helen L. Leavis
Software Mentions: 4
Published: about 6 years ago

10.7554/eLife.46981

Transcriptional landscape of myogenesis from human pluripotent stem cells reveals a key role of TWIST1 in maintenance of skeletal muscle progenitors
Cited by: 27
Author(s): In Young Choi, Hotae Lim, Hyeon Jin Cho, Yohan Oh, Bin Kuan Chou, Hao Bai, Linzhao Cheng, Yong Jun Kim, Sang‐Hwan Hyun, Hyesoo Kim, Joo Heon Shin, Gabsang Lee
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0067511

Evolutionary Dynamics of the Accessory Genome of Listeria monocytogenes
Cited by: 55
Author(s): Henk C. den Bakker, Christopher A. Desjardins, Allison Griggs, Joseph E. Peters, Qiandong Zeng, Sarah Young, Chinnappa D. Kodira, Chandri Yandava, Theresa A. Hepburn, Brian J. Haas, Bruce W. Birren, Martin Wiedmann
Software Mentions: 4
Published: about 13 years ago