10.1530/ERC-19-0474

A xenograft and cell line model of SDH-deficient pheochromocytoma derived from Sdhb+/− rats
Cited by: 15
Author(s): James F. Powers, Brent Cochran, James D. Baleja, Hadley D. Sikes, Andrew Pattison, Xue Zhang, Inna Lomakin, Annette Shepard-Barry, Karel Pacák, Sun Jin Moon, Troy F. Langford, Kassi T. Stein, Richard W. Tothill, Ying-Bin Ouyang, Arthur S. Tischler
Software Mentions: 5
Published: about 6 years ago

10.1186/s12964-019-0492-6

Comprehensive profiling identifies a novel signature with robust predictive value and reveals the potential drug resistance mechanism in glioma
Cited by: 18
Author(s): Fan Zeng, Kuanyu Wang, Xiu Liu, Zheng Zhao
Software Mentions: 5
Published: over 6 years ago

10.1186/s13059-018-1536-8

Clust: automatic extraction of optimal co-expressed gene clusters from gene expression data
Cited by: 111
Author(s): Basel Abu‐Jamous, Steven Kelly
Software Mentions: 5
Published: over 7 years ago

10.3390/cancers12102959

De Novo A-to-I RNA Editing Discovery in lncRNA
Cited by: 15
Author(s): Domenico Alessandro Silvestris, Chiara Scopa, Sara Hanchi, Franco Locatelli, Angela Gallo
Software Mentions: 5
Published: almost 6 years ago

10.3390/cancers13030365

Genome-Wide Circular RNA Expression Patterns Reflect Resistance to Immunomodulatory Drugs in Multiple Myeloma Cells
Cited by: 18
Author(s): Theresa Jakobsen, Mette Dahl, Konstantinos Dimopoulos, Kirsten Grønbæk, Jørgen Kjems, Lasse Sommer Kristensen
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0212365

Mycobacteriophage CRB2 defines a new subcluster in mycobacteriophage classification
Cited by: 4
Author(s): Cristian Alejandro Suárez, Jorgelina Judith Franceschelli, Héctor Ricardo Morbidoni
Software Mentions: 5
Published: over 7 years ago

10.7717/peerj.11422

The relationship between PLOD1 expression level and glioma prognosis investigated using public databases
Cited by: 5
Author(s): Lei Tian, Huandi Zhou, Guohui Wang, Wen Yan Wang, Yuehong Li, Xiaoying Xue
Software Mentions: 5
Published: about 5 years ago

10.1186/s12935-019-0955-2

PD-1 and PD-L1 correlated gene expression profiles and their association with clinical outcomes of breast cancer
Cited by: 35
Author(s): Jiang Cui, Sunrun Cao, Na Li, Lei Jiang, Tao Sun
Software Mentions: 5
Published: almost 7 years ago

10.1186/s12864-021-07787-9

The CCCH zinc finger family of soybean (Glycine max L.): genome-wide identification, expression, domestication, GWAS and haplotype analysis
Cited by: 9
Author(s): Xin Hu, Jian‐Fang Zuo
Software Mentions: 5
Published: about 5 years ago

10.18632/aging.103809

Landscape of transcription and expression regulated by DNA methylation related to age of donor and cell passage in adipose-derived mesenchymal stem cells
Cited by: 3
Author(s): Guan-Ming Lu, Yong-Xian Rong, Zheng Liang, Dong-Lin Hunag, Yuju Ma, Zhizhai Luo, Fengyao Wu, Xinheng Liu, Yu Liu, Steven Mo, Zhongquan Qi, Hong-Mian Li
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0244377

A methodology and theoretical taxonomy for centrality measures: What are the best centrality indicators for student networks?
Cited by: 7
Author(s): Kristel Vignery, Wim Laurier
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-017-15625-w

A high-density consensus linkage map of white lupin highlights synteny with narrow-leafed lupin and provides markers tagging key agronomic traits
Cited by: 49
Author(s): Michał Książkiewicz, Nelson Espinoza N., Huaan Yang, Matthew N. Nelson, Daniel Renshaw, Sandra Rychel, Barbara Ferrari, Maria Carelli, M. Tomaszewska, Stanisław Stawiński, B. Naganowska, B. Wolko, Paolo Annicchiarico
Software Mentions: 5
Published: over 8 years ago

10.1111/eva.13030

Contrasted patterns of local adaptation to climate change across the range of an evergreen oak, <i>Quercus aquifolioides</i>
Cited by: 25
Author(s): Fang Du, Tianrui Wang, Yuyao Wang, S. Ueno, Guillaume de Lafontaine
Software Mentions: 5
Published: about 6 years ago

10.3389/fmicb.2018.02077

Revisiting the Taxonomy of the Genus Arcobacter: Getting Order From the Chaos
Cited by: 237
Author(s): Alba Pérez-Cataluña, Nuria Salas-Massó, Ana L. Diéguez, Sabela Balboa, Alberto Lema, Jesús L. Romalde, María José Figueras
Software Mentions: 5
Published: almost 8 years ago

10.1186/1756-0381-5-19

Visualising associations between paired ‘omics’ data sets
Cited by: 211
Author(s): Ignacio González, Kim‐Anh Lê Cao, Melissa J. Davis, Sébastien Déjean
Software Mentions: 5
Published: over 13 years ago

10.1371/journal.pone.0121760

medplot: A Web Application for Dynamic Summary and Analysis of Longitudinal Medical Data Based on R
Cited by: 5
Author(s): Črt Ahlin, Daša Stupica, Franc Strle, Lara Lusa
Software Mentions: 5
Published: over 11 years ago

10.3390/ani10112013

Genomic Characterization of the Istrian Shorthaired Hound
Cited by: 2
Author(s): Ivona Djurkin Kušec, Ivica Bošković, Minja Zorc, Kristina Gvozdanović, Dubravko Škorput, Peter Dovč, Goran Kušec
Software Mentions: 5
Published: over 5 years ago

10.3389/fgene.2020.00654

Gene Set Analysis: Challenges, Opportunities, and Future Research
Cited by: 98
Author(s): Farhad Maleki, Katie Ovens, Daniel J. Hogan, Anthony Kusalik
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pcbi.1008550

CTD: An information-theoretic algorithm to interpret sets of metabolomic and transcriptomic perturbations in the context of graphical models
Cited by: 9
Author(s): Lillian R Thistlethwaite, Varduhi Petrosyan, Xiqi Li, Marcus J. Miller, Sarah H. Elsea, Aleksandar Milosavljevic
Software Mentions: 5
Published: over 5 years ago

10.1186/s12859-017-1674-0

Ranking metrics in gene set enrichment analysis: do they matter?
Cited by: 47
Author(s): Joanna Żyła, Michał Marczyk, January Weiner, Joanna Polańska
Software Mentions: 5
Published: about 9 years ago

10.7717/peerj.3098

Metagenomic analysis exploring taxonomic and functional diversity of soil microbial communities in Chilean vineyards and surrounding native forests
Cited by: 107
Author(s): Luis E. Castañeda, Olga Barbosa
Software Mentions: 5
Published: over 9 years ago

10.1186/s13099-019-0312-y

Differential genetic and functional background in inflammatory bowel disease phenotypes of a Greek population: a systems bioinformatics approach
Cited by: 11
Author(s): Maria Gazouli, Nikolas Dovrolis, André Franke, George M. Spyrou, Leonardo Antonio Sechi, George Kolios
Software Mentions: 5
Published: about 7 years ago

10.1371/journal.pcbi.1009021

MiMeNet: Exploring microbiome-metabolome relationships using neural networks
Cited by: 33
Author(s): Derek Reiman, Brian T. Layden, Yang Dai
Software Mentions: 5
Published: about 5 years ago

10.1016/j.jtos.2021.03.010

A single cell atlas of human cornea that defines its development, limbal progenitor cells and their interactions with the immune cells
Cited by: 84
Author(s): Joseph Collin, Rachel Queen, Darin Zerti, Sanja Bojić, Birthe Dorgau, Nicky Moyse, Marina Moya Molina, Chunbo Yang, Sunanda Dey, Gary Reynolds, Rafiqul Hussain, Jonathan Coxhead, Steven Lisgo, Deborah J. Henderson, Agatha Joseph, Paul Rooney, Saurabh Ghosh, Lucy Clarke, Che J. Connon, Muzlifah Haniffa, Francisco C Figueiredo, Lyle Armstrong, Majlinda Lako
Software Mentions: 5
Published: about 5 years ago

10.18632/oncotarget.16417

Interaction of Epstein-Barr virus genes with human gastric carcinoma transcriptome
Cited by: 10
Author(s): Ruiyuan Zhang, Michael J. Strong, Melody Baddoo, Zhen Lin, Yuping Wang, Erik K. Flemington, Yaozhong Liu
Software Mentions: 5
Published: over 9 years ago

10.7554/eLife.15657

An integrative transcriptomic atlas of organogenesis in human embryos
Cited by: 55
Author(s): Dave T. Gerrard, Andrew Berry, Rachel Jennings, Karen Piper Hanley, Nicoletta Bobola, Neil A. Hanley
Software Mentions: 5
Published: almost 10 years ago

10.1371/journal.pntd.0005701

The interplay of climate, intervention and imported cases as determinants of the 2014 dengue outbreak in Guangzhou
Cited by: 30
Author(s): Qu Cheng, Qinlong Jing, Robert C. Spear, John M. Marshall, Zhicong Yang, Peng Gong
Software Mentions: 5
Published: about 9 years ago

10.1186/s12859-015-0475-6

Pheno2Geno - High-throughput generation of genetic markers and maps from molecular phenotypes for crosses between inbred strains
Cited by: 9
Author(s): Konrad Zych, Yang Li, Joeri K. van der Velde, Ronny V.L. Joosen, Wilco Ligterink, Ritsert C. Jansen, Danny Arends
Software Mentions: 5
Published: over 11 years ago

10.1038/s42003-020-01181-z

Transcriptomic and proteomic signatures of stemness and differentiation in the colon crypt
Cited by: 27
Author(s): Amber N. Habowski, Jessica L. Flesher, Jennifer Bates, Chia‐Feng Tsai, Kendall J. Martin, Rui Zhao, Anand K. Ganesan, Robert A. Edwards, Tujin Shi, H. Steven Wiley, Yongsheng Shi, Klemens J. Hertel, Marian L. Waterman
Software Mentions: 5
Published: almost 6 years ago

10.1186/s13567-021-00925-x

Prediction of Johne’s disease state based on quantification of T cell markers and their interaction with macrophages in the bovine intestine
Cited by: 2
Author(s): Caitlin J. Jenvey, Adrienne L. Shircliff, Elsa Obando Marrero, Judith R. Stabel
Software Mentions: 5
Published: over 5 years ago

10.1186/s40168-021-01056-3

Anna Karenina and the subgingival microbiome associated with periodontitis
Cited by: 15
Author(s): Khaled Altabtbaei, Pooja Maney, Sukirth M. Ganesan, Shareef M Dabdoub, Haikady N. Nagaraja, Purnima Kumar
Software Mentions: 5
Published: about 5 years ago

10.7717/peerj.9777

Generalized Linear Models outperform commonly used canonical analysis in estimating spatial structure of presence/absence data
Cited by: 4
Author(s): Lélis Antonio Carlos-Júnior, Joel Christopher Creed, Rob H. Marrs, Rob J. Lewis, Timothy P. Moulton, Rafael Feijó‐Lima, Matthew Spencer
Software Mentions: 5
Published: almost 6 years ago

10.1186/s12879-021-06331-0

A novel CT-based radiomics in the distinction of severity of coronavirus disease 2019 (COVID-19) pneumonia
Cited by: 9
Author(s): Zongyu Xie, Haitao Sun, Jian Wang, He Xu, Shuhua Li, Cancan Zhao, Yuqing Gao, Xiaolei Wang, Tongtong Zhao, Shaofeng Duan, Chunhong Hu, Weiqun Ao
Software Mentions: 5
Published: about 5 years ago

10.1186/s12864-019-5504-9

Streamlined computational pipeline for genetic background characterization of genetically engineered mice based on next generation sequencing data
Cited by: 5
Author(s): Carlos Farkas, Francisco Fuentes-Villalobos, Boris Rebolledo‐Jaramillo, Fernando Benavides, Ariel F. Castro, Roxana Pincheira
Software Mentions: 5
Published: over 7 years ago

10.3390/ani11071860

Vacuum Dynamics as an Alternative Method for Detection of Bimodal Milk Ejection in Dairy Cows
Cited by: 0
Author(s): Matthias Wieland, C.M. Geary, G. Gioia, K. L. Case, P. Moroni, Anja Sipka
Software Mentions: 5
Published: about 5 years ago

10.1038/s41598-019-39276-1

Insights into the antigenic advancement of influenza A(H3N2) viruses, 2011–2018
Cited by: 45
Author(s): Patricia A. Jorquera, Vasiliy P. Mishin, Anton Chesnokov, Ha Nguyen, Brian R. Mann, Rebecca Garten, John Barnes, Erin Hodges, Juan de la Cruz, Xinhua Xu, Jackie Katz, David E. Wentworth, Larisa V. Gubareva
Software Mentions: 5
Published: over 7 years ago

10.1186/s12859-016-0991-z

Detecting broad domains and narrow peaks in ChIP-seq data with hiddenDomains
Cited by: 29
Author(s): Joshua Starmer, Terry Magnuson
Software Mentions: 5
Published: over 10 years ago

10.1038/s41598-021-84407-2

Premating barriers in young sympatric snail species
Cited by: 6
Author(s): Arina L. Maltseva, Marina A. Varfolomeeva, Arseniy Lobov, Polina Tikanova, Egor A. Repkin, Irina Y. Babkina, Marina Panova, Natalia A. Mikhailova, Andrei I. Granovitch
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-020-58576-5

Structural and functional differentiation of bacterial communities in post-coal mining reclamation soils of South Africa: bioindicators of soil ecosystem restoration
Cited by: 49
Author(s): Obinna T. Ezeokoli, Cornelius Carlos Bezuidenhout, Mark Maboeta, Damase P. Khasa, Rasheed Adeleke
Software Mentions: 5
Published: over 6 years ago

10.1038/s41438-021-00465-7

Genetic characterization of an almond germplasm collection and volatilome profiling of raw and roasted kernels
Cited by: 10
Author(s): Mario Di Guardo, Brian Farneti, Iuliia Khomenko, Giulia Modica, A. Mosca, Gaetano Distefano, Luca Bianco, Michela Troggio, Francesco Sottile, Stefano La Malfa, Franco Biasioli, Alessandra Gentile
Software Mentions: 5
Published: over 5 years ago

10.1093/gbe/evaa062

The Origin and Composition of Korean Ethnicity Analyzed by Ancient and Present-Day Genome Sequences
Cited by: 16
Author(s): Jung-Eun Kim, Sungwon Jeon, Jae-Pil Choi, Asta Blažytė, Yeonsu Jeon, Jong‐Il Kim, Jun Ohashi, Katsushi Tokunaga, Sumio Sugano, Suthat Fucharoen, Fahd Al-Mulla, Jong Bhak
Software Mentions: 5
Published: over 6 years ago

10.3390/genes12020292

Comparative Mitogenomics in Hyalella (Amphipoda: Crustacea)
Cited by: 5
Author(s): Francesco Zapelloni, José A. Jurado‐Rivera, Damià Jaume, Carlos Juan, Joan Pons
Software Mentions: 5
Published: over 5 years ago

10.3389/fmicb.2019.02944

Evidence for Co-evolutionary History of Early Diverging Lycopodiaceae Plants With Fungi
Cited by: 12
Author(s): Gian Maria Niccolò Benucci, Delaney Burnard, Lara D. Shepherd, Gregory Bonito, Andrew B. Munkacsi
Software Mentions: 5
Published: over 6 years ago

10.3390/ijms22115858

Calreticulin Deficiency Disturbs Ribosome Biogenesis and Results in Retardation in Embryonic Kidney Development
Cited by: 4
Author(s): Nazli Serin, Gry H. Dihazi, Asima Tayyeb, Christof Lenz, Gerhard A. Müller, Michael Zeisberg, Hassan Dihazi
Software Mentions: 5
Published: about 5 years ago

10.1007/s13577-021-00492-5

Establishment and characterization of 38 novel patient-derived primary cancer cell lines using multi-region sampling revealing intra-tumor heterogeneity of gallbladder carcinoma
Cited by: 5
Author(s): Feiling Feng, Qiang Cheng, Bin Li, Chen Liu, Huizhen Wang, Xiang Xu, Yang Yu, Zishuo Chen, Xiaobing Wu, Dong Hua, Kai-Jian Chu, Zhenghua Xie, Qingxiang Gao, Lei Xiong, Fugen Li, Bin Yi, Dadong Zhang, Xiaoqing Jiang
Software Mentions: 5
Published: over 5 years ago

10.1186/s13059-020-02175-0

Multiomics profiling of primary lung cancers and distant metastases reveals immunosuppression as a common characteristic of tumor cells with metastatic plasticity
Cited by: 32
Author(s): Won‐Chul Lee, Alexandre Reuben, Xin Hu, Nicholas McGranahan, Runzhe Chen, Ali Jalali, Marcelo V. Negrão, Shawna M. Hubert, Chad Tang, Chia-Chin Wu, Anthony San Lucas, Whijae Roh, Kenichi Suda, Jihye Kim, Aik-Choon Tan, David H. Peng, Wei Lü, Ximing Tang, Chi-Wan Chow, Junya Fujimoto, Carmen Behrens, Neda Kalhor, Kazutaka Fukumura, Marcus Coyle, Rebecca Thornton, Curtis Gumbs, Jun Li, Chang-Jiun Wu, Latasha Little, Emily Roarty, Xingzhi Song, J. Jack Lee, Erik P. Sulman, Ganesh Rao, Stephen G. Swisher, Lixia Diao, Jing Wang, John V. Heymach, Jason T. Huse, Paul Scheet, Ignacio I. Wistuba, Don L. Gibbons, P. Andrew Futreal, Jianhua Zhang, Daniel R. Gomez, Jianjun Zhang
Software Mentions: 5
Published: over 5 years ago

10.1007/s13238-021-00852-9

Single-nucleus transcriptomic landscape of primate hippocampal aging
Cited by: 41
Author(s): Hui Zhang, Jiaming Li, Jie Ren, Shuhui Sun, Shuai Ma, Weiqi Zhang, Yang Yu, Yusheng Cai, Yan Ke, Wei Li, Baoyang Hu, Piu Chan, Guoguang Zhao, Juan Carlos Izpisúa Belmonte, Qi Zhou, Jing Qu, Si Wang, Guanghui Liu
Software Mentions: 5
Published: about 5 years ago

10.3389/fgene.2021.681206

LISA2: Learning Complex Single-Cell Trajectory and Expression Trends
Cited by: 1
Author(s): Yang Chen, Yuping Zhang, Kairong Li, Zhengqing Ouyang
Software Mentions: 5
Published: almost 5 years ago

10.1186/1756-0500-7-302

Assessment of a novel multi-array normalization method based on spike-in control probes suitable for microRNA datasets with global decreases in expression
Cited by: 9
Author(s): Alain Sewer, Sylvain Gubian, Ulrike Kogel, Emilija Veljkovic, Wanjiang Han, Arnd Hengstermann, Manuel C. Peitsch, Julia Hoeng
Software Mentions: 5
Published: about 12 years ago

10.1093/bib/bbab038

Accurate prediction of inter-protein residue–residue contacts for homo-oligomeric protein complexes
Cited by: 39
Author(s): Yumeng Yan, Sheng‐You Huang
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-021-97227-1

Detecting anchored fish aggregating devices (AFADs) and estimating use patterns from vessel tracking data in small-scale fisheries
Cited by: 6
Author(s): Ahmad Catur Widyatmoko, Britta Denise Hardesty, Chris Wilcox
Software Mentions: 5
Published: almost 5 years ago

10.1038/s41598-020-65119-5

Multi-omic signatures identify pan-cancer classes of tumors beyond tissue of origin
Cited by: 17
Author(s): Agustín González-Reymúndez, Ana I. Vázquez
Software Mentions: 5
Published: about 6 years ago

10.1021/acs.jcim.0c01179

Conduction and Gating Properties of the TRAAK Channel from Molecular Dynamics Simulations with Different Force Fields
Cited by: 13
Author(s): Riccardo Ocello, Simone Furini, Francesca Lugli, Maurizio Recanatini, Carmen Domene, Matteo Masetti
Software Mentions: 5
Published: over 5 years ago

10.3389/fmicb.2018.01138

Physicochemical Drivers of Microbial Community Structure in Sediments of Lake Hazen, Nunavut, Canada
Cited by: 43
Author(s): Matti O. Ruuskanen, Kyra A. St. Pierre, Vincent L. St. Louis, Stéphane Aris‐Brosou, Alexandre J. Poulain
Software Mentions: 5
Published: about 8 years ago

10.1186/1471-2229-10-150

Pathway analysis of the transcriptome and metabolome of salt sensitive and tolerant poplar species reveals evolutionary adaption of stress tolerance mechanisms
Cited by: 129
Author(s): Dennis Janz, Katja Behnke, Jörg‐Peter Schnitzler, Basem Kanawati, Philippe Schmitt‐Kopplin, Andrea Polle
Software Mentions: 5
Published: about 16 years ago

10.5811/westjem.2018.4.37054

Geospatial Clustering of Opioid-Related Emergency Medical Services Runs for Public Deployment of Naloxone
Cited by: 19
Author(s): Daniel A. Dworkis, Scott G. Weiner, Vincent T Liao, Danielle Rabickow, Scott A Goldberg
Software Mentions: 5
Published: about 8 years ago

10.1371/journal.pone.0222995

Single session high definition transcranial direct current stimulation to the cerebellum does not impact higher cognitive function
Cited by: 7
Author(s): Ted Maldonado, James R. M. Goen, Michael J. Imburgio, Sydney M. Eakin, Bernard Ja
Software Mentions: 5
Published: almost 7 years ago

10.1186/s12864-016-2851-7

The application of transcriptomic data in the authentication of beef derived from contrasting production systems
Cited by: 6
Author(s): T. Sweeney, Alexandre Lejeune, A.P. Moloney, Frank J. Monahan, Paul M Gettigan, Gérard Downey, Stephen D. E. Park, M. F. Ryan
Software Mentions: 5
Published: almost 10 years ago

10.1371/journal.pone.0221596

Sepsis information-seeking behaviors via Wikipedia between 2015 and 2018: A mixed methods retrospective observational study
Cited by: 7
Author(s): Craig S. Jabaley, Robert F. Groff, Theresa J. Barnes, Mark Caridi-Scheible, James M. Blum, Vikas N O’Reilly-Shah
Software Mentions: 5
Published: almost 7 years ago

10.1001/jamanetworkopen.2019.16205

Association Between Acute Gastroenteritis and Continuous Use of Proton Pump Inhibitors During Winter Periods of Highest Circulation of Enteric Viruses
Cited by: 35
Author(s): Ana‐Maria Vilcu, Laure Sabatte, Thierry Blanchon, Cécile Souty, Milka Maravic, Magali Lemaître, Olivier Steichen, Thomas Hanslik
Software Mentions: 5
Published: over 6 years ago

10.3389/fgene.2020.579709

Potential of Immune-Related Genes as Biomarkers for Diagnosis and Subtype Classification of Preeclampsia
Cited by: 8
Author(s): Ying Wang, Zhen Li, Guanhua Song, Jun Wang
Software Mentions: 5
Published: over 5 years ago

10.1186/s12874-020-01173-x

An assessment of the potential miscalibration of cardiovascular disease risk predictions caused by a secular trend in cardiovascular disease in England
Cited by: 2
Author(s): Alexander Pate, Tjeerd van Staa, Richard Emsley
Software Mentions: 5
Published: over 5 years ago

10.1007/s00442-021-04977-w

Bank vole alarm pheromone chemistry and effects in the field
Cited by: 1
Author(s): Thorbjörn Sievert, Hannu Ylönen, James D. Blande, Amélie Saunier, Dave van der Hulst, Olga Ylönen, Marko Haapakoski
Software Mentions: 5
Published: about 5 years ago

10.1038/s41598-018-21401-1

Birds and beans: Comparing avian richness and endemism in arabica and robusta agroforests in India’s Western Ghats
Cited by: 9
Author(s): Charlotte H. Chang, Krithi K. Karanth, Paul Robbins
Software Mentions: 5
Published: over 8 years ago

10.1371/journal.pone.0156594

Removing Batch Effects from Longitudinal Gene Expression - Quantile Normalization Plus ComBat as Best Approach for Microarray Transcriptome Data
Cited by: 94
Author(s): Christian Müller, Arne Schillert, Caroline Röthemeier, David‐Alexandre Trégouët, Carole Proust, Harald Binder, Norbert Pfeiffer, Manfred E. Beutel, Karl J. Lackner, Renate B. Schnabel, Laurence Tiret, Philipp S. Wild, Stefan Blankenberg, Tanja Zeller, Andreas Ziegler
Software Mentions: 5
Published: about 10 years ago

10.3389/fmicb.2015.00024

Resuscitation of the rare biosphere contributes to pulses of ecosystem activity
Cited by: 150
Author(s): Zachary T. Aanderud, Stuart Jones, Noah Fierer, Jay T. Lennon
Software Mentions: 5
Published: over 11 years ago

10.1002/ece3.2527

Experimentally comparing the attractiveness of domestic lights to insects: Do LEDs attract fewer insects than conventional light types?
Cited by: 44
Author(s): Andrew Wakefield, Moth Broyles, Emma L. Stone, Gareth Jones, Stephen Harris
Software Mentions: 5
Published: almost 10 years ago

10.3389/fcimb.2021.669088

The Transcription Factor PfAP2-O Influences Virulence Gene Transcription and Sexual Development in Plasmodium falciparum
Cited by: 3
Author(s): Eliana Fernanda Galindo Cubillos, Isadora Oliveira Prata, Wesley Luzetti Fotoran, Lisa Ranford-Cartwright, Gerhard Wunderlich
Software Mentions: 5
Published: about 5 years ago

10.1016/j.bbih.2019.100012

Cognitive reappraisal and nasal cytokine production following experimental rhinovirus infection
Cited by: 6
Author(s): Ryan L. Brown, Anoushka D. Shahane, Michelle A. Chen, Christopher P. Fagundes
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0224220

Age, period and cohort analysis of age-specific maternal mortality trend in Ethiopia: A secondary analysis
Cited by: 2
Author(s): Biniam Getachew, Tippawan Liabsuetrakul, Shama Virani, Yirgu Gebrehiwot
Software Mentions: 5
Published: over 6 years ago

10.1186/s12889-020-10131-7

The association between ambient temperature and mortality of the coronavirus disease 2019 (COVID-19) in Wuhan, China: a time-series analysis
Cited by: 25
Author(s): Gaopei Zhu, Yuhang Zhu, Zhongli Wang, Weijing Meng, Xiaoxuan Wang, Jianing Feng, Juan Li, Yufei Xiao, Fuyan Shi, Shuzhen Wang
Software Mentions: 5
Published: over 5 years ago

10.3390/ijms20236098

RankerGUI: A Computational Framework to Compare Differential Gene Expression Profiles Using Rank Based Statistics
Cited by: 5
Author(s): Amarinder Singh Thind, Kumar Parijat Tripathi, Mario Rosario Guarracino
Software Mentions: 5
Published: over 6 years ago

10.3390/ani9100733

Virulence Genes, Shiga Toxin Subtypes, Serogroups, and Clonal Relationship of Shiga Toxin-Producing Escherichia Coli Strains Isolated from Livestock and Companion Animals
Cited by: 15
Author(s): Nicolás Galarce, Beatriz Escobar, Francisco Javier Sierro Sánchez, Esteban Paredes-Osses, Raúl Alegría-Morán, César Borie
Software Mentions: 5
Published: almost 7 years ago

10.1186/s12898-018-0171-2

Do avian blood parasites influence hypoxia physiology in a high elevation environment?
Cited by: 20
Author(s): Farah Ishtiaq, Sahas Barve
Software Mentions: 5
Published: about 8 years ago

10.1186/s12898-019-0220-5

Ecological and life history traits are associated with Ross River virus infection among sylvatic mammals in Australia
Cited by: 11
Author(s): Michael Walsh
Software Mentions: 5
Published: over 7 years ago

10.1186/s12862-018-1297-8

Diversity of opisthokont septin proteins reveals structural constraints and conserved motifs
Cited by: 15
Author(s): Ben Auxier, Jaclyn Dee, Mary L. Berbee, Michelle Momany
Software Mentions: 5
Published: over 7 years ago

10.1186/s12885-016-2178-4

Genetic and cellular studies highlight that A Disintegrin and Metalloproteinase 19 is a protective biomarker in human prostate cancer
Cited by: 13
Author(s): Gerard F. Hoyne, Caoline Rudnicka, Qing‐Xiang Amy Sang, Mark D. Roycik, Sarah Howarth, Peter J. Leedman, Markus P. Schlaich, Patrick A. Candy, Vance B. Matthews
Software Mentions: 5
Published: over 10 years ago

10.1002/ece3.3547

Weak whole‐plant trait coordination in a seasonally dry South American stressful environment
Cited by: 25
Author(s): José Luiz Alves Silva, Alexandre F. Souza, Adriano Caliman, Eduardo Luiz Voigt, Juliana Espada Lichston
Software Mentions: 5
Published: over 8 years ago

10.1002/ece3.6126

Evolution of altitudinal migration in passerines is linked to diet
Cited by: 13
Author(s): Claudie Pageau, Mariana M. Vale, Márcio Argollo de Menezes, Luciana Barçante, Mateen Shaikh, Maria Alice S. Alves, Matthew W. Reudink
Software Mentions: 5
Published: over 6 years ago

10.1002/ece3.7793

Common Buzzards wintering strategies as an effect of weather conditions and geographic barriers
Cited by: 1
Author(s): Emanuel Ștefan Baltag, István Kovács, Lucian Sfîcă
Software Mentions: 5
Published: about 5 years ago

10.1002/ece3.3447

Intraspecific trait variation can weaken interspecific trait correlations when assessing the whole‐plant economic spectrum
Cited by: 36
Author(s): Daniel C. Laughlin, Christopher H. Lusk, Peter J. Bellingham, David F. R. P. Burslem, A. H. R. W. Simpson, Kris Rushton Kramer-Walter
Software Mentions: 5
Published: almost 9 years ago

10.3389/fmicb.2020.00966

A Comparative Analysis of Ash Leaf-Colonizing Bacterial Communities Identifies Putative Antagonists of Hymenoscyphus fraxineus
Cited by: 21
Author(s): Kristina Ulrich, Regina Becker, Undine Behrendt, Michael Kube, Andreas Ulrich
Software Mentions: 5
Published: about 6 years ago

10.3389/fmicb.2019.03105

Community Assembly of Endophytic Fungi in Ectomycorrhizae of Betulaceae Plants at a Regional Scale
Cited by: 12
Author(s): Yong-Long Wang, Cheng Gao, Liang Chen, Niu‐Niu Ji, Bian Wu, Pingli Lu, Xingchun Li, Xin Qian, Pulak Maitra, Busayo Joshua Babalola, Yong Zheng, Liang‐Dong Guo
Software Mentions: 5
Published: over 6 years ago

10.3389/fmicb.2019.02902

Exploring Soil Factors Determining Composition and Structure of the Bacterial Communities in Saline-Alkali Soils of Songnen Plain
Cited by: 42
Author(s): Shuang Wang, Lei Sun, Ning Ling, Chen Zhu, Fengqin Chi, Weiqun Li, Xiaoyu Hao, Wu Zhang, Jingyang Bian, Lei Chen, Dan Wei
Software Mentions: 5
Published: over 6 years ago

10.3389/fmicb.2020.590944

Analyzing Ash Leaf-Colonizing Fungal Communities for Their Biological Control of Hymenoscyphus fraxineus
Cited by: 21
Author(s): Regina Becker, Kristina Ulrich, Undine Behrendt, Michael Kube, Andreas Ulrich
Software Mentions: 5
Published: over 5 years ago

10.3389/fonc.2020.00117

From the Clinic to the Bench and Back Again in One Dog Year: How a Cross-Species Pipeline to Identify New Treatments for Sarcoma Illuminates the Path Forward in Precision Medicine
Cited by: 17
Author(s): Satish Rao, Jason A. Somarelli, Erdem Altunel, Laura E. Selmic, Mark Byrum, Maya U. Sheth, Serene Cheng, Kathryn E. Ware, So Young Kim, Joseph A. Prinz, Nicolas Devos, David L. Corcoran, Arthur Moseley, Erik J. Soderblom, Shiaowen David Hsu, William C. Eward
Software Mentions: 5
Published: over 6 years ago

10.3389/fpls.2019.01434

Mapping and Dynamics of Regulatory DNA in Maturing Arabidopsis thaliana Siliques
Cited by: 12
Author(s): Alessandra M. Sullivan, Andrej A Arsovski, Agnieszka Thompson, Richard Sandstrom, Robert E. Thurman, Shane Neph, Audra Johnson, Shawn Sullivan, Peter J. Sabo, Fidencio Neri, Molly Weaver, Morgan Diegel, Jennifer L. Nemhauser, J Stamatoyannopoulos, Kerry L Bubb, Christine Queitsch
Software Mentions: 5
Published: over 6 years ago

10.3389/fpls.2020.01140

Development of a Novel Phenotypic Roadmap to Improve Blueberry Quality and Storability
Cited by: 10
Author(s): Brian Farneti, F. Emanuelli, Iuliia Khomenko, M. Ajelli, Franco Biasioli, L. Giongo
Software Mentions: 5
Published: almost 6 years ago

10.3389/fpls.2020.00022

Plastome Evolution and Phylogeny of Orchidaceae, With 24 New Sequences
Cited by: 50
Author(s): Sang Hyun Kim, Sangjin Jo, Se Hwan Cheon, Min Jung Joo, Ja Ram Hong, Myounghai Kwak, Ki Joong Kim
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0160169

MixMC: A Multivariate Statistical Framework to Gain Insight into Microbial Communities
Cited by: 125
Author(s): Kim‐Anh Lê Cao, Mary-Ellen Costello, Vanessa Lakis, François Bartolo, Xin-Yi Chua, Rémi Brazeilles, Pascale Rondeau
Software Mentions: 5
Published: almost 10 years ago

10.3390/metabo9060113

Cerebral Vitamin B5 (D-Pantothenic Acid) Deficiency as a Potential Cause of Metabolic Perturbation and Neurodegeneration in Huntington’s Disease
Cited by: 46
Author(s): Stefano Patassini, Paul Begley, Jiaolong Xu, Stephanie J. Church, Nina Kureishy, Suzanne J. Reid, Henry J. Waldvogel, Richard L.M. Faull, Russell G. Snell, Richard D. Unwin, Garth J. S. Cooper
Software Mentions: 5
Published: about 7 years ago

10.1186/s12859-017-1462-x

Comparative network stratification analysis for identifying functional interpretable network biomarkers
Cited by: 5
Author(s): Chuanchao Zhang, Juan Liu, Qianqian Shi, Tao Zeng, Luonan Chen
Software Mentions: 5
Published: over 9 years ago

10.1186/s13058-016-0714-4

Intermittent energy restriction induces changes in breast gene expression and systemic metabolism
Cited by: 33
Author(s): Michelle Harvie, Andrew H. Sims, Mary Pegington, Katherine Spence, Adam Mitchell, Andrew A. Vaughan, J. William Allwood, Yun Xu, Nicholas J. W. Rattray, Royston Goodacre, D. Gareth Evans, Ellen Sullivan Mitchell, Debbie McMullen, Robert B. Clarke, Anthony Howell
Software Mentions: 5
Published: about 10 years ago

10.1186/s12859-018-2149-7

Ensemble outlier detection and gene selection in triple-negative breast cancer data
Cited by: 25
Author(s): Marta B. Lopes, André Veríssimo, Eunice Carrasquinha, Sandra Casimiro, Niko Beerenwinkel, Susana Vinga
Software Mentions: 5
Published: about 8 years ago

10.3390/s19030626

Understanding Eye Movement Signal Characteristics Based on Their Dynamical and Fractal Features
Cited by: 6
Author(s): Katarzyna Harężlak, Paweł Kasprowski
Software Mentions: 5
Published: over 7 years ago

10.1186/1471-2105-12-S15-S5

Data hosting infrastructure for primary biodiversity data
Cited by: 13
Author(s): Anthony Goddard, Nevin Wilson, Phil Cryer, Grant Yamashita
Software Mentions: 5
Published: over 14 years ago

10.3390/s20113328

Creating the Internet of Augmented Things: An Open-Source Framework to Make IoT Devices and Augmented and Mixed Reality Systems Talk to Each Other
Cited by: 31
Author(s): Óscar Blanco-Novoa, Paula Fraga‐Lamas, Miguel Vilar-Montesinos, Tiago M. Fernández‐Caramés
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pone.0220881

Comparison of catchment scale 3D and 2.5D modelling of soil organic carbon stocks in Jiangxi Province, PR China
Cited by: 17
Author(s): Tobias Rentschler, Philipp Gries, Thorsten Behrens, Helge Bruelheide, Peter Kühn, Steffen Seitz, Xuezheng Shi, Stefan Trogisch, Thomas Scholten, Karsten Schmidt
Software Mentions: 5
Published: almost 7 years ago

10.1038/s41396-020-00773-1

Benchmarking microbial growth rate predictions from metagenomes
Cited by: 45
Author(s): Andrew M. Long, Songjun Hou, J. Cesar Ignacio‐Espinoza, Jed A. Fuhrman
Software Mentions: 5
Published: almost 6 years ago

10.1038/s41598-019-42974-5

Modeling the potential range expansion of larger grain borer, Prostephanus truncatus (Coleoptera: Bostrichidae)
Cited by: 28
Author(s): Frank H. Arthur, William R. Morrison, Amy C. Morey
Software Mentions: 5
Published: about 7 years ago