10.3390/genes11040435

Identification of Potential Biomarkers for Anti-PD-1 Therapy in Melanoma by Weighted Correlation Network Analysis
Cited by: 14
Author(s): Xuanyi Wang, Zixuan Chai, Yinghong Li, Fei Long, Youjin Hao, Guizhi Pan, Mingwei Liu, Bo Li
Software Mentions: 8
Published: about 6 years ago

10.3390/jof6040372

Monitoring and Surveillance of Aerial Mycobiota of Rice Paddy through DNA Metabarcoding and qPCR
Cited by: 11
Author(s): S. Franco Ortega, Ilario Ferrocino, Ian Adams, Simone Silvestri, D. Spadaro, M. L. Gullino, Neil Boonham
Software Mentions: 8
Published: over 5 years ago

10.1038/s41598-021-97491-1

Metabolic drift in the aging nervous system is reflected in human cerebrospinal fluid
Cited by: 5
Author(s): Kristian Peters, Stephanie Herman, Payam Emami Khoonsari, Joachim Burman, Steffen Neumann, Kim Kultima
Software Mentions: 8
Published: almost 5 years ago

10.1038/s41598-019-39638-9

Gut microbiota of the European Brown Hare (Lepus europaeus)
Cited by: 14
Author(s): Gabrielle Stalder, Beate Pinior, Benjamin Zwirzitz, Igor Loncaric, Dennis Jakupović, Sebastian Vetter, Steve Smith, Annika Posautz, Franz Hoelzl, Martin Wagner, Daniel Hoffmann, Anna Kübber‐Heiss, Evelyne Mann
Software Mentions: 8
Published: over 7 years ago

10.3390/biom10010026

Graph Theory-Based Sequence Descriptors as Remote Homology Predictors
Cited by: 12
Author(s): Guillermı́n Agüero-Chapin, Deborah Galpert Cañizares, Reinaldo Molina Ruiz, Evys Ancede-Gallardo, Gisselle Pérez-Machado, G Riva, Agostinho Antunes
Software Mentions: 8
Published: over 6 years ago

10.1186/s12967-021-02744-2

Combined lymphocyte/monocyte count, D-dimer and iron status predict COVID-19 course and outcome in a long-term care facility
Cited by: 20
Author(s): Flavia Biamonte, Cirino Botta, Maria Mazzitelli, Salvatore Rotundo, Enrico Maria Trecarichi, Daniela Foti, Carlo Torti, Giuseppe Viglietto, Daniele Torella, Francesco Costanzo
Software Mentions: 8
Published: over 5 years ago

10.3389/fpsyg.2021.631564

Testing the METUX Model in Higher Education: Interface and Task Need–Satisfaction Predict Engagement, Learning, and Well-Being
Cited by: 8
Author(s): Lucas M. Jeno, Åge Diseth, John‐Arvid Grytnes
Software Mentions: 8
Published: over 5 years ago

10.3390/genes11010066

Genome Resolved Biogeography of Mamiellales
Cited by: 19
Author(s): Jade Leconte, L. Felipe Benites, Thomas Vannier, Patrick Wincker, Gwenaël Piganeau, Olivier Jaillon
Software Mentions: 8
Published: over 6 years ago

10.3389/fonc.2021.625007

Comprehensive Analysis of the Functions and Prognostic Value of RNA-Binding Proteins in Thyroid Cancer
Cited by: 7
Author(s): Yue Ma, Shi Yin, Xiaofeng Liu, Jing Hu, Ning Cai, Xiao-bei Zhang, Fu Li, Xuchen Cao, Yue Yu
Software Mentions: 8
Published: over 5 years ago

10.3389/fmicb.2021.676615

Attributes of Drying Define the Structure and Functioning of Microbial Communities in Temperate Riverbed Sediment
Cited by: 7
Author(s): José Schreckinger, Michael Mutz, Clara Mendoza‐Lera, Aline Frossard
Software Mentions: 8
Published: about 5 years ago

10.3389/fmicb.2021.627437

A Taxon-Wise Insight Into Rock Weathering and Nitrogen Fixation Functional Profiles of Proglacial Systems
Cited by: 4
Author(s): Gilda Varliero, Alexandre M. Anesio, Gary Barker
Software Mentions: 8
Published: almost 5 years ago

10.1155/2015/789516

Differential Expression Analysis in RNA-Seq by a Naive Bayes Classifier with Local Normalization
Cited by: 6
Author(s): Yongchao Dou, Xiaoli Guo, Lingling Yuan, David R. Holding, Chi Zhang
Software Mentions: 8
Published: over 11 years ago

10.1002/cam4.2665

Genome‐wide screening of abberant methylated drivers combined with relative risk loci in bladder cancer
Cited by: 2
Author(s): Chuanjie Zhang, Kangjie Shen, Yuxiao Zheng, Feng Qi, Jun Luo
Software Mentions: 8
Published: over 6 years ago

10.1093/braincomms/fcab141

Amyotrophic lateral sclerosis transcriptomics reveals immunological effects of low-dose interleukin-2
Cited by: 11
Author(s): Ilaria Giovannelli, Nadhim Bayatti, A.G. Brown, Dennis Wang, Marius Mickunas, William Camu, Jean-Luc Veyrune, Christine Payan, Cecilia Garlanda, Massimo Locati, Raul Juntas-Moralès, Nicolas Pageot, Andrea Malaspina, Ulf Andréasson, Carey Suehs, Safa Saker, Christophe Masseguin, John de Vos, Henrik Zetterberg, Ammar Al‐Chalabi, P. Nigel Leigh, Timothy Tree, G. Bensimon, Paul R. Heath, Pamela J. Shaw, Janine Kirby
Software Mentions: 8
Published: over 5 years ago

10.1007/s10661-016-5710-8

Is the macrophyte diversification along the trophic gradient distinct enough for river monitoring?
Cited by: 14
Author(s): Krzysztof Szoszkiewicz, Anna Budka, Karol Pietruczuk, Dariusz Kayzer, Daniel Gebler
Software Mentions: 8
Published: over 9 years ago

10.1186/s12920-019-0562-z

Clustering analysis of microRNA and mRNA expression data from TCGA using maximum edge-weighted matching algorithms
Cited by: 9
Author(s): Lizhong Ding, Zheyun Feng, Yongsheng Bai
Software Mentions: 8
Published: almost 7 years ago

10.1534/g3.119.400185

ARMOR: An <u>A</u>utomated <u>R</u>eproducible <u>MO</u>dular Workflow for Preprocessing and Differential Analysis of <u>R</u>NA-seq Data
Cited by: 35
Author(s): Stephany Orjuela, Ronald Huang, Katharina Hembach, Mark D. Robinson, Charlotte Soneson
Software Mentions: 8
Published: almost 7 years ago

10.3389/fpls.2020.601975

Flower Diversification Across “Pollinator Climates”: Sensory Aspects of Corolla Color Evolution in the Florally Diverse South American Genus Jaborosa (Solanaceae)
Cited by: 9
Author(s): Marcela Moré, Ana C. Ibañez, María Eugenia Drewniak, Andrea A. Cocucci, Robert A. Raguso
Software Mentions: 8
Published: over 5 years ago

10.1371/journal.pone.0247476

Small area estimation and childhood obesity surveillance using electronic health records
Cited by: 5
Author(s): Ying‐Qi Zhao, Derek Norton, Larry Hanrahan
Software Mentions: 8
Published: over 5 years ago

10.1186/s12957-018-1519-y

Identification of hub genes with diagnostic values in pancreatic cancer by bioinformatics analyses and supervised learning methods
Cited by: 23
Author(s): Chunyang Li, Xiaoxi Zeng, Haopeng Yu, Yuanxia Gu, Wei Zhang
Software Mentions: 8
Published: over 7 years ago

10.1371/journal.pone.0253038

Striking between-population floral divergences in a habitat specialized plant
Cited by: 1
Author(s): Sumayya Abdul Rahim, Ullasa Kodandaramaiah, Aboli Kulkarni, Deepak Barua
Software Mentions: 8
Published: almost 5 years ago

10.3390/cells8080920

The Snapdragon LATE ELONGATED HYPOCOTYL Plays A Dual Role in Activating Floral Growth and Scent Emission
Cited by: 9
Author(s): Marta I. Terry, Fernando Pérez-Sánz, Pedro J. Navarro, Julia Weiß, Marcos Egea‐Cortines
Software Mentions: 8
Published: almost 7 years ago

10.3897/BDJ.8.e47018

Rapid Least Concern: towards automating Red List assessments
Cited by: 25
Author(s): Steven P. Bachman, Barnaby E. Walker, Sara Bárrios, Alison Copeland, Justin Moat
Software Mentions: 8
Published: over 6 years ago

10.7554/eLife.58331

An essential role for MEF2C in the cortical response to loss of sleep in mice
Cited by: 19
Author(s): Theresa E. Bjorness, Ashwinikumar Kulkarni, Volodymyr Rybalchenko, Ayako Suzuki, Catherine Bridges, Adam J. Harrington, Christopher W. Cowan, Joseph S. Takahashi, Genevieve Konopka, Robert Greene
Software Mentions: 8
Published: almost 6 years ago

10.3389/fimmu.2021.711337

Single-Cell RNA Sequencing Identifies New Inflammation-Promoting Cell Subsets in Asian Patients With Chronic Periodontitis
Cited by: 17
Author(s): Shu‐Jiao Qian, Qing-Guo Huang, Ruiying Chen, Jia-Ji Mo, Liyun Zhou, Yi Zhao, Bin Li, Hong-Chang Lai
Software Mentions: 8
Published: almost 5 years ago

10.1016/j.molcel.2021.03.041

DNAJC9 integrates heat shock molecular chaperones into the histone chaperone network
Cited by: 28
Author(s): Colin M. Hammond, Hongyu Bao, Ivo A. Hendriks, Massimo Carraro, Alberto García-Nieto, Yanhong Liu, Nazaret Reverón-Gómez, Christos Spanos, Liu Chen, Juri Rappsilber, Michael L. Nielsen, Dinshaw J. Patel, Hongda Huang, Anja Groth
Software Mentions: 8
Published: about 5 years ago

10.1371/journal.pgen.1009386

Genomic rearrangements generate hypervariable mini-chromosomes in host-specific isolates of the blast fungus
Cited by: 39
Author(s): Thorsten Langner, Adeline Harant, Luis B. Gómez-Luciano, Ram-Krishna Shrestha, Angus Malmgren, Sergio M. Latorre, Hernán A. Burbano, Joe Win, Sophien Kamoun
Software Mentions: 8
Published: over 5 years ago

10.1093/database/baz098

Progress in the study of genome size evolution in Asteraceae: analysis of the last update
Cited by: 14
Author(s): Daniel Vitales, P. Fernández, Teresa Garnatje, Sònia Garcia
Software Mentions: 8
Published: over 7 years ago

10.1186/s40170-020-00220-x

Metabolite AutoPlotter - an application to process and visualise metabolite data in the web browser
Cited by: 18
Author(s): Matthias Pietzke, Alexei Vazquez
Software Mentions: 8
Published: almost 6 years ago

10.1002/ece3.6172

Habitat transitions alter the adaptive landscape and shape phenotypic evolution in needlefishes (Belonidae)
Cited by: 10
Author(s): Matthew A. Kolmann, Michael D. Burns, Justin Y. K. Ng, Nathan R. Lovejoy, Devin D. Bloom
Software Mentions: 8
Published: over 6 years ago

10.1093/molbev/msab166

ggtreeExtra: Compact Visualization of Richly Annotated Phylogenetic Data
Cited by: 101
Author(s): Shuaimei Xu, Zhigang Dai, Pingfan Guo, Xiaocong Fu, Shanshan Liu, Lang Zhou, Wenli Tang, Tingze Feng, Meijun Chen, Li Zhan, Tianzhi Wu, Erqiang Hu, Yong Jiang, Xiaochen Bo, Guangchuang Yu
Software Mentions: 8
Published: about 5 years ago

10.1186/s12864-018-4649-2

Identification and characterization of functional modules reflecting transcriptome transition during human neuron maturation
Cited by: 15
Author(s): Zhisong He, Qianhui Yu
Software Mentions: 8
Published: about 8 years ago

10.1111/1755-0998.13187

A de novo chromosome‐level genome assembly of<i>Coregonus</i>sp. “<i>Balchen</i>”: One representative of the Swiss Alpine whitefish radiation
Cited by: 25
Author(s): Rishi De‐Kayne, Stefan Zoller, Philine G. D. Feulner
Software Mentions: 8
Published: about 6 years ago

10.3390/v13061019

Human Retrotransposons and the Global Shutdown of Homeostatic Innate Immunity by Oncolytic Parvovirus H-1PV in Pancreatic Cancer
Cited by: 2
Author(s): Matthias Neulinger-Muñoz, Dominik Schaack, Svetlana Grekova, Andrea S. Bauer, Thomas Giese, Gabriel Alexander Salg, Elisa Espinet, Barbara Leuchs, Anette Heller, Jürg P. F. Nüesch, Miriam Schenk, Michael Volkmar, Nathalia A. Giese
Software Mentions: 8
Published: about 5 years ago

10.1186/s12864-019-6251-7

Changes of intestinal bacterial microbiota in coronary heart disease complicated with nonalcoholic fatty liver disease
Cited by: 33
Author(s): Yiwen Zhang, Jianming Xu, Xuemei Wang, Xinhua Ren, Yulan Liu
Software Mentions: 8
Published: over 6 years ago

10.1186/s12862-017-0976-1

The effect of body size evolution and ecology on encephalization in cave bears and extant relatives
Cited by: 9
Author(s): Kristof Veitschegger
Software Mentions: 8
Published: about 9 years ago

10.1186/s12864-021-07918-2

CeTF: an R/Bioconductor package for transcription factor co-expression networks using regulatory impact factors (RIF) and partial correlation and information (PCIT) analysis
Cited by: 10
Author(s): Carlos Alberto Oliveira de Biagi, Ricardo Perecin Nociti, Danielle Barbosa Brotto, Breno Osvaldo Funicheli, Patrícia de Cássia Ruy, João Paulo Bianchi Ximenez, David Livingstone Alves Figueiredo, Wilson A. Silva
Software Mentions: 8
Published: almost 5 years ago

10.1186/s12889-021-10979-3

Associations of meeting 24-h movement guidelines with stress and self-rated health among adults: is meeting more guidelines associated with greater benefits?
Cited by: 16
Author(s): Kaja Kastelic, Željko Pedišić, Dean Lipovac, Nika Kastelic, Sitong Chen, Nejc Šarabon
Software Mentions: 8
Published: about 5 years ago

10.1371/journal.pone.0239639

Monsters with a shortened vertebral column: A population phenomenon in radiating fish Labeobarbus (Cyprinidae)
Cited by: 9
Author(s): А. С. Голубцов, Nikolai B. Korostelev, Б. А. Левин
Software Mentions: 8
Published: over 5 years ago

10.1186/1471-2105-12-467

Empirical comparison of cross-platform normalization methods for gene expression data
Cited by: 88
Author(s): Jason R. Rudy, Faramarz Valafar
Software Mentions: 8
Published: over 14 years ago

10.1093/plankt/fbz063

Environmental variables driving species and genus level changes in annual plankton biomass
Cited by: 5
Author(s): Louise Forsblom, Jonna Engström‐Öst, Sirpa Lehtinen, Inga Lips, Andreas Lindén
Software Mentions: 8
Published: over 6 years ago

10.7717/peerj.7476

Estimating the phylogeny of geoemydid turtles (Cryptodira) from landmark data: an assessment of different methods
Cited by: 9
Author(s): Eduardo Ascarrunz, Claude Julien, Walter G. Joyce
Software Mentions: 8
Published: almost 7 years ago

10.1371/journal.pone.0153782

Using Synthetic Mouse Spike-In Transcripts to Evaluate RNA-Seq Analysis Tools
Cited by: 11
Author(s): Dena Leshkowitz, Ester Feldmesser, Gilgi Friedlander, Ghil Jona, Elena Ainbinder, Yisrael Parmet, Shirley Horn‐Saban
Software Mentions: 8
Published: about 10 years ago

10.1002/ece3.7269

3D genital shape complexity in female marine mammals
Cited by: 15
Author(s): Dara N. Orbach, Charlotte A. Brassey, James Gardiner, Patricia L. R. Brennan
Software Mentions: 8
Published: over 5 years ago

10.7717/peerj.11599

A seven-lncRNA signature for predicting Ewing’s sarcoma
Cited by: 8
Author(s): Zhihui Chen, Xinyu Wang, Guozhu Wang, Bin Xiao, Zhe Ma, Hongliang Huo, Weiwei Li
Software Mentions: 8
Published: about 5 years ago

10.1186/s12866-021-02222-1

Patterns of yeast diversity distribution and its drivers in rhizosphere soil of Hami melon orchards in different regions of Xinjiang
Cited by: 7
Author(s): Shanshan Zhu, Yonghui Lei, Chong Wang, Yu‐Mei Wei, Chuncheng Wang, Yanfei Sun
Software Mentions: 8
Published: about 5 years ago

10.1371/journal.pgen.1008658

Parallelism in eco-morphology and gene expression despite variable evolutionary and genomic backgrounds in a Holarctic fish
Cited by: 63
Author(s): Arne Jacobs, Madeleine Carruthers, Andrey A. Yurchenko, Н. В. Гордеева, S. S. Alekseyev, Oliver E. Hooker, Jong S. Leong, David R. Minkley, Eric B. Rondeau, Ben F. Koop, Colin E. Adams, Kathryn R. Elmer
Software Mentions: 8
Published: about 6 years ago

10.1016/j.scitotenv.2020.144115

Prenatal exposure to a wide range of environmental chemicals and child behaviour between 3 and 7 years of age – An exposome-based approach in 5 European cohorts
Cited by: 20
Author(s): Paulina Jedynak, Léa Maitre, Mònica Guxens, Kristine B. Gützkow, Jordi Júlvez, Mònica López-Vicente, Jordi Sunyer, Maribel Casas, Leda Chatzi, Regina Gražulevičienė, Mariza Kampouri, Rosemary McEachan, Mark Mon-Williams, Ibón Tamayo, Cathrine Thomsen, José Urquiza, Marina Vafeiadi, John Wright, Xavier Basagaña, Martine Vrijheid, Claire Philippat
Software Mentions: 8
Published: about 5 years ago

10.1111/2041-210X.12490

hext , a software supporting tree‐based screens for hybrid taxa in multilocus data sets, and an evaluation of the homoplasy excess test
Cited by: 4
Author(s): Kevin Schneider, Stephan Koblmüller, Kristina M. Sefc
Software Mentions: 8
Published: over 10 years ago

10.3390/microorganisms8040485

Characterization of the Duodenal Mucosal Microbiome in Obese Adult Subjects by 16S rRNA Sequencing
Cited by: 33
Author(s): Carmela Nardelli, Ilaria Granata, Valeria D’Argenio, Salvatore Tramontano, Debora Compare, Mario Rosario Guarracino, Gerardo Nardone, Vincenzo Pilone, Lucia Sacchetti
Software Mentions: 8
Published: about 6 years ago

10.1186/s12864-020-6653-6

Novel approach in whole genome mining and transcriptome analysis reveal conserved RiPPs in Trichoderma spp
Cited by: 14
Author(s): Gabriel A. Vignolle, Robert L. Mach, Astrid R. Mach-Aigner, Christian Derntl
Software Mentions: 8
Published: over 6 years ago

10.1038/s41598-018-24733-0

Insular threat associations within taxa worldwide
Cited by: 39
Author(s): Camille Leclerc, Franck Courchamp, Céline Bellard
Software Mentions: 8
Published: about 8 years ago

10.1007/s11306-017-1284-x

Metabolomic analysis of tomato seed germination
Cited by: 31
Author(s): Rashid H. Kazmi, Leo A.J. Willems, Ronny V.L. Joosen, Naveed Ahmad Khan, Wilco Ligterink, Henk W. M. Hilhorst
Software Mentions: 8
Published: over 8 years ago

10.1186/s12915-020-00863-8

Functional signatures of evolutionarily young CTCF binding sites
Cited by: 7
Author(s): Dhoyazan Azazi, Jonathan M. Mudge, Duncan T. Odom, Paul Flicek
Software Mentions: 8
Published: almost 6 years ago

10.7717/peerj.8522

Detection and characterization of microRNA expression profiling and its target genes in response to canine parvovirus in Crandell Reese Feline Kidney cells
Cited by: 8
Author(s): Phongsakorn Chuammitri, Soulasack Vannamahaxay, Benjaporn Sornpet, Kidsadagon Pringproa, Prapas Patchanee
Software Mentions: 8
Published: over 6 years ago

10.1186/s40168-021-01078-x

An integrated gene catalog and over 10,000 metagenome-assembled genomes from the gastrointestinal microbiome of ruminants
Cited by: 85
Author(s): Fei Xie, Wei Jin, Huazhe Si, Yuan Yuan, Ye Tao, Junhua Liu, Xiaoxu Wang, Chengjian Yang, Qiushuang Li, Xiu-Tian Yan, Limei Lin, Qian Jiang, Lei Zhang, Chang Guo, Chris Greening, Rasmus Heller, Le Luo Guan, Phillip B. Pope, Zhiliang Tan, Weiyun Zhu, Min Wang, Qiang Qiu, Zhipeng Li, Shengyong Mao
Software Mentions: 8
Published: about 5 years ago

10.1038/s41598-021-97090-0

Prognostic nomogram for predicting 5-year overall survival in Chinese patients with high-grade osteosarcoma
Cited by: 4
Author(s): Zhihong Yao, Zunxian Tan, Jifei Yang, Yihao Yang, Cao Wang, Jiaxiang Chen, Yanan Zhu, Tiying Wang, Lei Han, Lin Zhu, Zuozhang Yang
Software Mentions: 8
Published: almost 5 years ago

10.3390/antiox10060864

Blood Plasma Quality Control by Plasma Glutathione Status
Cited by: 2
Author(s): Tamara Tomin, Natalie Bordag, Elmar Zügner, A Al-Baghdadi, Maximilian Schinagl, Ruth Birner‐Gruenberger, Matthias Schittmayer
Software Mentions: 8
Published: about 5 years ago

10.1017/S0950268820000758

Development and external-validation of a nomogram for predicting the survival of hospitalised HIV/AIDS patients based on a large study cohort in western China
Cited by: 5
Author(s): Zongxiang Yuan, Bo Zhou, Sirun Meng, Jie Jiang, Shenghong Huang, Xiang Lu, Nianning Wu, Zhongkui Xie, Jianning Deng, X. Chen, J. Liu, J. Zhang, Fengyao Wu, Hao Liang, L. Ye
Software Mentions: 8
Published: over 6 years ago

10.18632/aging.102513

Daily decrease of post-operative alpha-fetoprotein by 9% discriminates prognosis of HCC: A multicenter retrospective study
Cited by: 6
Author(s): Pei‐Yun Zhou, Chao‐Ping Yang, Zheng Tang, Yong Yi, Wei‐Ren Liu, Min Tian, Huang Ji, Wei Gan, Xi‐Fei Jiang, Liu Gao, Han Wang, Chenyang Tao, Yuan Fang, Wei‐Feng Qu, Cheng Zhou, Ruijuan Guan, Bao-Ye Sun, Yu‐Fu Zhou, Shushu Song, Zhen‐Bin Ding, Yuan‐Fei Peng, Zhi Dai, Jian Zhou, Jia Fan, Guozhong Gong, Ying‐Hong Shi, Shuang–Jian Qiu
Software Mentions: 8
Published: over 6 years ago

10.1016/j.csbj.2021.05.024

Machine learning applied to serum and cerebrospinal fluid metabolomes revealed altered arginine metabolism in neonatal sepsis with meningoencephalitis
Cited by: 12
Author(s): Peng Zhang, Zhangxing Wang, Huixian Qiu, Wenhao Zhou, Mingbang Wang, Guoqiang Cheng
Software Mentions: 8
Published: over 5 years ago

10.1111/jcmm.15601

Novel gene signatures for prognosis prediction in ovarian cancer
Cited by: 25
Author(s): Mingyang Bao, Lihua Zhang, Yue‐Qing Hu
Software Mentions: 8
Published: almost 6 years ago

10.1186/s12864-021-07659-2

Inferring and analyzing gene regulatory networks from multi-factorial expression data: a complete and interactive suite
Cited by: 15
Author(s): Océane Cassan, Sophie Lèbre, Antoine Martin
Software Mentions: 8
Published: about 5 years ago

10.7554/eLife.69065

Cross-species analysis defines the conservation of anatomically segregated VMH neuron populations
Cited by: 16
Author(s): Alison H. Affinati, Paul V. Sabatini, Cadence True, Abigail J. Tomlinson, Melissa A. Kirigiti, Sarah R. Lindsley, Chien Li, David P. Olson, Paul Kievit, Martin G. Myers, Alan C. Rupp
Software Mentions: 8
Published: about 5 years ago

10.1128/mSystems.00112-21

Metagenomic Analysis of Common Intestinal Diseases Reveals Relationships among Microbial Signatures and Powers Multidisease Diagnostic Models
Cited by: 10
Author(s): Puzi Jiang, Sicheng Wu, Qibin Luo, Xing‐Ming Zhao, Weihua Chen
Software Mentions: 8
Published: almost 5 years ago

10.3390/biom11050695

Variations in Gut Microbiome are Associated with Prognosis of Hypertriglyceridemia-Associated Acute Pancreatitis
Cited by: 10
Author(s): Xiaomin Hu, Liang Gong, Ronggang Zhou, Ziying Han, Ji Li, Yan Zhang, Shuyang Zhang, Dong Wu
Software Mentions: 8
Published: about 5 years ago

10.3390/v12111240

TBEV Subtyping in Terms of Genetic Distance
Cited by: 19
Author(s): Andrei A. Deviatkin, Galina G. Karganova, Yulia A. Vakulenko
Software Mentions: 8
Published: over 5 years ago

10.1038/s41598-019-40503-y

Sequential conditioning-stimulation reveals distinct gene- and stimulus-specific effects of Type I and II IFN on human macrophage functions
Cited by: 23
Author(s): Quen J. Cheng, Faraz Behzadi, Supriya Sen, Sho Ohta, Roberto Spreafico, Rosane M. B. Teles, Robert L. Modlin, Alexander Hoffmann
Software Mentions: 8
Published: over 7 years ago

10.1093/aobpla/plab018

Alpine speciation and morphological innovations: revelations from a species-rich genus in the northern hemisphere
Cited by: 5
Author(s): Yazhou Zhang, Jianguo Chen, Hang Sun
Software Mentions: 8
Published: about 5 years ago

10.7554/eLife.66747

Mapping single-cell atlases throughout Metazoa unravels cell type evolution
Cited by: 98
Author(s): Alexander J. Tarashansky, Jacob M. Musser, Margarita Khariton, Pengyang Li, Detlev Arendt, Stephen R. Quake, Bo Wang
Software Mentions: 8
Published: about 5 years ago

10.1017/S1368980019003239

Four decades of socio-economic inequality and secular change in the physical growth of Guatemalans
Cited by: 14
Author(s): Liina Mansukoski, William Johnson, Katherine Brooke‐Wavell, J. Andres Galvez-Sobral, L.R. Furlan, Tim J. Cole, Barry Bogin
Software Mentions: 8
Published: over 6 years ago

10.3389/fpsyt.2020.00633

Raising Placebo Efficacy in Antidepressant Trials Across Decades Explained by Small-Study Effects: A Meta-Reanalysis
Cited by: 3
Author(s): Lisa Holper
Software Mentions: 8
Published: almost 6 years ago

10.3390/v12090956

Human Endogenous Retrovirus Expression Is Associated with Head and Neck Cancer and Differential Survival
Cited by: 17
Author(s): Allison R. Kolbe, Matthew L. Bendall, Alexander T. Pearson, Doru Paul, Douglas F. Nixon, Marcos Pérez‐Losada, Keith A. Crandall
Software Mentions: 8
Published: almost 6 years ago

10.1186/s12967-021-02914-2

The landscape of gene co-expression modules correlating with prognostic genetic abnormalities in AML
Cited by: 14
Author(s): Chao Guo, Ya-yue Gao, Qianqian Ju, Chunxia Zhang, Ming Gong, Zhenling Li
Software Mentions: 8
Published: about 5 years ago

10.1038/s41380-020-0844-z

Developmental excitation-inhibition imbalance underlying psychoses revealed by single-cell analyses of discordant twins-derived cerebral organoids
Cited by: 66
Author(s): Tomoyo Sawada, Thomas E. Chater, Yohei Sasagawa, Mika Yoshimura, Noriko Fujimori-Tonou, Kaori Tanaka, Kynon J.M. Benjamin, Apuã C.M. Paquola, Jennifer A. Erwin, Yukiko Goda, Itoshi Nikaido, Takeshi Kato
Software Mentions: 8
Published: almost 6 years ago

10.1186/s12957-021-02328-w

Identification of novel antioxidant gene signature to predict the prognosis of patients with gastric cancer
Cited by: 10
Author(s): Jianhua Wu, Xuan Wang, Nan Wang, Li Ma, Xin Xie, Hao Zhang, Huafeng Kang, Zhangjian Zhou
Software Mentions: 8
Published: almost 5 years ago

10.1038/s41598-020-73978-1

Data based predictive models for odor perception
Cited by: 27
Author(s): Rinu Chacko, Deepak Jain, Manasi Patwardhan, Abhishek Puri, Shirish Karande, Beena Rai
Software Mentions: 8
Published: over 5 years ago

10.3389/fcell.2021.712230

A Novel Ferroptosis-Related Prognostic Signature Reveals Macrophage Infiltration and EMT Status in Bladder Cancer
Cited by: 19
Author(s): Yi‐Lin Yan, Jinming Cai, Zhengnan Huang, Xiangqian Cao, Pengyu Tang, Zeyi Wang, Fang Zhang, Shujie Xia, Bing Shen
Software Mentions: 8
Published: almost 5 years ago

10.1038/srep44736

Vector Integration Sites Identification for Gene-Trap Screening in Mammalian Haploid Cells
Cited by: 5
Author(s): Jian Yu, Constance Ciaudo
Software Mentions: 8
Published: over 9 years ago

10.7554/eLife.59442

Collagen-rich omentum is a premetastatic niche for integrin α2-mediated peritoneal metastasis
Cited by: 33
Author(s): Yen‐Lin Huang, Ching-Yeu Liang, Danilo Ritz, Ruimário Inácio Coelho, Dedy Septiadi, Manuela Estermann, Cécile Cumin, Natalie Rimmer, Andreas Schötzau, Mónica Núñez López, André Fedier, Martina Konantz, Tatjana Vlajnic, Diego Calabrese, Claudia Lengerke, Leonor David, Barbara Rothen‐Rutishauser, Francis Jacob, Viola Heinzelmann‐Schwarz
Software Mentions: 8
Published: over 5 years ago

10.3390/jintelligence6030041

How Specific Abilities Might Throw ‘g’ a Curve: An Idea on How to Capitalize on the Predictive Validity of Specific Cognitive Abilities
Cited by: 4
Author(s): Matthias Ziegler, Aaron Peikert
Software Mentions: 8
Published: almost 8 years ago

10.1371/journal.pcbi.1008757

Using neural networks to mine text and predict metabolic traits for thousands of microbes
Cited by: 4
Author(s): Timothy J. Hackmann, Bo Zhang
Software Mentions: 8
Published: over 5 years ago

10.1534/g3.119.400126

An R Package for Bayesian Analysis of Multi-environment and Multi-trait Multi-environment Data for Genome-Based Prediction
Cited by: 38
Author(s): Osval A. Montesinos-L֯ópez, Abelardo Montesinos‐López, Francisco Javier Luna-Vázquez, Fernando H. Toledo, Paulino Pérez‐Rodríguez, Morten Lillemo, J. Crossa
Software Mentions: 8
Published: about 7 years ago

10.3390/biology8040088

Reproductive Biology and Ecology of the Green Mussel Perna viridis: A Multidisciplinary Approach
Cited by: 8
Author(s): Md. Asaduzzaman, Aysha Rahi Noor, Md. Moshiur Rahman, Shirin Akter, Nayeema Ferdausy Hoque, Abrar Shakil, Abdul Wahab
Software Mentions: 8
Published: over 6 years ago

10.3390/s20236723

Wide Field Spectral Imaging with Shifted Excitation Raman Difference Spectroscopy Using the Nod and Shuffle Technique
Cited by: 7
Author(s): Florian Korinth, Elmar Schmälzlin, Clara Stiebing, T. Urrutia, Genoveva Micheva, C. Sandín, André Müller, Bernd Sumpf, Christoph Krafft, G. Tränkle, Martin Roth, Jürgen Popp
Software Mentions: 8
Published: over 5 years ago

10.1038/s41598-019-54496-1

Predicting the spatial abundance of Ixodes ricinus ticks in southern Scandinavia using environmental and climatic data
Cited by: 9
Author(s): Lene Jung Kjær, Arnulf Soleng, Kristin Skarsfjord Edgar, Heidi Elisabeth Heggen Lindstedt, Katrine M. Paulsen, Åshild Kristine Andreassen, Lars Korslund, Vivian Kjelland, Audun Slettan, Snorre Stuen, Petter Kjellander, Madeleine Christensson, Malin Teräväinen, Andreas Baum, Kirstine Klitgaard, René Bødker
Software Mentions: 8
Published: over 6 years ago

10.1002/ece3.2641

Convergent evolution in social swallows (Aves: Hirundinidae)
Cited by: 12
Author(s): Allison E. Johnson, Jonathan S. Mitchell, Mary Bomberger Brown
Software Mentions: 8
Published: over 9 years ago

10.1016/S2542-5196(21)00030-9

Identifying urban hotspots of dengue, chikungunya, and Zika transmission in Mexico to support risk stratification efforts: a spatial analysis
Cited by: 28
Author(s): Felipe Dzul-Manzanilla, Fabián Correa-Morales, Azael Che-Mendoza, Jorge Palacio-Vargas, Gustavo Sánchez-Tejeda, Jesús Felipe González-Roldán, Hugo López‐Gatell, Adriana E. Flores-Suárez, Héctor Gómez–Dantés, Giovanini Evelim Coelho, Haroldo Sergio da Silva Bezerra, Norma Pavía-Ruz, Audrey Lenhart, Pablo Manrique-Saide, Gonzalo M. Vázquez-Prokopec
Software Mentions: 8
Published: about 5 years ago

10.1080/15592294.2019.1603963

Identification of DNA methylation patterns predisposing for an efficient response to BCG vaccination in healthy BCG-naïve subjects
Cited by: 32
Author(s): Jyotirmoy Das, Deepti Verma, Mika Gustafsson, Maria Lerm
Software Mentions: 8
Published: about 7 years ago

10.1186/s12862-019-1466-4

The multi-peak adaptive landscape of crocodylomorph body size evolution
Cited by: 42
Author(s): Pedro Godoy, Roger Benson, Mario Bronzati, Richard J. Butler
Software Mentions: 8
Published: almost 7 years ago

10.1002/ece3.7995

The hidden side of diversity: Effects of imperfect detection on multiple dimensions of biodiversity
Cited by: 7
Author(s): Aline Richter, Gabriel Nakamura, Cristiano Agra Iserhard, Leandro da Silva Duarte
Software Mentions: 8
Published: almost 5 years ago

10.1186/s13071-015-0916-0

Analysing chemical attraction of gravid Anopheles gambiae sensu stricto with modified BG-Sentinel traps
Cited by: 9
Author(s): Michael N. Okal, Manuela Herrera-Varela, Paul Ouma, Baldwyn Torto, Steve W. Lindsay, Jenny M. Lindh, Ulrike Fillinger
Software Mentions: 8
Published: about 11 years ago

10.1002/ece3.7579

Molecular diet analysis of neotropical bats based on fecal DNA metabarcoding
Cited by: 36
Author(s): Melissa R. Ingala, Nancy B. Simmons, Claudia Wultsch, Konstantinos Krampis, Kaiya L. Provost, Susan L. Perkins
Software Mentions: 8
Published: about 5 years ago

10.3390/jcm9030711

Deregulation of the Purine Pathway in Pre-Transplant Liver Biopsies Is Associated with Graft Function and Survival after Transplantation
Cited by: 4
Author(s): Jin Xu, Mohammad Hassan-Ally, Ana María Casas-Ferreira, Tommi Suvitaival, Yun Ma, Hector Vilca‐Melendez, Mohamed Rela, Nigel Heaton, Wayel Jassem, Cristina Legido‐Quigley
Software Mentions: 8
Published: over 6 years ago

10.1002/cam4.1813

Long noncoding RNAs predict the survival of patients with colorectal cancer as revealed by constructing an endogenous RNA network using bioinformation analysis
Cited by: 24
Author(s): Hui Zhang, Zhuo Wang, Jianzhong Wu, Rong Ma, Jifeng Feng
Software Mentions: 8
Published: over 7 years ago

10.1186/s40462-021-00245-x

An evaluation of machine learning classifiers for next-generation, continuous-ethogram smart trackers
Cited by: 15
Author(s): Hui Yu, Jian Deng, Ran Nathan, Max Kröschel, Sasha Pekarsky, Guozheng Li, Marcel Klaassen
Software Mentions: 8
Published: about 5 years ago

10.3389/fmicb.2021.632935

Co-Occurrence of Listeria spp. and Spoilage Associated Microbiota During Meat Processing Due to Cross-Contamination Events
Cited by: 19
Author(s): Benjamin Zwirzitz, Stefanie U. Wetzels, Emmanuel D. Dixon, Svenja Fleischmann, Evelyne Selberherr, Sarah Thalguter, Narciso M. Quijada, Monika Dzieciol, Martin Wagner, Beatrix Stessl
Software Mentions: 8
Published: over 5 years ago

10.1186/s40168-019-0626-5

Choice of assembly software has a critical impact on virome characterisation
Cited by: 94
Author(s): Thomas D.S. Sutton, Adam G. Clooney, Feargal J. Ryan, R. Paul Ross, Colin Hill
Software Mentions: 8
Published: over 7 years ago

10.3389/fcimb.2020.00194

Delineation and Modulation of the Natural Killer Cell Transcriptome in Rhesus Macaques During ZIKV and SIV Infections
Cited by: 2
Author(s): Malika Aïd, Daniel R. Ram, Steven E. Bosinger, Dan H. Barouch, R. Keith Reeves
Software Mentions: 8
Published: about 6 years ago

10.3390/metabo11070463

Sex-Specific Relationship between the Cardiorespiratory Fitness and Plasma Metabolite Patterns in Healthy Humans—Results of the KarMeN Study
Cited by: 5
Author(s): Sina Kistner, Maik Döring, Ralf Krüger, M Rist, Christoph H. Weinert, Diana Bunzel, Benedikt Merz, Katrin Radloff, Rainer Neumann, Sascha Härtel, Achim Bub
Software Mentions: 8
Published: almost 5 years ago