10.1186/s12864-020-07015-w

Tracing key genes associated with the Pinctada margaritifera albino phenotype from juvenile to cultured pearl harvest stages using multiple whole transcriptome sequencing
Cited by: 5
Author(s): Pauline Auffret, Jérémy Le Luyer, Manaarii Sham Koua, Virgile Quillien, Chin‐Long Ky
Software Mentions: 6
Published: almost 6 years ago

10.3389/fmicb.2020.00523

Differences in the Transcriptomic Response of Campylobacter coli and Campylobacter lari to Heat Stress
Cited by: 13
Author(s): Carolin Riedel, Konrad U. Förstner, Christoph Püning, Thomas Alter, Cynthia M. Sharma, Greta Gölz
Software Mentions: 6
Published: over 6 years ago

10.7554/eLife.18591

RYBP stimulates PRC1 to shape chromatin-based communication between Polycomb repressive complexes
Cited by: 105
Author(s): Nathan R. Rose, Hamish W King, Neil P. Blackledge, Nadezda A. Fursova, Katherine Ji Ember, Román Fischer, Benedikt M. Kessler, Robert J. Klose
Software Mentions: 6
Published: almost 10 years ago

10.3389/fphar.2021.728368

A Novel Integrated Metabolism-Immunity Gene Expression Model Predicts the Prognosis of Lung Adenocarcinoma Patients
Cited by: 3
Author(s): Songming Chen, Yumei Duan, Yanhao Wu, Desong Yang, Jian An
Software Mentions: 6
Published: almost 5 years ago

10.15252/embr.202051289

LncRNA <i>Ctcflos</i> orchestrates transcription and alternative splicing in thermogenic adipogenesis
Cited by: 16
Author(s): Andrea Bast‐Habersbrunner, Christoph Kiefer, Peter Weber, Tobias Fromme, Anna Schießl, Petra Schwalie, Bart Deplancke, Yongguo Li, Martin Klingenspor
Software Mentions: 6
Published: about 5 years ago

10.1016/j.cell.2016.09.007

Functional Metabolomics Describes the Yeast Biosynthetic Regulome
Cited by: 129
Author(s): Michael Mülleder, Enrica Calvani, Mohammad Tauqeer Alam, Richard Kangda Wang, Florian Eckerstorfer, Aleksej Zelezniak, Markus Ralser
Software Mentions: 6
Published: almost 10 years ago

10.1186/s12862-014-0204-1

Strong genetic structure corresponds to small-scale geographic breaks in the Australian alpine grasshopper Kosciuscola tristis
Cited by: 16
Author(s): R. O. Slatyer, M. Nash, Adam D. Miller, Yoshinori Endo, Kate D. L. Umbers, Ary A. Hoffmann
Software Mentions: 6
Published: almost 12 years ago

10.1080/21655979.2020.1840731

Bioinformatics analysis to screen key prognostic genes in the breast cancer tumor microenvironment
Cited by: 9
Author(s): Qian Ye, Xiaofei Han, Zhengsheng Wu
Software Mentions: 6
Published: over 6 years ago

10.1186/s13040-021-00261-y

A prognostic model based on seven immune-related genes predicts the overall survival of patients with hepatocellular carcinoma
Cited by: 6
Author(s): Qian Yan, Wenjiang Zheng, Boqing Wang, Baoqian Ye, Huiyan Luo, Xinqian Yang, Ping Zhang, Xiongwen Wang
Software Mentions: 6
Published: about 5 years ago

10.3390/genes11101124

Comparative Transcriptomics and Co-Expression Networks Reveal Tissue- and Genotype-Specific Responses of qDTYs to Reproductive-Stage Drought Stress in Rice (Oryza sativa L.)
Cited by: 11
Author(s): Jeshurun Asher Tarun, Ramil Mauleon, Juan David Arbelaez, Sheryl Catausan, Shalabh Dixit, Arvind Kumar, Patrick J. Brown, Ajay Kohli, Tobias Kretzschmar
Software Mentions: 6
Published: almost 6 years ago

10.3389/fimmu.2021.632667

PD-1 Blockade Modulates Functional Activities of Exhausted-Like T Cell in Patients With Cutaneous Leishmaniasis
Cited by: 16
Author(s): Renan Garcia de Moura, Luciana Polaco Covre, Carlos Henrique Fantecelle, Vitor Alejandro Torres Gajardo, Carla Baroni Cunha, Lorenzzo Lyrio Stringari, Ashton T. Belew, Camila Batista Daniel, Sandra Ventorin von Zeidler, Carlos E. Tadokoro, Herbert Leonel de Matos Guedes, Raphael Lubiana Zanotti, David M. Mosser, Aloísio Falqueto, Arne N. Akbar, Daniel Cláudio Oliveira Gomes
Software Mentions: 6
Published: over 5 years ago

10.3389/fmicb.2020.01528

Microbiome Variation Across Two Hemlock Species With Hemlock Woolly Adelgid Infestation
Cited by: 7
Author(s): Nicholas C. Dove, Timothy J. Rogers, Christy Leppanen, Daniel Simberloff, James A. Fordyce, Veronica A. Brown, Anthony V. LeBude, Thomas G. Ranney, Melissa Cregger
Software Mentions: 6
Published: about 6 years ago

10.1186/s12859-020-03648-6

A computational framework for modeling and studying pertussis epidemiology and vaccination
Cited by: 4
Author(s): Paolo Castagno, Simone Pernice, Gianni Ghetti, Massimiliano Povero, Lorenzo Pradelli, Daniela Paolotti, Gianfranco Balbo, Matteo Sereno, Marco Beccuti
Software Mentions: 6
Published: almost 6 years ago

10.3389/fmicb.2020.00954

Persistence of a Core Microbiome Through the Ontogeny of a Multi-Host Parasite
Cited by: 22
Author(s): Fátima Jorge, Nolwenn M. Dheilly, Robert Poulin
Software Mentions: 6
Published: about 6 years ago

10.7717/peerj.4320

Linking pangenomes and metagenomes: the <i>Prochlorococcus</i> metapangenome
Cited by: 272
Author(s): Tom O. Delmont, A. Murat Eren
Software Mentions: 6
Published: over 8 years ago

10.1186/s12862-020-01721-5

Range and niche expansion through multiple interspecific hybridization: a genotyping by sequencing analysis of Cherleria (Caryophyllaceae)
Cited by: 2
Author(s): Abigail J. Moore, Jennifer A. Messick, Joachim W. Kadereit
Software Mentions: 6
Published: over 5 years ago

10.3390/genes11121487

RNAflow: An Effective and Simple RNA-Seq Differential Gene Expression Pipeline Using Nextflow
Cited by: 13
Author(s): Marie Lataretu, Martin Hölzer
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0096937

Roosting and Foraging Social Structure of the Endangered Indiana Bat (Myotis sodalis)
Cited by: 35
Author(s): Alexander Silvis, Andrew B. Kniowski, Stanley D. Gehrt, W. Mark Ford
Software Mentions: 6
Published: about 12 years ago

10.1186/s40364-021-00292-x

The REASON score: an epigenetic and clinicopathologic score to predict risk of poor survival in patients with early stage oral squamous cell carcinoma
Cited by: 13
Author(s): Chi T. Viet, Gary Yu, Kesava Asam, Carissa M. Thomas, Angela J. Yoon, Yan Chen Wongworawat, Mina Haghighiabyaneh, Courtney A. Kilkuts, Caitlyn M. McGue, Marcus Couey, Nicholas Callahan, Coleen Doan, Paul C. Walker, Khanh K. Nguyen, Stephanie C. Kidd, Steve C. Lee, Anupama Grandhi, Allen Cheng, Ashish Patel, Elizabeth Philipone, Olivia L. Ricks, Clint Allen, Bradley E. Aouizerat
Software Mentions: 6
Published: about 5 years ago

10.3389/fnbot.2020.00036

A Path Toward Explainable AI and Autonomous Adaptive Intelligence: Deep Learning, Adaptive Resonance, and Models of Perception, Emotion, and Action
Cited by: 36
Author(s): Stephen Grossberg
Software Mentions: 6
Published: about 6 years ago

10.1155/2016/6794916

Determining Cutoff Point of Ensemble Trees Based on Sample Size in Predicting Clinical Dose with DNA Microarray Data
Cited by: 7
Author(s): Selen Yilmaz İşikhan, Erdem Karabulut, Celal Reha Alpar
Software Mentions: 6
Published: over 10 years ago

10.1098/rspb.2017.1313

Mortality risk and social network position in resident killer whales: sex differences and the importance of resource abundance
Cited by: 68
Author(s): Stephen Ellis, Daniel W. Franks, Stuart Nattrass, Michael A. Cant, Michael N. Weiss, D. K. Giles, Kenneth C. Balcomb, Darren P. Croft
Software Mentions: 6
Published: over 8 years ago

10.3389/fnbeh.2020.581296

A Probiotic Mixture Induces Anxiolytic- and Antidepressive-Like Effects in Fischer and Maternally Deprived Long Evans Rats
Cited by: 6
Author(s): Valérie Daugé, Catherine Philippe, Mahendra Mariadassou, Olivier Rué, Jean‐Charles Martin, Marie Rossignol, Nathalie Dourmap, Ljubica Svilar, Franck Tourniaire, Magali Monnoye, Déborah Jardet, Marie Bangratz, Sophie Holowacz, Sylvie Rabot, Laurent Naudon
Software Mentions: 6
Published: over 5 years ago

10.1128/mSystems.00017-19

Probiotic <i>Bifidobacterium lactis</i> V9 Regulates the Secretion of Sex Hormones in Polycystic Ovary Syndrome Patients through the Gut-Brain Axis
Cited by: 128
Author(s): Jiachao Zhang, Zhihong Sun, Shuaiming Jiang, Xiaoye Bai, Chenchen Ma, Qingyun Peng, Kaining Chen, Haibo Chang, Tuanyu Fang, Heping Zhang
Software Mentions: 6
Published: about 7 years ago

10.3390/toxins11010019

Interannual Variability of Dinophysis acuminata and Protoceratium reticulatum in a Chilean Fjord: Insights from the Realized Niche Analysis
Cited by: 23
Author(s): Catharina Alves‐de‐Souza, José Luis Iriarte, Jorge I. Mardones
Software Mentions: 6
Published: over 7 years ago

10.3390/molecules26185574

Exploring EZH2-Proteasome Dual-Targeting Drug Discovery through a Computational Strategy to Fight Multiple Myeloma
Cited by: 2
Author(s): Filipe G A Estrada, Silvia Miccoli, Natália Aniceto, Alfonso T. García-Sosa, Rita C. Guedes
Software Mentions: 6
Published: almost 5 years ago

10.1371/journal.pcbi.1003671

Comparison of REST Cistromes across Human Cell Types Reveals Common and Context-Specific Functions
Cited by: 41
Author(s): Shira Rockowitz, Wen-Hui Lien, Erika Pedrosa, Gang Wei, Mingyan Lin, Keji Zhao, Herbert M. Lachman, Elaine Fuchs, Deyou Zheng
Software Mentions: 6
Published: about 12 years ago

10.3389/fgene.2018.00237

Genomic Prediction of Breeding Values Using a Subset of SNPs Identified by Three Machine Learning Methods
Cited by: 109
Author(s): Bo Li, Nanxi Zhang, You‐Gan Wang, Andrew W. George, Antônio Reverter, Yutao Li
Software Mentions: 6
Published: about 8 years ago

10.3389/fnins.2019.01203

Multimodal Integration of Brain Images for MRI-Based Diagnosis in Schizophrenia
Cited by: 25
Author(s): Raymond Salvador, Erick Jorge Canales-Rodríguez, Amalia Guerrero-Pedraza, Salvador Sarró, Diana Tordesillas‐Gutiérrez, Teresa Maristany, Benedicto Crespo‐Facorro, Peter McKenna, Edith Pomarol‐Clotet
Software Mentions: 6
Published: over 6 years ago

10.1016/j.envpol.2020.116011

Changes in air quality during COVID-19 ‘lockdown’ in the United Kingdom
Cited by: 90
Author(s): Calvin Jephcote, Anna Hansell, Kathryn Adams, John Gulliver
Software Mentions: 6
Published: over 5 years ago

10.3389/fpsyg.2019.02678

Multiple Negative Emotions During Learning With Digital Learning Environments – Evidence on Their Detrimental Effect on Learning From Two Methodological Approaches
Cited by: 17
Author(s): Franz Wortha, Roger Azevedo, Michelle Taub, Susanne Narciss
Software Mentions: 6
Published: over 6 years ago

10.7554/eLife.16797

Conserved functional antagonism of CELF and MBNL proteins controls stem cell-specific alternative splicing in planarians
Cited by: 46
Author(s): Jordi Solana, Manuel Irimia, Salah Ayoub, Marta Rodriguez Orejuela, Vera Zywitza, Marvin Jens, Javier Tapial, Debashish Ray, Quaid Morris, Timothy R. Hughes, Benjamin J. Blencowe, Nikolaus Rajewsky
Software Mentions: 6
Published: almost 10 years ago

10.1016/j.cell.2018.09.040

Nervous System Regionalization Entails Axial Allocation before Neural Differentiation
Cited by: 116
Author(s): Vicki Metzis, Sebastian Steinhauser, Edvinas Pakanavicius, Mina Gouti, Despina Stamataki, Kenzo Ivanovitch, Thomas Watson, Teresa Rayón, S. Neda Mousavy Gharavy, Robin Lovell-Badge, Nicholas M. Luscombe, James Briscoe
Software Mentions: 6
Published: over 7 years ago

10.3390/cancers12123551

High-Plex and High-Throughput Digital Spatial Profiling of Non-Small-Cell Lung Cancer (NSCLC)
Cited by: 27
Author(s): James Monkman, Touraj Taheri, Majid Ebrahimi Warkiani, Connor O’Leary, Rahul Ladwa, Derek J. Richard, K.J. O’Byrne, Arutha Kulasinghe
Software Mentions: 6
Published: over 5 years ago

10.3389/fgene.2021.667358

Improving Genomic Prediction Using High-Dimensional Secondary Phenotypes
Cited by: 3
Author(s): Bader Arouisse, Tom P.J.M. Theeuwen, F.A. van Eeuwijk, Willem Kruijer
Software Mentions: 6
Published: about 5 years ago

10.1038/s41396-021-00931-z

Fine-scale metabolic discontinuity in a stratified prokaryote microbiome of a Red Sea deep halocline
Cited by: 8
Author(s): Grégoire Michoud, David Kamanda Ngugi, Alan Barozzi, Giuseppe Merlino, María Ll. Calleja, António Delgado Huertas, Xosé Anxelu G. Morán, Daniele Daffonchio
Software Mentions: 6
Published: over 5 years ago

10.1038/s41598-021-94805-1

AnnoMiner is a new web-tool to integrate epigenetics, transcription factor occupancy and transcriptomics data to predict transcriptional regulators
Cited by: 4
Author(s): Arno Meiler, Fabio Marchianò, Margaux Haering, Manuela Weitkunat, Frank Schnorrer, Bianca Habermann
Software Mentions: 6
Published: almost 5 years ago

10.3390/vision3040055

Development of Open-source Software and Gaze Data Repositories for Performance Evaluation of Eye Tracking Systems
Cited by: 0
Author(s): Anuradha Kar, Peter Corcoran
Software Mentions: 6
Published: over 6 years ago

10.1155/2020/2319194

Immune-Related lncRNA Correlated with Transcription Factors Provide Strong Prognostic Prediction in Gliomas
Cited by: 4
Author(s): Yantao Tian, Yiquan Ke, Yanxia Ma
Software Mentions: 6
Published: over 5 years ago

10.1242/dmm.047225

Hearing impairment due to <i>Mir183/96/182</i> mutations suggests both loss-of-function and gain-of-function effects
Cited by: 10
Author(s): Morag A. Lewis, Francesca Di Domenico, Neil J. Ingham, Haydn M. Prosser, Karen P. Steel
Software Mentions: 6
Published: over 5 years ago

10.3389/fmicb.2018.00674

Nitrosospira sp. Govern Nitrous Oxide Emissions in a Tropical Soil Amended With Residues of Bioenergy Crop
Cited by: 38
Author(s): Késia Silva Lourenço, Noriko A. Cassman, Agata Pijl, Johannes A. van Veen, Heitor Cantarella, Eiko E. Kuramae
Software Mentions: 6
Published: about 8 years ago

10.18632/aging.103832

Prognostic model of patients with liver cancer based on tumor stem cell content and immune process
Cited by: 7
Author(s): Jie Zhu, Miaomiao Gao, Yuchen Jin, Weiran Huang, Zhuo Huang, Zhengwei Xie
Software Mentions: 6
Published: almost 6 years ago

10.1093/bioinformatics/btaa591

Epiviz File Server: Query, transform and interactively explore data from indexed genomic files
Cited by: 4
Author(s): Jayaram Kancherla, Yifan Yang, Hyeyun Chae, Héctor Corrada Bravo
Software Mentions: 6
Published: about 6 years ago

10.1038/s41598-021-85829-8

Nitrogen has a greater influence than phosphorus on the diazotrophic community in two successive crop seasons in Northeast China
Cited by: 4
Author(s): Jing Zhou, Mingchao Ma, Dawei Guan, Xin Jiang, Nianxin Zhang, Fengyue Shu, Yong Kong, Jun Li
Software Mentions: 6
Published: over 5 years ago

10.18632/aging.102817

Identification of prognostic immune-related genes in the tumor microenvironment of endometrial cancer
Cited by: 61
Author(s): Peigen Chen, Yongtao Yang, Yu Zhang, Senwei Jiang, Xiaomao Li, Jing Wan
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pntd.0005246

The Biomphalaria glabrata DNA methylation machinery displays spatial tissue expression, is differentially active in distinct snail populations and is modulated by interactions with Schistosoma mansoni
Cited by: 39
Author(s): Kathrin K. Geyer, Umar Niazi, David Timothy Duval, Céline Cosseau, Chad Tomlinson, Iain W. Chalmers, Martin Swain, David Cutress, Utibe Bickham-Wright, Sabrina E. Munshi, Christoph Grunau, Timothy P. Yoshino, Karl F. Hoffmann
Software Mentions: 6
Published: about 9 years ago

10.1371/journal.pone.0236429

pH effect on strain-specific transcriptomes of the take-all fungus
Cited by: 1
Author(s): Kévin Gazengel, Lionel Lebreton, Nicolas Lapalu, Joëlle Amselem, Anne‐Yvonne Guillerm‐Erckelboudt, Denis Tagu, Stéphanie Daval
Software Mentions: 6
Published: almost 6 years ago

10.18632/aging.103994

Molecular identification of protein kinase C beta in Alzheimer's disease
Cited by: 6
Author(s): Zhike Zhou, Fenqin Chen, Shanshan Zhong, Yi Zhou, Rongwei Zhang, Kexin Kang, Xiaoqian Zhang, Ying Xu, Mei Zhao, Chuansheng Zhao
Software Mentions: 6
Published: over 5 years ago

10.1038/s41598-021-94247-9

Automated scoring for a Tablet-based Rey Figure copy task differentiates constructional, organisational, and motor abilities
Cited by: 4
Author(s): Marco Alessandro Petilli, Roberta Daini, Francesca Lea Saibene, Marco Rabuffetti
Software Mentions: 6
Published: almost 5 years ago

10.1371/journal.pone.0229001

Repeated sleep disruption in mice leads to persistent shifts in the fecal microbiome and metabolome
Cited by: 45
Author(s): Samuel J. Bowers, Fernando Vargas, Antonio González, Shannon He, Peng Jiang, Pieter C. Dorrestein, Rob Knight, Kenneth P. Wright, Christopher A. Lowry, Monika Fleshner, Martha Hotz Vitaterna, Fred W. Turek
Software Mentions: 6
Published: over 6 years ago

10.3390/biology10090861

Thermal and Oxygen Flight Sensitivity in Ageing Drosophila melanogaster Flies: Links to Rapamycin-Induced Cell Size Changes
Cited by: 6
Author(s): Ewa Szlachcic, Marcin Czarnołęski
Software Mentions: 6
Published: almost 5 years ago

10.1186/s13059-020-02099-9

Contiguous and stochastic CHH methylation patterns of plant DRM2 and CMT2 revealed by single-read methylome analysis
Cited by: 11
Author(s): Keith D. Harris, Assaf Zemach
Software Mentions: 6
Published: almost 6 years ago

10.3390/jof7040249

Improvements in the Resistance of the Banana Species to Fusarium Wilt: A Systematic Review of Methods and Perspectives
Cited by: 15
Author(s): Anelita de Jesus Rocha, Julianna Matos da Silva Soares, Fernanda dos Santos Nascimento, Adriadna Souza Santos, Vanusia Batista de Oliveira Amorim, Cláudia Fortes Ferreira, Fernando Haddad, Janay Almeida dos Santos-Serejo, Édson Perito Amorim
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0241128

Kin recognition: Neurogenomic response to mate choice and sib mating avoidance in a parasitic wasp
Cited by: 0
Author(s): Aurore Gallot, Sandrine Sauzet, Emmanuel Desouhant
Software Mentions: 6
Published: over 5 years ago

10.3389/fmicb.2019.02120

Incorporating Statistical Test and Machine Intelligence Into Strain Typing of Staphylococcus haemolyticus Based on Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry
Cited by: 18
Author(s): Chia-Ru Chung, Hsin-Yao Wang, Frank Lien, Yi-Ju Tseng, Chun‐Hsien Chen, Tzong-Yi Lee, Tsui Ping Liu, Jorng-Tzong Horng, Jang Jih Lu
Software Mentions: 6
Published: almost 7 years ago

10.1002/ece3.7481

The effect of sampling density and study area size on landscape genetics inferences for the Mississippi slimy salamander (<i>Plethodon mississippi</i>)
Cited by: 2
Author(s): Stephanie M. Burgess, Ryan C. Garrick
Software Mentions: 6
Published: about 5 years ago

10.7554/eLife.61590

Genetic disruption of WASHC4 drives endo-lysosomal dysfunction and cognitive-movement impairments in mice and humans
Cited by: 23
Author(s): Jamie L Courtland, Tyler Wa Bradshaw, Greg Waitt, Erik J. Soderblom, Tricia Ho, Anna Rajab, Ricardo Vancini, Il Hwan Kim, Scott H. Soderling
Software Mentions: 6
Published: over 5 years ago

10.1002/ece3.6676

Hare's affairs: Lessons learnt from a noninvasive genetic monitoring for tracking mountain hare individuals
Cited by: 9
Author(s): Laura Schenker, Kurt Bollmann, Maik Rehnus, Sabine Brodbeck, Félix Gugerli
Software Mentions: 6
Published: almost 6 years ago

10.1007/s00125-019-05032-3

Clinical and genetic correlates of islet-autoimmune signatures in juvenile-onset type 1 diabetes
Cited by: 19
Author(s): Laura A. Claessens, Joris Wesselius, Menno van Lummel, Sandra Laban, Flip Mulder, Dick Mul, Tanja Nikolić, Henk‐Jan Aanstoot, Bobby P. C. Koeleman, Bart O. Roep
Software Mentions: 6
Published: over 6 years ago

10.1002/ece3.5121

Bats in a changing landscape: Linking occupancy and traits of a diverse montane bat community to fire regime
Cited by: 29
Author(s): Rachel V. Blakey, Elisabeth B. Webb, Dylan C. Kesler, Rodney B. Siegel, Derek Corcoran, Matthew Johnson
Software Mentions: 6
Published: about 7 years ago

10.18632/aging.202718

TMBIM6, a potential virus target protein identified by integrated multiomics data analysis in SARS-CoV-2-infected host cells
Cited by: 4
Author(s): Qizheng Han, Junhao Wang, Haihua Luo, Lei Li, Xinya Lu, Aihua Liu, Yongqiang Deng, Yong Jiang
Software Mentions: 6
Published: over 5 years ago

10.7717/peerj.5715

Effects of agricultural management on phyllosphere fungal diversity in vineyards and the association with adjacent native forests
Cited by: 24
Author(s): Luis E. Castañeda, Tohru Miura, Roland Sánchez, Olga Barbosa
Software Mentions: 6
Published: over 7 years ago

10.18632/aging.103923

Two machine learning methods identify a metastasis-related prognostic model that predicts overall survival in medulloblastoma patients
Cited by: 3
Author(s): Kui Chen, Bingqing Huang, Shan Yan, Siyi Xu, Keqin Li, Kuiming Zhang, Qi Wang, Zhongwei Zhuang, Liang Wei, Yanfei Zhang, Min Liu, Hao Lian, Chunlong Zhong
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0175657

Age, gender and UV-exposition related effects on gene expression in in vivo aged short term cultivated human dermal fibroblasts
Cited by: 28
Author(s): Wolfgang Kaisers, Petra Boukamp, Hans Jürgen Stark, Holger Schwender, Julia Tigges, Jean Krutmann, Heiner Schaal
Software Mentions: 6
Published: about 9 years ago

10.1128/mSphere.00393-21

Multidimensional Clinical Surveillance of Pseudomonas aeruginosa Reveals Complex Relationships between Isolate Source, Morphology, and Antimicrobial Resistance
Cited by: 3
Author(s): Laura J. Dunphy, Glynis L. Kolling, Matthew L. Jenior, Joanne Carroll, April E Attai, Farzad Farnoud, Amy J Mathers, Molly A. Hughes, Jason A. Papin
Software Mentions: 6
Published: almost 5 years ago

10.1002/ece3.5793

Phylogeography and population genetics of pine butterflies: Sky islands increase genetic divergence
Cited by: 12
Author(s): Dale A. Halbritter, Caroline Storer, Akito Y. Kawahara, Jaret C. Daniels
Software Mentions: 6
Published: over 6 years ago

10.3389/fimmu.2021.688493

Cohesin Core Complex Gene Dosage Contributes to Germinal Center Derived Lymphoma Phenotypes and Outcomes
Cited by: 4
Author(s): Martín A. Rivas, Ceyda Durmaz, Andreas Kloetgen, Cristopher R Chin, Zhengming Chen, Bhavneet Bhinder, Amnon Koren, Aaron D. Viny, Christopher D. Scharer, Jeremy M. Boss, Olivier Elemento, Christopher E. Mason, Ari Melnick
Software Mentions: 6
Published: almost 5 years ago

10.1371/journal.pone.0184890

Effects of Eimeria tenella infection on chicken caecal microbiome diversity, exploring variation associated with severity of pathology
Cited by: 92
Author(s): Sarah E. Macdonald, Matthew J. Nolan, Kimberley Harman, Kay Boulton, David Hume, Fiona M. Tomley, Richard A. Stabler, Damer P. Blake
Software Mentions: 6
Published: almost 9 years ago

10.1371/journal.pone.0207538

Integrating spatial indicators in the surveillance of exploited marine ecosystems
Cited by: 11
Author(s): Marta M. Rufino, Nicolas Bez, Anik Brind’Amour
Software Mentions: 6
Published: over 7 years ago

10.1186/s40793-020-00356-9

Contrast diversity patterns and processes of microbial community assembly in a river-lake continuum across a catchment scale in northwestern China
Cited by: 26
Author(s): Xiangming Tang, Guobo Xie, Kwang‐Tsao Shao, Yang Hu, Jian Cai, Chengrong Bai, Yi Gong, Guang Gao
Software Mentions: 6
Published: about 6 years ago

10.1371/journal.pone.0207051

A comparative venomic fingerprinting approach reveals that galling and non-galling fig wasp species have different venom profiles
Cited by: 4
Author(s): Leonardo Abdala Elias, Denise Brentan Silva, Ricardo Silva, Yan‐Qiong Peng, Da‐Rong Yang, Norberto P. Lopes, Rodrigo Augusto Santinelo Pereira
Software Mentions: 6
Published: over 7 years ago

10.1186/s12864-021-07443-2

Investigating mechanisms underlying genetic resistance to Salmon Rickettsial Syndrome in Atlantic salmon using RNA sequencing
Cited by: 12
Author(s): Carolina P. Moraleda, Diego Robledo, Alejandro P. Gutiérrez, Jorge Del‐Pozo, José M. Yáñez, Ross D. Houston
Software Mentions: 6
Published: over 5 years ago

10.18632/aging.102714

ISG20 serves as a potential biomarker and drives tumor progression in clear cell renal cell carcinoma
Cited by: 22
Author(s): Tianbo Xu, Hailong Ruan, Su Gao, Jingchong Liu, Yuenan Liu, Zhengshuai Song, Qi Cao, Keshan Wang, Lin Bao, Di Liu, Junwei Tong, Jian Shi, Huageng Liang, Hongmei Yang, Ke Chen, Xiaoping Zhang
Software Mentions: 6
Published: over 6 years ago

10.1186/s12864-015-2346-y

CANEapp: a user-friendly application for automated next generation transcriptomic data analysis
Cited by: 12
Author(s): Dmitry Velmeshev, Patrick Lally, Marco Magistri, Mohammad Ali Faghihi
Software Mentions: 6
Published: over 10 years ago

10.3390/jof7030226

The Destructive Tree Pathogen Phytophthora ramorum Originates from the Laurosilva Forests of East Asia
Cited by: 34
Author(s): Thomas S. Jung, Marília Horta Jung, Joan Webber, Koji Kageyama, Ayaka Hieno, Hayato Masuya, Satoshi Uematsu, A. Pérez‐Sierra, Anna Harris, Jack Forster, Harvey Rees, Bruno Scanu, Sneha Patra, Tomáš Kudláček, Jan Janoušek, Tamara Corcobado, Ivan Milenković, Zoltán Á. Nagy, Ildikó Csorba, J. Bakonyi, C. M. Brasier
Software Mentions: 6
Published: over 5 years ago

10.18632/aging.202186

Systematic construction and validation of an epithelial–mesenchymal transition risk model to predict prognosis of lung adenocarcinoma
Cited by: 10
Author(s): Yunliang Tang, Yanxia Jiang, Qi Cheng, Jiao Wang, Zhenguo Zeng
Software Mentions: 6
Published: over 5 years ago

10.1111/1751-7915.13323

Diet and diet‐associated bacteria shape early microbiome development in Yellowtail Kingfish (<i>Seriola lalandi</i>)
Cited by: 56
Author(s): Jackson Wilkes Walburn, Bernd Wemheuer, Torsten Thomas, Elizabeth Copeland, Wayne A. O’Connor, Mark A. Booth, D. Stewart Fielder, Suhelen Egan
Software Mentions: 6
Published: over 7 years ago

10.1186/s12862-016-0766-1

Why do different oceanic archipelagos harbour contrasting levels of species diversity? The macaronesian endemic genus Pericallis (Asteraceae) provides insight into explaining the ‘Azores diversity Enigma’
Cited by: 4
Author(s): K. Jones, Sílvia Pérez‐Espona, J. Alfredo Reyes‐Betancort, David Pattinson, Juli Caujapé‐Castells, Simon J. Hiscock, Mark A. Carine
Software Mentions: 6
Published: over 9 years ago

10.7150/jca.58004

Pan-cancer Analysis of NEDD4L and Its Tumor Suppressor Effects in Clear Cell Renal Cell Carcinoma
Cited by: 7
Author(s): Huiyue Dong, Ling Zhu, Jingjing Sun, Yi Zhang, Qiang Cui, Lin Wu, Shushang Chen, Jun Lü
Software Mentions: 6
Published: over 5 years ago

10.1038/s41598-021-92933-2

Exhaled volatilome analysis as a useful tool to discriminate asthma with other coexisting atopic diseases in women of childbearing age
Cited by: 6
Author(s): Rosa Alba Sola Martínez, Gema Lozano‐Terol, Julia Gallego‐Jara, Eva Morales, Esther Cantero‐Cano, Manuel Rolandi Sánchez-Solís, Luis García‐Marcos, Pedro Jiménez‐Guerrero, José Antonio Noguera-Velasco, Manuel Cánovas Díaz, Teresa De Diego
Software Mentions: 6
Published: about 5 years ago

10.1101/2020.08.11.20171108

<i>ACE2</i> expression in adipose tissue is associated with COVID-19 cardio-metabolic risk factors and cell type composition
Cited by: 8
Author(s): Julia S. El-Sayed Moustafa, Anne Jackson, Sarah M. Brotman, Li Guan, Sergio Villicaña, Amy L. Roberts, Antonino Zito, Lori L. Bonnycastle, Michael R. Erdos, Narisu Narisu, Heather M. Stringham, Ryan Welch, Tingfen Yan, Timo A. Lakka, Stephen C. J. Parker, Jaakko Tuomilehto, Francis S. Collins, Päivi Pajukanta, Michael Boehnke, Heikki A. Koistinen, Markku Laakso, Mario Falchi, Jordana T. Bell, Laura J. Scott, Karen L. Mohlke, Kerrin S. Small
Software Mentions: 6
Published: almost 6 years ago

10.3389/fphys.2019.01370

A Dynamic Transcriptional Analysis Reveals IL-6 Axis as a Prominent Mediator of Surgical Acute Response in Non-ischemic Mouse Heart
Cited by: 1
Author(s): Sally Badawi, Alexandre Paccalet, Zeina Harhous, Bruno Pillot, Lionel Augeul, Fabien Van Coppenolle, Joël Lachuer, Mazen Kurdi, Claire Crola Da Silva, Michel Ovize, Gabriel Bidaux
Software Mentions: 6
Published: over 6 years ago

10.1186/s12874-020-01192-8

Relaxing the assumption of constant transition rates in a multi-state model in hospital epidemiology
Cited by: 3
Author(s): Martha Hill, Paul C. Lambert, Michael J. Crowther
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pcbi.1007869

PenDA, a rank-based method for personalized differential analysis: Application to lung cancer
Cited by: 8
Author(s): Magali Richard, Clémentine Decamps, Florent Chuffart, Élisabeth Brambilla, Sophie Rousseaux, Saadi Khochbin, Daniel Jost
Software Mentions: 6
Published: about 6 years ago

10.1371/journal.pone.0245157

A comparison of machine learning models versus clinical evaluation for mortality prediction in patients with sepsis
Cited by: 38
Author(s): William P T M van Doorn, Patricia M. Stassen, Hella F. Borggreve, Maaike J. Schalkwijk, Judith Stoffers, Otto Bekers, Steven J.R. Meex
Software Mentions: 6
Published: over 5 years ago

10.1136/jitc-2020-001942

Cell-free DNA copy number variations predict efficacy of immune checkpoint inhibitor-based therapy in hepatobiliary cancers
Cited by: 17
Author(s): Yang Xu, Ying Hu, Keyan Yang, Dongxu Wang, Jianzhen Lin, Junyu Long, Fucun Xie, Jianshan Mao, Jin Bian, Mei Guan, Jie Pan, Li Huo, Ke Hu, Xiaobo Yang, Yilei Mao, Xinting Sang, Jiao Zhang, Xi Wang, Henghui Zhang, Haitao Zhao
Software Mentions: 6
Published: about 5 years ago

10.3389/fonc.2021.718644

N6-Methyladenosine Writer Gene ZC3H13 Predicts Immune Phenotype and Therapeutic Opportunities in Kidney Renal Clear Cell Carcinoma
Cited by: 10
Author(s): Tao Guo, Duan Huang, Jinbo Chen, Jinhui Liu, Belaydi Othmane, Jiao Hu, Huihuang Li, Xiongbing Zu
Software Mentions: 6
Published: almost 5 years ago

10.1186/s12859-021-04264-8

mLoc-mRNA: predicting multiple sub-cellular localization of mRNAs using random forest algorithm coupled with feature selection via elastic net
Cited by: 6
Author(s): Prabina Kumar Meher, Anil Rai, Atmakuri Ramakrishna Rao
Software Mentions: 6
Published: about 5 years ago

10.1242/jcs.259051

The RNA-binding protein Puf5 contributes to buffering of mRNA upon chromatin-mediated changes in nascent transcription
Cited by: 0
Author(s): David Z. Kochan, Julia S. P. Mawer, Jennifer Massen, Kiril Tishinov, Swati Parekh, Martin Graef, Anne Spang, Peter Tessarz
Software Mentions: 6
Published: almost 5 years ago

10.1007/s00330-018-5680-z

Multiparametric ultrasomics of significant liver fibrosis: A machine learning-based analysis
Cited by: 82
Author(s): Wei Li, Yang Huang, Bowen Zhuang, Guangjian Liu, Hang-Tong Hu, Xin Li, Jin-Yu Liang, Zhu Wang, Xiaowen Huang, Chu-Qing Zhang, Si-Min Ruan, Xiaoyan Xie, Ming Kuang, Ming‐De Lu, Li-Da Chen, Wei Wang
Software Mentions: 6
Published: almost 8 years ago

10.1155/2021/6680883

MXRA5 Is a Novel Immune-Related Biomarker That Predicts Poor Prognosis in Glioma
Cited by: 8
Author(s): Jinzhang Sun, Jinhao Zhang, Jia-Bo Li, Feng Yuan, Luqing Tong, Xu-Ya Wang, Lulu Chen, Xiaoguang Fan, Yiming Zhang, Xiao Ren, Chen Zhang, Shukun Yu, Xuejun Yang
Software Mentions: 6
Published: about 5 years ago

10.1186/s12859-017-1542-y

flippant–An R package for the automated analysis of fluorescence-based scramblase assays
Cited by: 0
Author(s): Richard Cotton, Birgit Ploier, Michael A. Goren, Anant K. Menon, Johannes Graumann
Software Mentions: 6
Published: over 9 years ago

10.1093/ije/dyz028

Update on the global epidemiology of intussusception: a systematic review of incidence rates, age distributions and case-fatality ratios among children aged &lt;5 years, before the introduction of rotavirus vaccination
Cited by: 36
Author(s): Andrew Clark, Mateusz Hasso-Agopsowicz, Matthew W Kraus, Lisa Stockdale, Colin Sanderson, Umesh D. Parashar, Jacqueline E. Tate
Software Mentions: 6
Published: over 7 years ago

10.1002/sim.6782

Review and evaluation of penalised regression methods for risk prediction in low‐dimensional data with few events
Cited by: 208
Author(s): Menelaos Pavlou, Gareth Ambler, Shaun Seaman, Maria De Iorio, Rumana Omar
Software Mentions: 6
Published: over 10 years ago

10.3390/s19204496

Simultaneous Assessment of Urinary and Fecal Volatile Organic Compound Analysis in De Novo Pediatric IBD
Cited by: 9
Author(s): Sofia el Manouni el Hassani, Sofie Bosch, Jesse P. M. Lemmen, Marina Brizzio Brentar, Ibrahim Ayada, Alfian Wicaksono, James A. Covington, Marc A. Benninga, Nanne K. H. de Boer, Tim G. J. de Meij
Software Mentions: 6
Published: over 6 years ago

10.3389/fgene.2019.01056

Meta-Analysis of HTLV-1-Infected Patients Identifies CD40LG and GBP2 as Markers of ATLL and HAM/TSP Clinical Status: Two Genes Beat as One
Cited by: 5
Author(s): Eduardo R. Fukutani, Pablo Ivan Pereira Ramos, José Irahe Kasprzykowski, Lucas Gentil Azevedo, Moreno Magalhães de Souza Rodrigues, João Victor Lima, Helton Fábio Santos de Araújo, Kiyoshi F. Fukutani, Artur T. L. Queiroz
Software Mentions: 6
Published: over 6 years ago

10.1038/s42003-020-01616-7

Gene regulatory networks controlling differentiation, survival, and diversification of hypothalamic Lhx6-expressing GABAergic neurons
Cited by: 24
Author(s): Dong Won Kim, Kai Li, Zoe Qianyi Wang, Yi Stephanie Zhang, Abhijith Bathini, Matthew Brown, Sonia Hao Lin, Parris Whitney Washington, Cuiyun Sun, Susan Lindtner, Bora Lee, Hong Wang, Tomomi Shimogori, John L.R. Rubenstein, Seth Blackshaw
Software Mentions: 6
Published: over 5 years ago

10.1098/rstb.2019.0242

Phylogenetic conservation of soil bacterial responses to simulated global changes
Cited by: 41
Author(s): Kazuo Isobe, Nicholas J. Bouskill, Eoin L. Brodie, Erika A. Sudderth, Jennifer B. H. Martiny
Software Mentions: 6
Published: over 6 years ago

10.3390/tropicalmed6020061

Epidemiology of West Nile Virus Infections in Humans, Italy, 2012–2020: A Summary of Available Evidences
Cited by: 22
Author(s): Matteo Riccò, Simona Peruzzi, Federica Balzarini
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0219357

The trade-off between fix rate and tracking duration on estimates of home range size and habitat selection for small vertebrates
Cited by: 26
Author(s): Lucy J. Mitchell, Piran C. L. White, Kathryn E. Arnold
Software Mentions: 6
Published: almost 7 years ago