10.3389/fgene.2020.00082

SECNVs: A Simulator of Copy Number Variants and Whole-Exome Sequences From Reference Genomes
Cited by: 6
Author(s): Yue Xing, Alan R. Dabney, Xiao Li, Guosong Wang, C. A. Gill, Claudio Casola
Software Mentions: 7
Published: over 6 years ago

10.1186/s40168-019-0677-7

Maize synthesized benzoxazinoids affect the host associated microbiome
Cited by: 160
Author(s): Enoch Narh Kudjordjie, Rumakanta Sapkota, Stine K. Steffensen, Inge S. Fomsgaard, Mogens Nicolaisen
Software Mentions: 7
Published: about 7 years ago

10.1186/s13000-021-01118-y

Identification of immune-infiltrating cell-related biomarkers in hepatocellular carcinoma based on gene co-expression network analysis
Cited by: 6
Author(s): Yinghui Hou, Guizhi Zhang
Software Mentions: 7
Published: almost 5 years ago

10.1038/s41598-019-46412-4

Host–symbiont combinations dictate the photo-physiological response of reef-building corals to thermal stress
Cited by: 62
Author(s): Kenneth D. Hoadley, Allison M. Lewis, Drew C. Wham, D. Tye Pettay, Chris Grasso, Robin T. Smith, Dustin W. Kemp, Todd C. LaJeunesse, Mark E. Warner
Software Mentions: 7
Published: almost 7 years ago

10.3390/microorganisms8020270

In Vitro Zika Virus Infection of Human Neural Progenitor Cells: Meta-Analysis of RNA-Seq Assays
Cited by: 15
Author(s): Rossella Gratton, Paola Maura Tricarico, Almerinda Agrelli, Heverton Valentim Colaço da Silva, Lucas Coêlho Bernardo, Sérgio Crovella, Antônio Victor Campos Coelho, Ronald Moura, Lucas André Cavalcanti Brandão
Software Mentions: 7
Published: over 6 years ago

10.3389/fonc.2020.553399

CD8+ T Cell Co-Expressed Genes Correlate With Clinical Phenotype and Microenvironments of Urothelial Cancer
Cited by: 20
Author(s): Yutao Wang, Kexin Yan, Jiaxing Lin, Yang Liu, Jianfeng Wang, Xuejie Li, Xinxin Li, Zhixiong Hua, Zhenhua Zheng, Jianxiu Shi, Siqing Sun, Jianbin Bi
Software Mentions: 7
Published: over 5 years ago

10.1186/s40462-019-0146-8

GPS tracking data reveals daily spatio-temporal movement patterns of waterfowl
Cited by: 30
Author(s): Fiona McDuie, Michael L. Casazza, Cory T. Overton, Mark P. Herzog, Courtney Hartman, Sarah H. Peterson, Cliff L. Feldheim, Joshua T. Ackerman
Software Mentions: 7
Published: over 7 years ago

10.1186/1471-2164-15-178

seqCNA: an R package for DNA copy number analysis in cancer using high-throughput sequencing
Cited by: 12
Author(s): David Mósen-Ansorena, Naiara Tellería, Silvia Veganzones, Virginia de la Orden, M.L. Maestro, Ana M. Aransay
Software Mentions: 7
Published: over 12 years ago

10.1098/rsif.2018.0084

Understanding the ontogeny of foraging behaviour: insights from combining marine predator bio-logging with satellite-derived oceanography in hidden Markov models
Cited by: 72
Author(s): W. James Grecian, Jude V. Lane, Théo Michelot, Helen M. Wade, Keith C. Hamer
Software Mentions: 7
Published: about 8 years ago

10.1186/s13045-017-0406-2

Analyses of caspase-1-regulated transcriptomes in various tissues lead to identification of novel IL-1β-, IL-18- and sirtuin-1-independent pathways
Cited by: 43
Author(s): Yafeng Li, Gayani Nanayakkara, Yu Sun, Xinyuan Li, Luqiao Wang, Ramón Cueto, Ying Shao, Hangfei Fu, Candice Johnson, Jiali Cheng, Xiongwen Chen, Wenhui Hu, Jun Yu, Eric T. Choi, Hong Wang, Xiaofeng Yang
Software Mentions: 7
Published: over 9 years ago

10.1038/s41598-020-75573-w

Development of a novel immune-related genes prognostic signature for osteosarcoma
Cited by: 17
Author(s): Zhi-Xi Wu, Yajun Deng, Guangzhi Zhang, Enhui Ren, Wenhua Yuan, Qiqi Xie
Software Mentions: 7
Published: over 5 years ago

10.1186/s13148-018-0510-3

Multifactorial analysis of the stochastic epigenetic variability in cord blood confirmed an impact of common behavioral and environmental factors but not of in vitro conception
Cited by: 25
Author(s): Davide Gentilini, Edgardo Somigliana, Luca Pagliardini, Elisa Rabellotti, Paolo Garagnani, Luisa Bernardinelli, Enrico Papaleo, Massimo Candiani, Anna Maria Di Blasio, Paola Viganò
Software Mentions: 7
Published: about 8 years ago

10.3390/genes12081179

Dysregulation of Synaptic Signaling Genes Is Involved in Biology of Uterine Leiomyoma
Cited by: 2
Author(s): Jovan Krsteski, Mario Gorenjak, Igor But, Maja Pakiž, Uroš Potočnik
Software Mentions: 7
Published: almost 5 years ago

10.1038/s41598-019-48214-0

Year-round individual specialization in the feeding ecology of a long-lived seabird
Cited by: 10
Author(s): Laura Zango, José Manuel Reyes‐González, Teresa Militão, Zuzana Zajková, Eduardo Álvarez-Alonso, Raül Ramos, Jacob González‐Solís
Software Mentions: 7
Published: almost 7 years ago

10.1371/journal.pone.0256038

Exogenous corticosterone and melanin-based coloration explain variation in juvenile dispersal behaviour in the barn owl (Tyto alba)
Cited by: 3
Author(s): Bettina Almasi, Carolina Massa, Lukas Jenni, Alexandre Roulin
Software Mentions: 7
Published: almost 5 years ago

10.1371/journal.pone.0137222

Discovery of Intermediary Genes between Pathways Using Sparse Regression
Cited by: 1
Author(s): Kuo-ching Liang, Ashwini Patil, Kenta Nakai
Software Mentions: 7
Published: almost 11 years ago

10.1038/s41598-019-42741-6

Disentangling host-parasite-pathogen interactions in a varroa-resistant honeybee population reveals virus tolerance as an independent, naturally adapted survival mechanism
Cited by: 33
Author(s): Srinivas Thaduri, Jörg G. Stephan, Joachim Rodrigues De Miranda, Barbara Locke
Software Mentions: 7
Published: about 7 years ago

10.1038/s41598-020-70173-0

Temperature-dependent life history and transcriptomic responses in heat-tolerant versus heat-sensitive Brachionus rotifers
Cited by: 17
Author(s): Sofia Paraskevopoulou, Alice B. Dennis, Guntram Weithoff, Ralph Tiedemann
Software Mentions: 7
Published: almost 6 years ago

10.3389/fmolb.2021.665222

Identification of the m6A RNA Methylation Regulators WTAP as a Novel Prognostic Biomarker and Genomic Alterations in Cutaneous Melanoma
Cited by: 12
Author(s): Ziyi Feng, Ting Wang, Xin Su, Shu Guo
Software Mentions: 7
Published: almost 5 years ago

10.1002/ece3.4402

Moose movement rates are altered by wolf presence in two ecosystems
Cited by: 18
Author(s): Mark A. Ditmer, John Fieberg, Ronald Moen, Steve K. Windels, Seth Stapleton, Tara R. Harris
Software Mentions: 7
Published: almost 8 years ago

10.3389/fmicb.2019.02359

Annual Protist Community Dynamics in a Freshwater Ecosystem Undergoing Contrasted Climatic Conditions: The Saint-Charles River (Canada)
Cited by: 21
Author(s): Perrine Cruaud, Adrien Vigneron, Marie‐Stéphanie Fradette, Caetano C. Dorea, Alexander I. Culley, Manuel J. Rodriguez, Steve J. Charette
Software Mentions: 7
Published: over 6 years ago

10.3389/fonc.2021.729340

Tumor Mutation Burden-Associated LINC00638/miR-4732-3p/ULBP1 Axis Promotes Immune Escape via PD-L1 in Hepatocellular Carcinoma
Cited by: 15
Author(s): Qi Feng, Xiaojing Du, Zhiying Zhao, Ding Zhang, Mengli Huang, Yuezong Bai, Biwei Yang, Wenxing Qin, Jinglin Xia
Software Mentions: 7
Published: almost 5 years ago

10.1038/s41598-019-43829-9

Tissue-specific genes as an underutilized resource in drug discovery
Cited by: 29
Author(s): Maria Ryaboshapkina, Mårten Hammar
Software Mentions: 7
Published: about 7 years ago

10.3389/fgene.2021.664424

Transcriptomes of an Array of Chicken Ovary, Intestinal, and Immune Cells and Tissues
Cited by: 5
Author(s): Eliah Overbey, Theros T Ng, Pietro Catini, Lisa Griggs, Paul A. Stewart, Suzana Tkalčić, R. David Hawkins, Yvonne Drechsler
Software Mentions: 7
Published: almost 5 years ago

10.3390/genes11040400

Combining Experimental Evolution and Genomics to Understand How Seed Beetles Adapt to a Marginal Host Plant
Cited by: 7
Author(s): Alexandre Rêgo, Samridhi Chaturvedi, Amy L. Springer, Alexandra M. Lish, Caroline L. Barton, Karen M. Kapheim, Frank J. Messina, Zachariah Gompert
Software Mentions: 7
Published: about 6 years ago

10.1002/ece3.5500

Diversity matters: Effects of density compensation in pollination service during rainfall shift
Cited by: 10
Author(s): Ronita Mukherjee, Rittik Deb, Soubadra Devy
Software Mentions: 7
Published: almost 7 years ago

10.3389/fgene.2019.00516

Microbial Networks in SPRING - Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data
Cited by: 67
Author(s): Grace Yoon, Irina Gaynanova, Christian L. Müller
Software Mentions: 7
Published: about 7 years ago

10.3389/fmicb.2019.02621

Influence of Various Processing Parameters on the Microbial Community Dynamics, Metabolomic Profiles, and Cup Quality During Wet Coffee Processing
Cited by: 31
Author(s): Sophia Jiyuan Zhang, Florac De Bruyn, Vasileios Pothakos, Gonzalo F Contreras, Z. Y. Cai, Cyril Moccand, Stefan Weckx, Luc De Vuyst
Software Mentions: 7
Published: over 6 years ago

10.1371/journal.pone.0223010

KETOS: Clinical decision support and machine learning as a service – A training and deployment platform based on Docker, OMOP-CDM, and FHIR Web Services
Cited by: 27
Author(s): Julian Gruendner, Thorsten Schwachhofer, Phillip Sippl, Nicolas Wolf, Marcel Erpenbeck, Christian Gülden, Lorenz A. Kapsner, Jakob Zierk, Sebastian Mate, Michael Stürzl, Roland S. Croner, Hans‐Ulrich Prokosch, Dennis Toddenroth
Software Mentions: 7
Published: over 6 years ago

10.1099/mgen.0.000445

Transcriptome-wide expression profiling of Sporothrix schenckii yeast and mycelial forms and the establishment of the Sporothrix Genome DataBase
Cited by: 12
Author(s): Domenico Giosa, Maria Rosa Felice, Letterio Giuffrè, Riccardo Aiese Cigliano, Andreu Paytuví-Gallart, Carla Lo Passo, Cinzia Barresi, Enrico D’Alessandro, Huaiqiu Huang, Giuseppe Criseo, Héctor M. Mora-Montes, Sybren de Hoog, Orazio Romeo
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.pone.0164230

Blood Plasma-Derived Anti-Glycan Antibodies to Sialylated and Sulfated Glycans Identify Ovarian Cancer Patients
Cited by: 17
Author(s): Tatiana Pochechueva, Alexander Chinarev, Andreas Schoetzau, André Fedier, Nicolai V. Bovin, Neville F. Hacker, Francis Jacob, Viola Heinzelmann‐Schwarz
Software Mentions: 7
Published: over 9 years ago

10.1371/journal.pone.0201016

Predicting hospital admission at emergency department triage using machine learning
Cited by: 155
Author(s): Woo Suk Hong, Adrian D. Haimovich, Richard A. Taylor
Software Mentions: 7
Published: almost 8 years ago

10.3389/fonc.2020.01591

An Ultrasound Radiomics Nomogram for Preoperative Prediction of Central Neck Lymph Node Metastasis in Papillary Thyroid Carcinoma
Cited by: 38
Author(s): Shichong Zhou, Tong‐Tong Liu, Jin Zhou, Yao Qi Huang, Yi Guo, Jinhua Yu, Yuan‐Yuan Wang, Cai Chang
Software Mentions: 7
Published: almost 6 years ago

10.1186/s12864-017-3662-1

Evolutionary acquisition of promoter-associated non-coding RNA (pancRNA) repertoires diversifies species-dependent gene activation mechanisms in mammals
Cited by: 18
Author(s): Masahiro Uesaka, Kiyokazu Agata, Takao Oishi, Kinichi Nakashima, Takuya Imamura
Software Mentions: 7
Published: about 9 years ago

10.1371/journal.pone.0237419

Development and validation of a model for individualized prediction of hospitalization risk in 4,536 patients with COVID-19
Cited by: 106
Author(s): Lara Jehi, Xinge Ji, Alex Milinovich, Serpil C. Erzurum, Amy Merlino, Steve Gordon, James B. Young, Michael W. Kattan
Software Mentions: 7
Published: almost 6 years ago

10.1155/2021/9918498

Integrated Analysis of Weighted Gene Coexpression Network Analysis Identifying Six Genes as Novel Biomarkers for Alzheimer’s Disease
Cited by: 15
Author(s): Tingting Zhang, Nanyang Liu, Wei Wei, Zhen Zhang, Hao Li
Software Mentions: 7
Published: almost 5 years ago

10.15252/msb.20188497

netDx: interpretable patient classification using integrated patient similarity networks
Cited by: 59
Author(s): Shraddha Pai, Shirley Hui, Ruth Isserlin, Manjool Shah, Hussam Kaka, Gary D. Bader
Software Mentions: 7
Published: over 7 years ago

10.3389/fonc.2019.00523

Comprehensive Gene Expression Analysis in NMIBC Using RNA-seq Reveals New Therapy Strategies
Cited by: 11
Author(s): Xiaoliang Chen, Fuquan Jiang, Jia Chen, Ming Liu, Yong-Hao Nan, Licheng Qu, Qingkuo Kong, Fangfang Hou, Wenshan Luo, Wanli Na, Xin Jin, Jiufeng Tan
Software Mentions: 7
Published: about 7 years ago

10.1007/s13304-020-00883-7

Factors predicting survival in patients with locally advanced pancreatic cancer undergoing pancreatectomy with arterial resection
Cited by: 11
Author(s): Niccolò Napoli, Emanuele Federico Kauffmann, Concetta Cacace, Francesca Menonna, Davide Caramella, Carla Cappelli, Daniela Campani, Andrea Cacciato Insilla, Enrico Vasile, Caterina Vivaldi, Lorenzo Fornaro, G Amorese, Fabio Vistoli, Ugo Boggi
Software Mentions: 7
Published: almost 6 years ago

10.1371/journal.pone.0215565

A robust data-driven genomic signature for idiopathic pulmonary fibrosis with applications for translational model selection
Cited by: 6
Author(s): Ron Ammar, Pitchumani Sivakumar, Gábor Járai, John Ryan Thompson
Software Mentions: 7
Published: about 7 years ago

10.3390/biomedicines9050454

mRNA Profiles of Porcine Parathyroid Glands Following Variable Phosphorus Supplies throughout Fetal and Postnatal Life
Cited by: 8
Author(s): Michael Oster, Henry Reyer, Christian Gerlinger, Nares Trakooljul, Puntita Siengdee, Jonas Keiler, Siriluck Ponsuksili, Petra Wolf, Klaus Wimmers
Software Mentions: 7
Published: about 5 years ago

10.1186/s12864-016-3300-3

Assessing characteristics of RNA amplification methods for single cell RNA sequencing
Cited by: 32
Author(s): Hannah Dueck, Rizi Ai, Adrian Camarena, Bo Ding, Reymundo Dominguez, Oleg V. Evgrafov, Jian–Bing Fan, Stephen Fisher, Jennifer Herstein, Tae Kyung Kim, Jae Mun Kim, Ming-Yi Lin, Rui Li, William J. Mack, Sean McGroty, Joseph Nguyen, Neeraj Salathia, Jamie Shallcross, Tade Souaiaia, Jennifer M. Spaethling, Christopher Walker, Jinhui Wang, Kai Wang, Wei Wang, André Wildberg, Lina Zheng, Robert H. Chow, James Eberwine, James A. Knowles, Kun Zhang, Junhyong Kim
Software Mentions: 7
Published: over 9 years ago

10.1371/journal.pone.0159138

Technical Advances of the Recombinant Antibody Microarray Technology Platform for Clinical Immunoproteomics
Cited by: 26
Author(s): Payam Delfani, Linda Dexlin Mellby, Malin Nordström, Andreas Holmér, Mattias Ohlsson, Carl Borrebaeck, Christer Wingren
Software Mentions: 7
Published: almost 10 years ago

10.1016/j.cell.2019.09.035

Transcriptional Basis of Mouse and Human Dendritic Cell Heterogeneity
Cited by: 322
Author(s): Chrysothemis C. Brown, Herman Gudjonson, Yuri Pritykin, Deeksha Deep, Vincent Philippe Lavallée, Alejandra Mendoza, Rachel M. Fromme, Linas Mažutis, Charlotte E. Ariyan, Christina Leslie, Dana Pe’er, Alexander Y. Rudensky
Software Mentions: 7
Published: over 6 years ago

10.3389/fnins.2021.600462

Dysregulation of MicroRNAs and PIWI-Interacting RNAs in a Caenorhabditis elegans Parkinson’s Disease Model Overexpressing Human α-Synuclein and Influence of tdp-1
Cited by: 10
Author(s): Linjing Shen, Changliang Wang, Liang Chen, Garry Wong
Software Mentions: 7
Published: over 5 years ago

10.1186/s12859-020-03652-w

SpectralTAD: an R package for defining a hierarchy of topologically associated domains using spectral clustering
Cited by: 22
Author(s): Kellen Garrison Cresswell, John C. Stansfield, Mikhail G. Dozmorov
Software Mentions: 7
Published: almost 6 years ago

10.1002/ece3.4905

Comparing RADseq and microsatellites for estimating genetic diversity and relatedness — Implications for brown trout conservation
Cited by: 111
Author(s): Alexandre Lemopoulos, Jenni M. Prokkola, Silva Uusi‐Heikkilä, Anti Vasemägi, Ari Huusko, Pekka Hyvärinen, Marja‐Liisa Koljonen, Jarmo Koskiniemi, Anssi Vainikka
Software Mentions: 7
Published: over 7 years ago

10.1186/s40462-020-00232-8

Patterns of foraging activity and fidelity in a southeast Asian flying fox
Cited by: 5
Author(s): Elodie Schloesing, René Chambón, Annelise Tran, Kinley Choden, Sébastien Ravon, Jonathan H. Epstein, Thavry Hoem, Neil M. Furey, Morgane Labadie, Mathieu Bourgarel, Hélène M. De Nys, Alexandre Caron, Julien Cappelle
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.pcbi.1008354

Dedicated transcriptomics combined with power analysis lead to functional understanding of genes with weak phenotypic changes in knockout lines
Cited by: 5
Author(s): Chen Xie, Cemalettin Bekpen, Sven Künzel, Maryam Keshavarz, Rebecca Krebs-Wheaton, Neva Škrabar, Kristian K. Ullrich, Wenyu Zhang, Diethard Tautz
Software Mentions: 7
Published: over 5 years ago

10.3389/fimmu.2020.01900

Biomarkers of the Response to Immune Checkpoint Inhibitors in Metastatic Urothelial Carcinoma
Cited by: 5
Author(s): Siteng Chen, Ning Zhang, Tao Wang, Encheng Zhang, Xiang Wang, Junhua Zheng
Software Mentions: 7
Published: almost 6 years ago

10.3389/fcell.2021.668810

Novel Molecular Subtypes and Related Score Based on Histone Acetylation Modification in Renal Clear Cell Carcinoma
Cited by: 3
Author(s): Qianqian Wang, Ting Xiang, Ling Yu, Junping Wen, Fang Liu, Dong Yang, Wei Wu, Ling Hu
Software Mentions: 7
Published: almost 5 years ago

10.3390/cells10092430

Artificial Intelligence-Assisted Identification of Genetic Factors Predisposing High-Risk Individuals to Asymptomatic Heart Failure
Cited by: 7
Author(s): Ning Yang, Chi-Hsiao Yeh, Tsung Hsien Tsai, Yi Ju Chou, Paul Wei Che Hsu, Chun-Hsien Li, Yun Hsuan Chan, Ling Kuo, Chun Tai Mao, Yu-Chiau Shyu, Ming‐Jui Hung, Chao‐Lun Lai, Huey Kang Sytwu, Ting Fen Tsai
Software Mentions: 7
Published: almost 5 years ago

10.1186/s13059-019-1868-z

MIA-Sig: multiplex chromatin interaction analysis by signal processing and statistical algorithms
Cited by: 9
Author(s): Minji Kim, Meizhen Zheng, Simon Zhongyuan Tian, Byoungkoo Lee, Jeffrey H. Chuang, Yijun Ruan
Software Mentions: 7
Published: over 6 years ago

10.1371/journal.pone.0232306

A new automated chilled adult release system for the aerial distribution of sterile male tsetse flies
Cited by: 4
Author(s): Caroline K. Mirieri, Gratian N. Mutika, Jimmy Bruno, Momar Talla Seck, Baba Sall, Andrew G. Parker, Monique M. van Oers, Marc J. B. Vreysen, Jérémy Bouyer, Adly M. M. Abd-Alla
Software Mentions: 7
Published: over 5 years ago

10.1186/s40168-021-01044-7

Characterization of the public transit air microbiome and resistome reveals geographical specificity
Cited by: 20
Author(s): Marcus H. Y. Leung, Xinzhao Tong, Kari Oline Bøifot, Daniela Bezdan, Daniel Butler, David Danko, Jostein Gohli, D. C. Green, Mark Hernandez, Frank J. Kelly, Shawn Levy, Gabriella Mason-Buck, Marina Nieto-Caballero, Denise Syndercombe‐Court, Klas I. Udekwu, Brian P. Young, Christopher E. Mason, Marius Dybwad, P. K. H. Lee
Software Mentions: 7
Published: about 5 years ago

10.3389/fmolb.2021.645845

A Novel Defined Risk Signature of the Ferroptosis-Related Genes for Predicting the Prognosis of Ovarian Cancer
Cited by: 23
Author(s): Ying Yang, Qinjin Dai, Shuhong Li, Jie He, Hongbo Qi
Software Mentions: 7
Published: about 5 years ago

10.3389/fonc.2021.626961

Identification of Stemness Characteristics Associated With the Immune Microenvironment and Prognosis in Gastric Cancer
Cited by: 15
Author(s): Deli Mao, Zhijun Zhou, Shenglei Song, Dongsheng Li, Yulong He, Zhewei Wei, Changhua Zhang
Software Mentions: 7
Published: over 5 years ago

10.3389/fmicb.2020.566619

Competitive Exclusion Prevents Colonization and Compartmentalization Reduces Transmission of ESBL-Producing Escherichia coli in Broilers
Cited by: 13
Author(s): Anita Dame-Korevaar, Jannigje G. Kers, Jeanet van der Goot, Francisca C. Velkers, Daniela Ceccarelli, Dik Mevius, Arjan Stegeman, E.A.J. Fischer
Software Mentions: 7
Published: over 5 years ago

10.1186/s12935-020-01382-w

Establishment and validation of a novel nomogram incorporating clinicopathological parameters into the TNM staging system to predict prognosis for stage II colorectal cancer
Cited by: 15
Author(s): Shaobo Mo, Zheng Zhou, Yaqi Li, Xiang Hu, Xiaolong Ma, Long Zhang, Sanjun Cai, Junjie Peng
Software Mentions: 7
Published: almost 6 years ago

10.1007/s11192-021-03962-7

Can tweets be used to detect problems early with scientific papers? A case study of three retracted COVID-19/SARS-CoV-2 papers
Cited by: 11
Author(s): Robin Haunschild, Lutz Bornmann
Software Mentions: 7
Published: about 5 years ago

10.3390/microorganisms8101592

Gut Microbiome in Children from Indigenous and Urban Communities in México: Different Subsistence Models, Different Microbiomes
Cited by: 12
Author(s): Andrés Sánchez-Quinto, Daniel Cerqueda‐García, Luisa I. Falcón, Osiris Gaona, Santiago Martínez-Correa, Javier Nieto, Isaac González‐Santoyo
Software Mentions: 7
Published: over 5 years ago

10.1186/s12870-021-03142-y

Maximizing genetic representation in seed collections from populations of self and cross-pollinated banana wild relatives
Cited by: 5
Author(s): Simon Kallow, Bart Panis, Dang Toan Vu, Tuong Dang Vu, J. Paofa, Arne Mertens, Rony Swennen, Steven Janssens
Software Mentions: 7
Published: almost 5 years ago

10.1186/s12870-016-0754-z

Genetic diversity, linkage disequilibrium and power of a large grapevine (Vitis vinifera L) diversity panel newly designed for association studies
Cited by: 72
Author(s): Stéphane Nicolas, Jean‐Pierre Péros, Thierry Lacombe, Amandine Launay, Marie‐Christine Le Paslier, Aurélie Berard, Brigitte Mangin, Sophie Valière, Frédéric Martins, Loïc Le Cunff, Valérie Laucou, Roberto Baciliéri, Alexis Dereeper, Philippe Chatelet, Patrice This, Agnès Doligez
Software Mentions: 7
Published: over 10 years ago

10.3389/fcell.2021.658642

HNRNPA2B1 Affects the Prognosis of Esophageal Cancer by Regulating the miR-17-92 Cluster
Cited by: 21
Author(s): Kexin Li, Jiongyu Chen, Xiaoying Lou, Yiling Li, Benheng Qian, Danfei Xu, Yue Wu, Shaohui Ma, Donghong Zhang, Wei Cui
Software Mentions: 7
Published: almost 5 years ago

10.1038/s41598-017-05377-y

Whole transcriptome sequencing of Pseudomonas syringae pv. actinidiae-infected kiwifruit plants reveals species-specific interaction between long non-coding RNA and coding genes
Cited by: 33
Author(s): Zupeng Wang, Yifei Liu, Li Li, Dawei Li, Qiong Zhang, Yangtao Guo, Shuaibin Wang, Caihong Zhong, Hongwen Huang
Software Mentions: 7
Published: almost 9 years ago

10.3390/microorganisms9040871

The Gut Microbiota Can Provide Viral Tolerance in the Honey Bee
Cited by: 36
Author(s): Christopher Dosch, Anja Manigk, Tabea Streicher, Anja Tehel, Robert J. Paxton, Simon Tragust
Software Mentions: 7
Published: about 5 years ago

10.3389/fonc.2020.608334

Nomogram for Predicting Lymph Node Involvement in Triple-Negative Breast Cancer
Cited by: 18
Author(s): Xiang Cui, Hongxia Zhu, Jiefu Huang
Software Mentions: 7
Published: over 5 years ago

10.1186/s12862-019-1510-4

Geographic isolation and climatic variability contribute to genetic differentiation in fragmented populations of the long-lived subalpine conifer Pinus cembra L. in the western Alps
Cited by: 26
Author(s): Endre György Tóth, Francine Tremblay, Johann M. Housset, Yves Bergeron, Christopher Carcaillet
Software Mentions: 7
Published: over 6 years ago

10.1002/advs.201901819

Whole‐Genome Promoter Profiling of Plasma DNA Exhibits Diagnostic Value for Placenta‐Origin Pregnancy Complications
Cited by: 25
Author(s): Zhi-Wei Guo, Fang Yang, Jun Zhang, Zhigang Zhang, Kun Li, Qi Tian, Hongyan Hou, Chenyang Xu, Qiping Lu, Zhonglu Ren, Xiaoxue Yang, Zenglu Lv, Ke Wang, Xinping Yang, Yanni Wu, Xiaobo Yang
Software Mentions: 7
Published: over 6 years ago

10.3389/fmed.2021.670694

Investigation of Coagulation Biomarkers to Assess Clinical Deterioration in SARS-CoV-2 Infection
Cited by: 15
Author(s): Paul Billoir, Kévin Alexandre, Thomas Duflot, Maxime Roger, S. Miranda, Odile Goria, Luc Marie Joly, Mathieu Demeyere, Guillaume Feugray, Valéry Brunel, Manuel Etienne, Véronique Le Cam Duchez
Software Mentions: 7
Published: about 5 years ago

10.1098/rspb.2017.0401

<i>Tetranychus urticae</i> mites do not mount an induced immune response against bacteria
Cited by: 17
Author(s): Gonçalo Santos-Matos, Nicky Wybouw, Nelson Martins, Flore Zélé, Maria Riga, Alexandre B. Leitão, John Vontas, Miodrag Grbić, Thomas Van Leeuwen, Sara Magalhães, Élio Sucena
Software Mentions: 7
Published: about 9 years ago

10.1371/journal.pone.0188966

AMModels: An R package for storing models, data, and metadata to facilitate adaptive management
Cited by: 2
Author(s): Therese M. Donovan, Jonathan E. Katz
Software Mentions: 7
Published: over 8 years ago

10.3389/fgene.2021.739470

Construction on of a Ferroptosis-Related lncRNA-Based Model to Improve the Prognostic Evaluation of Gastric Cancer Patients Based on Bioinformatics
Cited by: 19
Author(s): Jing Pan, Xinyue Zhang, Xuedong Fang, Zhuoyuan Xin
Software Mentions: 7
Published: almost 5 years ago

10.1002/ece3.7646

Many ways to make darker flies: Intra‐ and interspecific variation in <i>Drosophila</i> body pigmentation components
Cited by: 5
Author(s): Elvira Lafuente, Filipa Alves, Jessica G. King, Carolina M Peralta, Patrícia Beldade
Software Mentions: 7
Published: about 5 years ago

10.1002/ece3.4695

Temperature effects on prey and basal resources exceed that of predators in an experimental community
Cited by: 12
Author(s): Madhav P. Thakur, John N. Griffin, Tom Künne, Susanne Dunker, Andrea Fanesi, Nico Eisenhauer
Software Mentions: 7
Published: over 7 years ago

10.3389/fonc.2020.636549

Construction and Validation of Nomograms Predicting Survival in Triple-Negative Breast Cancer Patients of Childbearing Age
Cited by: 1
Author(s): Xiang Cui, Deba Song, Xiaoxu Li
Software Mentions: 7
Published: over 5 years ago

10.1186/s12859-020-03945-0

mixIndependR: a R package for statistical independence testing of loci in database of multi-locus genotypes
Cited by: 1
Author(s): Bing Song, August E. Woerner, John V. Planz
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.pone.0218789

Jscatter, a program for evaluation and analysis of experimental data
Cited by: 23
Author(s): Ralf Biehl
Software Mentions: 7
Published: about 7 years ago

10.1186/s12967-017-1174-z

24h-gene variation effect of combined bevacizumab/erlotinib in advanced non-squamous non-small cell lung cancer using exon array blood profiling
Cited by: 9
Author(s): Florent Baty, Markus Joerger, Martin Früh, Dirk Klingbiel, Francesco Zappa, Martin Brutsche
Software Mentions: 7
Published: about 9 years ago

10.1534/g3.119.0011

Chromosome-Wide Evolution and Sex Determination in the Three-Sexed Nematode <i>Auanema rhodensis</i>
Cited by: 31
Author(s): Sophie Tandonnet, Georgios Koutsovoulos, Sally Adams, Delphine Cloarec, Manish Parihar, Mark Blaxter, André Pires-daSilva
Software Mentions: 7
Published: about 7 years ago

10.3390/diagnostics11030558

Characteristic Features of Infrared Thermographic Imaging in Primary Raynaud’s Phenomenon
Cited by: 3
Author(s): Lotte Lindberg, Bent Bruun Kristensen, Jane Frølund Thomsen, Ebbe Eldrup, Lars Thorbjørn Jensen
Software Mentions: 7
Published: over 5 years ago

10.1186/s12885-021-08462-8

Construction and comprehensive analysis of a ceRNA network to reveal potential prognostic biomarkers for lung adenocarcinoma
Cited by: 12
Author(s): Lei Gao, Ling Zhang
Software Mentions: 7
Published: almost 5 years ago

10.1186/s13059-019-1862-5

scPred: accurate supervised method for cell-type classification from single-cell RNA-seq data
Cited by: 225
Author(s): José Alquicira-Hernández, Anuja Sathe, Hanlee P. Ji, Quan Nguyen, Joseph E. Powell
Software Mentions: 7
Published: over 6 years ago

10.1371/journal.pone.0239864

Hybrid algorithms for generating optimal designs for discriminating multiple nonlinear models under various error distributional assumptions
Cited by: 6
Author(s): Chih-Chia Chen, Ping Yang Chen, Cheng Lin Hsu, Weng Kee Wong
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.pone.0187548

Multimodel inference applied to oxygen recovery kinetics after 6-min walk tests in patients with chronic obstructive pulmonary disease
Cited by: 2
Author(s): Florent Baty, Christian Ritz, Signe Marie Jensen, Lukas Kern, Michael Tamm, Martin Brutsche
Software Mentions: 7
Published: over 8 years ago

10.3389/fgene.2021.702695

Identification and Elucidation of the Protective isomiRs in Lung Cancer Patient Prognosis
Cited by: 1
Author(s): Fu-Mei Hsieh, Su-Ting Lai, Ming-Fong Wu, Chen-Ching Lin
Software Mentions: 7
Published: almost 5 years ago

10.1002/ece3.5622

Consequences of marine barriers for genetic diversity of the coral‐specialist yellowbar angelfish from the Northwestern Indian Ocean
Cited by: 17
Author(s): Felipe Torquato, Pedro Range, Radhouane Ben‐Hamadou, Eva Egelyng Sigsgaard, Philip Francis Thomsen, Rodrigo Riera, Michael L. Berumen, John A. Burt, David A. Feary, Alyssa Marshell, Daniele D’Agostino, Joseph D. DiBattista, Peter Rask Møller
Software Mentions: 7
Published: almost 7 years ago

10.3389/fonc.2021.660242

Identification and Validation of a Five-Gene Signature Associated With Overall Survival in Breast Cancer Patients
Cited by: 6
Author(s): Xiaolong Wang, Chen Li, Tong Chen, Wenhao Li, Hanwen Zhang, Dong Zhang, Ying Liu, Dianwen Han, Yaming Li, Zheng Li, Dan Luo, Ning Zhang, Qifeng Yang
Software Mentions: 7
Published: almost 5 years ago

10.1093/conphys/coz002

Artificial light at night disturbs the activity and energy allocation of the common toad during the breeding period
Cited by: 28
Author(s): Morgane Touzot, Loïc Teulier, Thierry Lengagne, Jean Secondi, Marc Théry, Paul-Antoine Libourel, Ludovic Guillard, Nathalie Mondy
Software Mentions: 7
Published: over 7 years ago

10.1371/journal.pntd.0006035

Drivers of house invasion by sylvatic Chagas disease vectors in the Amazon-Cerrado transition: A multi-year, state-wide assessment of municipality-aggregated surveillance data
Cited by: 34
Author(s): Raíssa N. Brito, David Eladio Gorla, Liléia Diotaiuti, Anália Celencina Fagundes Gomes, Rita C. M. Souza, Fernando Abad‐Franch
Software Mentions: 7
Published: over 8 years ago

10.1371/journal.pone.0226949

A new, fast method to search for morphological convergence with shape data
Cited by: 32
Author(s): Silvia Castiglione, Carmela Serio, Davide Tamagnini, Marina Melchionna, Alessandro Mondanaro, Mirko Di Febbraro, Antonio Profico, Paolo Piras, Filippo Barattolo, Pasquale Raia
Software Mentions: 7
Published: over 6 years ago

10.1186/1751-0473-7-13

MALINA: a web service for visual analytics of human gut microbiota whole-genome metagenomic reads
Cited by: 4
Author(s): Alexander Tyakht, Anna Popenko, Maxim S. Belenikin, Ilya Altukhov, Alexander V. Pavlenko, Elena S. Kostryukova, Oksana V. Selezneva, Andrei K. Larin, Irina Y. Karpova, Dmitry Alexeev
Software Mentions: 7
Published: over 13 years ago

10.3758/s13415-019-00726-y

Causal underpinnings of working memory and Stroop interference control: Testing the effects of anodal and cathodal tDCS over the left DLPFC
Cited by: 21
Author(s): Anna Baumert, Nita Buchholz, Axel Zinkernagel, Patrick Clarke, Colin MacLeod, Roman Osinsky, Manfred Schmitt
Software Mentions: 7
Published: about 7 years ago

10.1038/s41598-021-96967-4

Parasites and diet as main drivers of the Malagasy gut microbiome richness and function
Cited by: 3
Author(s): Stanislas Mondot, Philippe Poirier, Ahmed Abou-Bacar, Valentin Greigert, Julie Brunet, Céline Nourrisson, Milijaona Randrianarivelojosia, Jean-Louis Razafindrakoto, Eugène Morel, Rivo Rakotomalala, Marion Leclerc, Karine Le Roux, Céline Monot, Patricia Lepage, Ermanno Candolfi
Software Mentions: 7
Published: almost 5 years ago

10.1186/s12935-019-1028-2

Expression profile analysis identifies IER3 to predict overall survival and promote lymph node metastasis in tongue cancer
Cited by: 10
Author(s): Fang Xiao, Yinhua Dai, Yujiao Hu, Mengmeng Lu, Qun Dai
Software Mentions: 7
Published: over 6 years ago

10.1186/s12935-021-02154-w

Study of cellular heterogeneity and differential dynamics of autophagy in human embryonic kidney development by single-cell RNA sequencing
Cited by: 2
Author(s): Wenjin Chen, Xiuwu Pan, Jian Chu, Da Xu, Jia-Xin Chen, Weijie Chen, Linhui Wang, Xingang Cui
Software Mentions: 7
Published: almost 5 years ago

10.1097/j.pain.0000000000001416

Comprehensive analysis of long noncoding RNA expression in dorsal root ganglion reveals cell-type specificity and dysregulation after nerve injury
Cited by: 41
Author(s): Georgios Baskozos, J. D. K. Dawes, Jean-Sébastien Austin, Ana Antunes-Martins, Lucy A. McDermott, Alex Clark, Teodora Trendafilova, Jon Lees, Stephen B. McMahon, Jeffrey S. Mogil, Christine Orengo, David L.H. Bennett
Software Mentions: 7
Published: over 7 years ago

10.3389/fgene.2020.590660

Identification of Key Genes and Potential New Biomarkers for Ovarian Aging: A Study Based on RNA-Sequencing Data
Cited by: 14
Author(s): Lingwei Ma, Huan Lu, Runhua Chen, Meng Wu, Yan Jin, Jinjin Zhang, Shixuan Wang
Software Mentions: 7
Published: over 5 years ago

10.3389/fcell.2021.648279

Prognostic Value of a Novel Signature With Nine Hepatitis C Virus-Induced Genes in Hepatic Cancer by Mining GEO and TCGA Databases
Cited by: 5
Author(s): Jianming Wei, Bo Wang, Xibo Gao, Daqing Sun
Software Mentions: 7
Published: almost 5 years ago

10.1371/journal.pcbi.1003706

Metagenomic Data Utilization and Analysis (MEDUSA) and Construction of a Global Gut Microbial Gene Catalogue
Cited by: 54
Author(s): Fredrik Karlsson, Intawat Nookaew, Jens Nielsen
Software Mentions: 7
Published: almost 12 years ago