10.1038/s41598-021-82951-5
Machine intelligence identifies soluble TNFa as a therapeutic target for spinal cord injuryCited by: 10
Author(s): J. Russell Huie, Adam R. Ferguson, Nikos Kyritsis, Jonathan Z. Pan, Karen Irvine, Jessica L. Nielson, Patrick G. Schupp, Michael C. Oldham, John C. Gensel, Amity Lin, Mark R. Segal, Rajiv R. Ratan, Jacqueline C. Bresnahan, Michael S. Beattie
Software Mentions: 5
Published: over 5 years ago
10.3390/cancers12010037
Molecular Signature of Subtypes of Non-Small-Cell Lung Cancer by Large-Scale Transcriptional Profiling: Identification of Key Modules and Genes by Weighted Gene Co-Expression Network Analysis (WGCNA)Cited by: 158
Author(s): Magdalena Niemira, François Collin, Anna Szałkowska, Agnieszka Bielska, Karolina Chwiałkowska, Joanna Reszeć, Jacek Nikliński, Mirosław Kwaśniewski, Adam Krętowski
Software Mentions: 5
Published: over 6 years ago
10.1074/mcp.TIR119.001646
DEqMS: A Method for Accurate Variance Estimation in Differential Protein Expression AnalysisCited by: 109
Author(s): Yong Zhu, Lukas M. Orre, Yan Zhou Tran, Georgios Mermelekas, Henrik J. Johansson, Alina Malyutina, Simon Anders, Janne Lehtiö
Software Mentions: 5
Published: about 6 years ago
10.1155/2021/5588429
Crosstalk between RNA-Binding Proteins and Immune Microenvironment Revealed Two RBP Regulatory Patterns with Distinct Immunophenotypes in PeriodontitisCited by: 0
Author(s): Xing Lü, Guanqun Meng, Tian Chen, Xiaoqi Zhang, Ding Bai, Hui Xu
Software Mentions: 5
Published: about 5 years ago
10.1007/s00180-021-01102-6
Direct statistical inference for finite Markov jump processes via the matrix exponentialCited by: 5
Author(s): Chris Sherlock
Software Mentions: 5
Published: about 5 years ago
10.1038/s41385-020-0305-7
γδ T cells compose a developmentally regulated intrauterine population and protect against vaginal candidiasisCited by: 32
Author(s): Leticia Monin, Dmitry S. Ushakov, Henriette Arnesen, Nourdine Bah, Anett Jandke, Miguel Muñoz-Ruiz, Joana Carvalho, Susan Joseph, Bruna Almeida, M. J. Green, Emma Nye, Shoji Hatano, Yasunobu Yoshikai, Michael Curtis, Harald Carlsen, Ulrich Steinhoff, Preben Boysen, Adrian Hayday
Software Mentions: 5
Published: over 5 years ago
10.3390/vaccines8030438
Distinct miRNA Profile of Cellular and Extracellular Vesicles Released from Chicken Tracheal Cells Following Avian Influenza Virus InfectionCited by: 4
Author(s): Kelsey O’Dowd, Mehdi Emam, Mohamed Reda El Khili, Amin Emad, Eveline M. Ibeagha‐Awemu, Carl A. Gagnon, Neda Barjesteh
Software Mentions: 5
Published: almost 6 years ago
10.1038/s41598-020-64700-2
Genome-wide 5-hydroxymethylcytosine (5hmC) emerges at early stage of in vitro differentiation of a putative hepatocyte progenitorCited by: 16
Author(s): Jesús Rafael Rodríguez‐Aguilera, Szilvia Ecsedi, Chloe D. Goldsmith, Marie-Pierre Cros, Mariana Domínguez‐López, Nuria Guerrero‐Celis, Rebeca Pérez‐Cabeza de Vaca, Isabelle Chemin, Félix Recillas‐Targa, Victoria Chagoya de Sánchez, Héctor Hernández-Vargas
Software Mentions: 5
Published: about 6 years ago
10.1371/journal.pone.0240943
Three-gene prognostic biomarkers for seminoma identified by weighted gene co-expression network analysisCited by: 2
Author(s): Hualin Chen, Gang Chen, Yang Pan, Xiaoxiang Jin
Software Mentions: 5
Published: over 5 years ago
10.7150/ijms.39056
Identification of gene expression profiles and immune cell infiltration signatures between low and high tumor mutation burden groups in bladder cancerCited by: 33
Author(s): Zonglong Wu, Mu-Ru Wang, Qinggang Liu, Yaxiao Liu, Ke-Cheng Zhu, Lipeng Chen, Hongda Guo, Yan Li, Benkang Shi
Software Mentions: 5
Published: over 6 years ago
10.3390/life11060588
Impact TMPRSS2–ERG Molecular Subtype on Prostate Cancer RecurrenceCited by: 7
Author(s): Anastasiya A. Kobelyatskaya, Elena A. Pudova, Anastasiya V. Snezhkina, Maria Fedorova, Vladislav Pavlov, Zulfiya G. Guvatova, М. В. Савватеева, Nataliya V. Melnikova, Alexey A. Dmitriev, Trofimov D.Yu. Trofimov, Г. Т. Сухих, K. M. Nyushko, B. Ya. Alekseev, Sergey V. Razin, George S. Krasnov, Anna V. Kudryavtseva
Software Mentions: 5
Published: about 5 years ago
10.1186/s40594-017-0080-5
The test of basic Mechanics Conceptual Understanding (bMCU): using Rasch analysis to develop and evaluate an efficient multiple choice test on Newton’s mechanicsCited by: 14
Author(s): Sarah Hofer, Ralph Schumacher, Herbert J. Rubin
Software Mentions: 5
Published: almost 9 years ago
10.1186/s40170-020-00216-7
Fine-tuning the metabolic rewiring and adaptation of translational machinery during an epithelial-mesenchymal transition in breast cancer cellsCited by: 3
Author(s): Tamara Fernández-Calero, Marcos Davyt, Karen Perelmuter, Cora Chalar, Giovana Bavia Bampi, Helena Persson, Juan Pablo Tosar, Völundur Hafstað, Hugo Naya, Carlos Rovira, Mariela Bollati-Fogolín, Ricardo Ehrlich, Gilles Flouriot, Zoya Ignatova, Mónica Marı́n
Software Mentions: 5
Published: almost 6 years ago
10.1371/journal.pgen.1007631
Spatially varying cis-regulatory divergence in Drosophila embryos elucidates cis-regulatory logicCited by: 16
Author(s): Peter A. Combs, Hunter B. Fraser
Software Mentions: 5
Published: over 7 years ago
10.7150/ijbs.45050
A Novel Ferroptosis-related Gene Signature for Overall Survival Prediction in Patients with Hepatocellular CarcinomaCited by: 342
Author(s): Jie Liang, De-Shen Wang, Haocheng Lin, Xiuxing Chen, Hui Yang, Yun Zheng, Yuhong Li
Software Mentions: 5
Published: over 6 years ago
10.1534/g3.119.400378
Linkage Analysis and Haplotype Phasing in Experimental Autopolyploid Populations with High Ploidy Level Using Hidden Markov ModelsCited by: 54
Author(s): Marcelo Mollinari, Antônio Augusto Franco Garcia
Software Mentions: 5
Published: almost 7 years ago
10.1038/s41398-019-0384-y
Analysis of whole genome-transcriptomic organization in brain to identify genes associated with alcoholismCited by: 63
Author(s): Manav Kapoor, Jen Chyong Wang, Sean P. Farris, Yunlong Liu, Jeanette N. McClintick, Ishaan Gupta, Jacquelyn L. Meyers, Sarah Bertelsen, Michael J. Chao, John I. Nürnberger, Jay A. Tischfield, Oscar Harari, Zeran Li, Victor Hesselbrock, Lance O. Bauer, Towfique Raj, Bernice Porjesz, Arpana Agrawal, Tatiana Foroud, Howard J. Edenberg, R. Dayne Mayfield, Alison Goate
Software Mentions: 5
Published: over 7 years ago
10.3390/cancers11030280
Observed Survival Interval: A Supplement to TCGA Pan-Cancer Clinical Data ResourceCited by: 21
Author(s): Jie Xiong, Zhitong Bing, Shengyu Guo
Software Mentions: 5
Published: over 7 years ago
10.1155/2019/4767354
GAAP: A Genome Assembly + Annotation PipelineCited by: 5
Author(s): Jinhwa Kong, Sun Huh, Jung-Im Won, Jeehee Yoon, Baeksop Kim, Ki-Yong Kim
Software Mentions: 5
Published: about 7 years ago
10.3390/biom11010040
From Prevention to Disease Perturbations: A Multi-Omic Assessment of Exercise and Myocardial InfarctionsCited by: 6
Author(s): Melanie T. Odenkirk, Kelly G. Stratton, Lisa Bramer, Bobbie‐Jo Webb‐Robertson, Kent Bloodsworth, Matthew E. Monroe, Kristin Burnum-Johnson, Erin Baker
Software Mentions: 5
Published: over 5 years ago
10.1186/s12911-020-01271-2
Using machine learning methods to predict in-hospital mortality of sepsis patients in the ICUCited by: 64
Author(s): Guilan Kong, Ke Lin, Yonghua Hu
Software Mentions: 5
Published: almost 6 years ago
10.1186/1471-2288-14-99
Detection of independent associations in a large epidemiologic dataset: a comparison of random forests, boosted regression trees, conventional and penalized logistic regression for identifying independent factors associated with H1N1pdm influenza infectionsCited by: 33
Author(s): Yohann Mansiaux, Fabrice Carrat
Software Mentions: 5
Published: almost 12 years ago
10.1186/s12887-020-02411-3
Utility of medical record diagnostic codes to ascertain attention-deficit/hyperactivity disorder and learning disabilities in populations of childrenCited by: 6
Author(s): Yu Shi, Phillip J. Schulte, Andrew C. Hanson, Michael J. Zaccariello, Dayu Hu, Sheri Crow, Randall P. Flick, David O. Warner
Software Mentions: 5
Published: over 5 years ago
10.1038/s41392-020-00457-4
Longitudinal transcriptome analyses show robust T cell immunity during recovery from COVID-19Cited by: 55
Author(s): Hong Zheng, Min Xu, Cui Xian Yang, Ren Rong Tian, Mi Zhang, Jian Jian Li, Xi Cheng Wang, Zhao Ding, Gui Mei Li, Xiaolu Li, Yu He, Xing-qi Dong, Yong Yao, Yong Zheng
Software Mentions: 5
Published: over 5 years ago
10.1016/j.cell.2021.03.062
Splice site m6A methylation prevents binding of U2AF35 to inhibit RNA splicingCited by: 88
Author(s): Mateusz Mendel, Kamila Delaney, Radha Raman Pandey, Kuan-Ming Chen, Joanna M. Wenda, Cathrine Broberg Vågbø, Florian Steiner, David Homolka, Ramesh S. Pillai
Software Mentions: 5
Published: about 5 years ago
10.1002/bimj.201100251
Regression trees for predicting mortality in patients with cardiovascular disease: What improvement is achieved by using ensemble‐based methods?Cited by: 58
Author(s): Peter C. Austin, Douglas S. Lee, Ewout W. Steyerberg, Jack V. Tu
Software Mentions: 5
Published: about 14 years ago
10.1002/cam4.4206
Key sunitinib‐related biomarkers for renal cell carcinomaCited by: 9
Author(s): Yun Peng, Shiqiang Dong, Yuxuan Song, Dingkun Hou, Lili Wang, Bowen Li, Haitao Wang
Software Mentions: 5
Published: almost 5 years ago
10.1016/j.cell.2018.09.043
Identification, Characterization, and Heritability of Murine Metastable Epialleles: Implications for Non-genetic InheritanceCited by: 111
Author(s): Anastasiya Kazachenka, Tessa M. Bertozzi, Marcela K. Sjoberg-Herrera, N Walker, Joseph Gardner, Richard Gunning, Eleni Pahita, Sarah Adams, David J. Adams, Anne C. Ferguson-Smith
Software Mentions: 5
Published: over 7 years ago
10.1177/1176935118771082
Decomposing the Apoptosis Pathway Into Biologically Interpretable Principal ComponentsCited by: 18
Author(s): Min Wang, Steven M. Kornblau, Kevin R. Coombes
Software Mentions: 5
Published: over 8 years ago
10.1001/jamanetworkopen.2020.23774
Assessment of Neighborhood Poverty, Cognitive Function, and Prefrontal and Hippocampal Volumes in ChildrenCited by: 89
Author(s): Rita L. Taylor, Shelly R. Cooper, Joshua J. Jackson, M Deanna
Software Mentions: 5
Published: over 5 years ago
10.1002/cam4.3526
Construction of a disease‐specific lncRNA‐miRNA‐mRNA regulatory network reveals potential regulatory axes and prognostic biomarkers for hepatocellular carcinomaCited by: 12
Author(s): Qi Zhang, Lin Sun, Qiuju Zhang, Wei Zhang, Wei Tian, Meina Liu, Yupeng Wang
Software Mentions: 5
Published: over 5 years ago
10.1093/gbe/evz280
Differential Expression in Testis and Liver Transcriptomes from Four Species of Peromyscus (Rodentia: Cricetidae)Cited by: 2
Author(s): Laramie L. Lindsey, Roy N. Platt, C. Douglas Phillips, David A. Ray, Robert D. Bradley
Software Mentions: 5
Published: over 6 years ago
10.1186/s13059-021-02417-9
Elevated retrotransposon activity and genomic instability in primed pluripotent stem cellsCited by: 10
Author(s): Haifeng Fu, Weiyu Zhang, Niannian Li, Jiao Yang, Xiaoying Ye, Chenglei Tian, Xinyi Lu, Lin Liu
Software Mentions: 5
Published: about 5 years ago
10.1186/s10020-021-00345-9
Association of CASC18/miR-20a-3p/TGFB2 ceRNA axis with occult lymph node metastasis in tongue squamous cell carcinomaCited by: 5
Author(s): Bo Zhou, Yue Zhou, Ying Liu, Hailin Zhang, Huangxing Mao, Mingjing Peng, Anji Xu, Zan Li, Hui Wang, Haolei Tan, Huayi Ren, Xiao Yan Zhou, Ying Long
Software Mentions: 5
Published: almost 5 years ago
10.3390/insects12040298
Effectiveness of Push–Pull Systems to Fall Armyworm (Spodoptera frugiperda) Management in Maize Crops in Morelos, MexicoCited by: 4
Author(s): Ouorou Ganni Mariel Guera, Federico Castrejón-Ayala, Norma Robledo, Alfredo Jiménez‐Pérez, Georgina Sánchez-Rivera, Lilia Salazar-Marcial, Hilda Elizabet Flores Moctezuma
Software Mentions: 5
Published: over 5 years ago
10.1128/mSystems.00130-17
Colonic Butyrate-Producing Communities in Humans: an Overview Using Omics DataCited by: 284
Author(s): Marius Vital, André Karch, Dietmar H. Pieper
Software Mentions: 5
Published: over 8 years ago
10.3390/brainsci10050275
Transcriptome Analysis of Alcohol Drinking in Non-Dependent and Dependent Mice Following Repeated Cycles of Forced Swim Stress ExposureCited by: 10
Author(s): Sean P. Farris, Gayatri R. Tiwari, Olga N. Ponomareva, Marcelo F. López, R. Dayne Mayfield, Howard C. Becker
Software Mentions: 5
Published: about 6 years ago
10.1371/journal.ppat.1006699
The yeast form of the fungus Candida albicans promotes persistence in the gut of gnotobiotic miceCited by: 70
Author(s): Lena Böhm, Sanda Torsin, Su Hlaing Tint, Marie Therese Eckstein, Tobias Ludwig, J. Christian Pérez
Software Mentions: 5
Published: over 8 years ago
10.3390/jof7070562
mRNA Inventory of Extracellular Vesicles from Ustilago maydisCited by: 21
Author(s): Seomun Kwon, Oliver Rupp, Andreas Brachmann, Christopher Blum, Anton Kraege, Alexander Goesmann, Michael Feldbrügge
Software Mentions: 5
Published: about 5 years ago
10.1002/glia.23615
Genetic control of cellular morphogenesis in Müller gliaCited by: 18
Author(s): Mark Charlton‐Perkins, Alexandra D. Almeida, R. Macdonald, William A. Harris
Software Mentions: 5
Published: over 7 years ago
10.1371/journal.pone.0245824
MultipleTesting.com: A tool for life science researchers for multiple hypothesis testing correctionCited by: 51
Author(s): Otília Menyhárt, Boglárka Weltz, Balázs Győrffy
Software Mentions: 5
Published: about 5 years ago
10.3390/genes11080868
Identification of circRNA-lncRNA-miRNA-mRNA Competitive Endogenous RNA Network as Novel Prognostic Markers for Acute Myeloid LeukemiaCited by: 52
Author(s): Yuanrong Cheng, Yangfeng Su, Shoubi Wang, Yurun Liu, Lin Jin, Qi Wan, Ying Liu, Chaoyang Li, Xuan Sang, Yang Liu, Chang Liu, Zhichong Wang
Software Mentions: 5
Published: almost 6 years ago
10.1371/journal.pone.0104947
Voxel-Wise Motion Artifacts in Population-Level Whole-Brain Connectivity Analysis of Resting-State fMRICited by: 22
Author(s): Tamás Spisák, András Jakab, Sándor Attila Kis, Gábor Opposits, Csaba Aranyi, Ervin Berényi, Miklós Emri
Software Mentions: 5
Published: almost 12 years ago
10.1371/journal.pntd.0008671
Novel small RNAs expressed by Bartonella bacilliformis under multiple conditions reveal potential mechanisms for persistence in the sand fly vector and human hostCited by: 6
Author(s): Shaun Wachter, Linda D. Hicks, Rahul Raghavan, Michael F. Minnick
Software Mentions: 5
Published: over 5 years ago
10.15252/msb.20145776
A high‐throughput <scp>C</scp> h <scp>IP</scp> ‐ <scp>S</scp> eq for large‐scale chromatin studiesCited by: 28
Author(s): Christophe D. Chabbert, Sophie H. Adjalley, Bernd Klaus, E. Fritsch, Ishaan Gupta, Vicent Pelechano, Lars M. Steinmetz
Software Mentions: 5
Published: over 11 years ago
10.1371/journal.pone.0234505
Comparative genomics of high grade neuroendocrine carcinoma of the cervixCited by: 21
Author(s): R. Tyler Hillman, Robert J. Cardnell, Junya Fujimoto, Won Chul Lee, Jianjun Zhang, Lauren A. Byers, Preetha Ramalingam, Mario M. Leitao, Elizabeth M. Swisher, P. Andrew Futreal, Michael Frumovitz
Software Mentions: 5
Published: about 6 years ago
10.1371/journal.pone.0135350
Conservation Status of North American Birds in the Face of Future Climate ChangeCited by: 90
Author(s): Gary Langham, Justin G. Schuetz, Trisha Distler, Candan U. Soykan, Chad B. Wilsey
Software Mentions: 5
Published: almost 11 years ago
10.3389/fmicb.2020.572504
Microbiomic Analysis on Low Abundant Respiratory Biomass Samples; Improved Recovery of Microbial DNA From Bronchoalveolar Lavage FluidCited by: 13
Author(s): Montserrat Saladié, José A. Caparrós-Martín, Ana Patrícia, Peter Wark, Stephen M. Stick, Fergal O’Gara
Software Mentions: 5
Published: almost 6 years ago
10.1186/s12885-021-08115-w
Identification of PIK3CA multigene mutation patterns associated with superior prognosis in stomach cancerCited by: 5
Author(s): Yu Yu, Zhouqing Xie, Mingxin Zhao, Xiaohua Lian
Software Mentions: 5
Published: over 5 years ago
10.1007/s00122-021-03828-9
Genome-wide association mapping of sodium and potassium concentration in rice grains and shoots under alternate wetting and drying and continuously flooded irrigationCited by: 6
Author(s): Caijin Chen, Anthony J. Travis, Mahmud Hossain, Rafiqul Islam, Adam H. Price, Gareth J. Norton
Software Mentions: 5
Published: about 5 years ago
10.3390/genes10030212
RNA Sequencing Reveals Specific Transcriptomic Signatures Distinguishing Effects of the [SWI+] Prion and SWI1 Deletion in Yeast Saccharomyces cerevisiaeCited by: 11
Author(s): Yury V. Malovichko, Kirill S. Antonets, Anna R. Maslova, Е. А. Андреева, Sergey G. Inge-Vechtomov, Anton A. Nizhnikov
Software Mentions: 5
Published: over 7 years ago
10.7717/peerj.12067
The spleen bacteriome of wild rodents and shrews from Marigat, Baringo County, KenyaCited by: 2
Author(s): Rehema Liyai, Kimita Gathii, Clement Masakhwe, David Abuom, Beth Mutai, David Miruka Onyango, John N. Waitumbi
Software Mentions: 5
Published: almost 5 years ago
10.1016/j.celrep.2020.107843
Alzheimer’s Patient Microglia Exhibit Enhanced Aging and Unique Transcriptional ActivationCited by: 194
Author(s): Karpagam Srinivasan, Brad A. Friedman, Ainhoa Etxeberría, Melanie A. Huntley, Marcel P. van der Brug, Oded Foreman, Jonathan S. Paw, Zora Modrušan, Thomas G. Beach, Geidy E. Serrano, David V. Hansen
Software Mentions: 5
Published: about 6 years ago
10.1016/j.celrep.2018.10.072
Heart Regeneration in the Mexican CavefishCited by: 78
Author(s): William T. Stockdale, Madeleine E. Lemieux, Abigail C. Killen, Juanjuan Zhao, Zhilian Hu, Joey Riepsaame, Noémie Hamilton, Tetsuhiro Kudoh, Paul R. Riley, Ronny van Aerle, Yoshiyuki Yamamoto, Mathilda T.M. Mommersteeg
Software Mentions: 5
Published: over 7 years ago
10.3389/fmicb.2019.01961
Sponges and Their Microbiomes Show Similar Community Metrics Across Impacted and Well-Preserved ReefsCited by: 19
Author(s): Marta Turon, Joan Cáliz, Xavier Triadó–Margarit, Emilio O. Casamayor, María Jesús Uriz
Software Mentions: 5
Published: almost 7 years ago
10.1111/mec.15538
The balance between deterministic and stochastic processes in structuring lake bacterioplankton community over timeCited by: 39
Author(s): Pablo S. Aguilar, Rubén Sommaruga
Software Mentions: 5
Published: almost 6 years ago
10.1186/s12916-021-01953-2
Deep learning-based six-type classifier for lung cancer and mimics from histopathological whole slide images: a retrospective studyCited by: 50
Author(s): Huan Yang, Lili Chen, Zhiqiang Cheng, Mo Yang, Jianbo Wang, Cheng-Hao Lin, Yuefeng Wang, Leilei Huang, Yangshan Chen, Sui Peng, Zunfu Ke, Weizhong Li
Software Mentions: 5
Published: over 5 years ago
10.1038/s41598-019-40831-z
Preoperative Prediction of Axillary Lymph Node Metastasis in Breast Cancer Using Mammography-Based Radiomics MethodCited by: 49
Author(s): Jingbo Yang, Tao Wang, Lifeng Yang, Yübo Wang, Hongmei Li, Xiaobo Zhou, Weiling Zhao, Junchan Ren, Xiaoyong Li, Jie Tian, Luqi Huang
Software Mentions: 5
Published: over 7 years ago
10.2196/24073
A Natural Language Processing–Based Virtual Patient Simulator and Intelligent Tutoring System for the Clinical Diagnostic Process: Simulator Development and Case StudyCited by: 14
Author(s): Raffaello Furlan, Mauro Gatti, Roberto Menè, Dana Shiffer, Chiara Marchiori, Alessandro Giaj Levra, Vincenzo Saturnino, Enrico Brunetta, Franca Dipaola
Software Mentions: 5
Published: over 5 years ago
10.3389/fphys.2019.00278
Weighted Gene Co-expression Network Analysis for RNA-Sequencing Data of the Varicose Veins TranscriptomeCited by: 14
Author(s): Jianbin Zhang, Qiangqiang Nie, Chaozeng Si, Wang Cheng, Yang Chen, Weiliang Sun, Pei Lin, Jing Guo, Jie Kong, Yiyao Cui, Feng Wang, Xueqiang Fan, Zhidong Ye, Jianyan Wen, Peng Liu
Software Mentions: 5
Published: over 7 years ago
10.7717/peerj.9644
Microbiome dynamics in the tissue and mucus of acroporid corals differ in relation to host and environmental parametersCited by: 26
Author(s): Giulia M. Marchioro, Bettina Glasl, Aschwin H. Engelen, Ester Á. Serrão, David G. Bourne, Nicole S. Webster, Pedro R. Frade
Software Mentions: 5
Published: almost 6 years ago
10.3389/fphys.2019.01305
The Regulation of Ruminal Short-Chain Fatty Acids on the Functions of Rumen BarriersCited by: 28
Author(s): Hong Shen, Zhihui Xu, Zanming Shen, Zhongyan Lu
Software Mentions: 5
Published: over 6 years ago
10.1371/journal.pone.0115692
HPOSim: An R Package for Phenotypic Similarity Measure and Enrichment Analysis Based on the Human Phenotype OntologyCited by: 49
Author(s): Yue Deng, Lin Gao, Bingbo Wang, Guo Xia-zhen
Software Mentions: 5
Published: over 11 years ago
10.7717/peerj.10424
<i>Ixodes scapularis</i> microbiome correlates with life stage, not the presence of human pathogens, in ticks submitted for diagnostic testingCited by: 14
Author(s): Joshua C Gil, Zeinab H. Helal, Guillermo R. Risatti, Sarah M. Hird
Software Mentions: 5
Published: over 5 years ago
10.1007/s12559-021-09839-4
Automatic Expansion of Domain-Specific Affective Models for Web Intelligence ApplicationsCited by: 3
Author(s): Albert Weichselbraun, Jakob Steixner, Adrian Braşoveanu, Arno Scharl, Max Göbel, Lyndon Nixon
Software Mentions: 5
Published: over 5 years ago
10.1038/s41598-020-79359-y
Genomic adaptation of Pseudomonas strains to acidity and antibiotics in hydrothermal vents at Kolumbo submarine volcano, GreeceCited by: 9
Author(s): Panos Bravakos, Manolis Mandalakis, Paraskevi Nomikou, Thekla I. Anastasiou, Jon Bent Kristoffersen, M. Stavroulaki, Stephanos P. Kilias, Georgios Kotoulas, Antoniοs Magoulas, Paraskevi N. Polymenakou
Software Mentions: 5
Published: over 5 years ago
10.1016/j.stem.2019.03.017
Complementary Activity of ETV5, RBPJ, and TCF3 Drives Formative Transition from Naive PluripotencyCited by: 78
Author(s): Tüzer Kalkan, Susanne Bornelöv, Carla Mulas, Evangelia Diamanti, Tim Lohoff, Markus Ralser, Sjors Middelkamp, Patrick Lombard, Jennifer Nichols, Austin Smith
Software Mentions: 5
Published: about 7 years ago
10.1371/journal.pcbi.1007082
DART-ID increases single-cell proteome coverageCited by: 49
Author(s): Albert T. Chen, Alexander Franks, Nikolai Slavov
Software Mentions: 5
Published: about 7 years ago
10.1126/sciadv.abe2592
Aquaculture mediates global transmission of a viral pathogen to wild salmonCited by: 24
Author(s): Gideon Mordecai, Kristina M. Miller, Arthur L. Bass, Andrew Bateman, Amy K. Teffer, Jessica M. Caleta, Emiliano Di Cicco, Angela D. Schulze, Karia H. Kaukinen, Shaorong Li, Amy Tabata, Bradley R. Jones, Tobi J. Ming, Jeffrey B. Joy
Software Mentions: 5
Published: about 5 years ago
10.1038/s41598-021-96633-9
Spatio-seasonal variation of water quality influenced by land use and land cover in Lake MuhaziCited by: 15
Author(s): Edovia Dufatanye Umwali, Alishir Kurban, Alain Isabwe, Richard Mind’je, Hossein Azadi, Zengkun Guo, Madeleine Udahogora, Anathalie Nyirarwasa, Jeanine Umuhoza, Vincent Nzabarinda, Aboubakar Gasirabo, Gulnur Sabirhazi
Software Mentions: 5
Published: almost 5 years ago
10.1038/s41598-021-90744-z
Directional changes in Levallois core technologies between Eastern Africa, Arabia, and the Levant during MIS 5Cited by: 3
Author(s): James Blinkhorn, Huw S. Groucutt, Eleanor M. L. Scerri, Michael D. Petraglia, Simon Blockley
Software Mentions: 5
Published: about 5 years ago
10.3389/fonc.2021.738477
Identification of a Ferroptosis-Related Signature Model Including mRNAs and lncRNAs for Predicting Prognosis and Immune Activity in Hepatocellular CarcinomaCited by: 38
Author(s): Zian Chen, Hui Tian, Di Yao, Yuan Zhang, Feng Zhang, Chen Yang
Software Mentions: 5
Published: almost 5 years ago
10.1186/s13059-016-1057-2
Genome-wide identification of Drosophila dorso-ventral enhancers by differential histone acetylation analysisCited by: 52
Author(s): Nina Koenecke, Jeff Johnston, Bjoern Gaertner, Malini Natarajan, Julia Zeitlinger
Software Mentions: 5
Published: almost 10 years ago
10.1038/srep27722
Genomic leftovers: identifying novel microsatellites, over-represented motifs and functional elements in the human genomeCited by: 6
Author(s): Natalie C. Fonville, Karthik Raja Velmurugan, Hongseok Tae, Zalman Vaksman, Lauren J. McIver, Harold R. Garner
Software Mentions: 5
Published: about 10 years ago
10.1038/sdata.2019.8
A metagenomic survey of soil microbial communities along a rehabilitation chronosequence after iron ore miningCited by: 33
Author(s): Markus Gastauer, Mabel Patricia Ortiz Vera, Kleber Padovani de Souza, Eder S. Pires, Ronnie Alves, Cecílio Fróis Caldeira, Sílvio Júnio Ramos, Guilherme Oliveira
Software Mentions: 5
Published: over 7 years ago
10.1038/sdata.2016.131
De novo transcriptome assemblies of four accessions of the metal hyperaccumulator plant Noccaea caerulescensCited by: 28
Author(s): Daniel Blande, Pauliina Halimaa, Arja Tervahauta, Mark G. M. Aarts, Sirpa Kärenlampi
Software Mentions: 5
Published: over 9 years ago
10.1186/s12284-019-0322-x
Signatures of differential selection in chloroplast genome between japonica and indicaCited by: 17
Author(s): Lin Cheng, Jungrye Nam, Sang-Ho Chu, Rungnapa Phitaktansakul, Myeong-Hyeon Min, Cheng Yuan, Ji-Min Yoo, Jee-Su Kang, Kyu‐Won Kim, Yong‐Jin Park
Software Mentions: 5
Published: almost 7 years ago
10.1186/s12891-018-2369-z
Can we improve cognitive function among adults with osteoarthritis by increasing moderate-to-vigorous physical activity and reducing sedentary behaviour? Secondary analysis of the MONITOR-OA studyCited by: 11
Author(s): Ryan S. Falck, John R. Best, Linda Li, Pak Hei Chan, Lynne M. Feehan, Teresa Liu-Ambrose
Software Mentions: 5
Published: over 7 years ago
10.1186/s12866-018-1221-9
Oil type and temperature dependent biodegradation dynamics - Combining chemical and microbial community data through multivariate analysisCited by: 50
Author(s): Deni Ribičić, Kelly M. McFarlin, Roman Netzer, Odd Gunnar Brakstad, Anderson M. Winkler, Mimmi Throne-Holst, Trond Røvik Størseth
Software Mentions: 5
Published: almost 8 years ago
10.1371/journal.ppat.1008717
Genomic and transcriptomic evidence for descent from Plasmodium and loss of blood schizogony in Hepatocystis parasites from naturally infected red colobus monkeysCited by: 17
Author(s): Eerik Aunin, Ulrike Böhme, Theo Sanderson, Noah D. Simons, Tony L. Goldberg, Nelson Ting, Colin A. Chapman, Chris Newbold, Matthew Berriman, Adam J. Reid
Software Mentions: 5
Published: almost 6 years ago
10.1093/jac/dkz526
Genomic dynamics of species and mobile genetic elements in a prolonged blaIMP-4-associated carbapenemase outbreak in an Australian hospitalCited by: 28
Author(s): Assaf Gordon, Hang Phan, Samuel Lipworth, Elaine Cheong, Thomas Gottlieb, Sophie George, Tim Peto, Amy J Mathers, A Sarah Walker, Derrick W. Crook, Nicole Stoesser
Software Mentions: 5
Published: over 6 years ago
10.1038/s41598-021-85061-4
Gene co-expression network analysis in human spinal cord highlights mechanisms underlying amyotrophic lateral sclerosis susceptibilityCited by: 12
Author(s): Jerry C. Wang, Gokul Ramaswami, Daniel H. Geschwind
Software Mentions: 5
Published: over 5 years ago
10.1038/s41598-021-84667-y
Neuron-specific spinal cord translatomes reveal a neuropeptide code for mouse dorsal horn excitatory neuronsCited by: 15
Author(s): Rebecca R Das Gupta, Louis Scheurer, Paweł Pelczar, Hendrik Wildner, Hanns Ulrich Zeilhofer
Software Mentions: 5
Published: over 5 years ago
10.1186/1471-2164-14-853
Reprogramming of lysosomal gene expression by interleukin-4 and Stat6Cited by: 18
Author(s): Louise M Brignull, Zsolt Czimmerer, Hafida Saidi, Bence Dániel, Izabel Vianna Villela, Nathan W. Bartlett, Sebastian L. Johnston, Lisiane B. Meira, László Nagy, Axel Nohturfft
Software Mentions: 5
Published: over 12 years ago
10.1186/s12864-021-07849-y
Genome-wide identification and characterization of caffeoyl-coenzyme A O-methyltransferase genes related to the Fusarium head blight response in wheatCited by: 7
Author(s): Guang Yang, Wenqiu Pan, Ruoyu Zhang, Yan Pan, Qifan Guo, Weining Song, Wenbin Zheng, Xiaojun Nie
Software Mentions: 5
Published: about 5 years ago
10.3389/fmed.2021.716869
An Immune Signature Robustly Predicts Clinical Deterioration for Hepatitis C Virus-Related Early-Stage Cirrhosis PatientsCited by: 1
Author(s): Cheng Guo, Chunyan Dong, Junjie Zhang, Rui Wang, Zhe Wang, Jie Zhou, Wei Wang, Bing Ji, Ben Ma, Yanli Ge, Zhirong Wang
Software Mentions: 5
Published: almost 5 years ago
10.1038/s41598-020-69494-x
Immune network dysregulation precedes clinical diagnosis of asthmaCited by: 3
Author(s): Yi-Shin Chang, Benjamin A. Turturice, Cody Schott, Patricia W. Finn, David L. Perkins
Software Mentions: 5
Published: almost 6 years ago
10.1002/ctm2.246
Circulating tumor cell characterization of lung cancer brain metastases in the cerebrospinal fluid through single‐cell transcriptome analysisCited by: 33
Author(s): Haoyu Ruan, Yihang Zhou, Jie Shen, Yue Zhai, Ying Xu, Linyu Pi, Run Huang, Kun Chen, Xiangyu Li, Wendong Ma, Zhiyuan Wu, Xuan Deng, Xiaozhu Wang, Chao Zhang, Ming Guan
Software Mentions: 5
Published: over 5 years ago
10.1038/s41598-020-68949-5
Capsidiol-related genes are highly expressed in response to Colletotrichum scovillei during Capsicum annuum fruit development stagesCited by: 10
Author(s): Viviane Yumi Baba, Adrian F. Powell, Suzana Tiemi Ivamoto, Luiz Filipe Protásio Pereira, André Luís Laforga Vanzela, Renata Mussoi Giacomin, Susan R. Strickler, Lukas A. Mueller, Rosana Rodrigues, Leandro Simões Azeredo Gonçalves
Software Mentions: 5
Published: almost 6 years ago
10.1038/s41598-021-96378-5
Biogeography of acoustic biodiversity of NW Mediterranean coralligenous reefsCited by: 13
Author(s): Lucia Di Iorio, Manon Audax, Julie Déter, Florian Holon, Julie Lossent, Cédric Gervaise, Pierre Boissery
Software Mentions: 5
Published: almost 5 years ago
10.1093/gbe/evab099
Rampant Genome-Wide Admixture across the <i>Heliconius</i> RadiationCited by: 28
Author(s): Krzysztof M. Kozak, Mathieu Joron, W. Owen McMillan, Chris D. Jiggins
Software Mentions: 5
Published: about 5 years ago
10.1186/s12903-021-01439-w
Microbiological findings in early and late implant loss: an observational clinical case-controlled studyCited by: 12
Author(s): Michael Korsch, Silke‐Mareike Marten, Dominic A. Stoll, Christopher Prechtl, Andreas Dötsch
Software Mentions: 5
Published: over 5 years ago
10.1074/mcp.RA120.001964
Flow-induced Reorganization of Laminin-integrin Networks Within the Endothelial Basement Membrane Uncovered by ProteomicsCited by: 13
Author(s): Eelke P. Béguin, Esmée F.J. Janssen, Mark Hoogenboezem, Alexander B. Meijer, Arie J. Hoogendijk, Maartje van den Biggelaar
Software Mentions: 5
Published: about 6 years ago
10.1186/s12977-019-0494-x
Heterogeneity in HIV and cellular transcription profiles in cell line models of latent and productive infection: implications for HIV latencyCited by: 32
Author(s): Sushama Telwatte, Sara Morón-López, Dvir Aran, Peggy Kim, Christine L. Hsieh, Sunil Kumar Joshi, Mauricio Montaño, Warner C. Greene, Atul J. Butte, Joseph K. Wong, Steven A. Yukl
Software Mentions: 5
Published: over 6 years ago
10.1038/s41598-019-49956-7
Gut microbiome comparability of fresh-frozen versus stabilized-frozen samples from hospitalized patients using 16S rRNA gene and shotgun metagenomic sequencingCited by: 14
Author(s): Emma Elizabeth Ilett, Mette Jørgensen, Marc Noguera‐Julian, Gedske Daugaard, Daniel D. Murray, Marie Helleberg, Roger Paredes, Jens D Lundgren, Henrik Sengeløv, Cameron Ross MacPherson
Software Mentions: 5
Published: almost 7 years ago
10.1186/s12859-018-2252-9
npInv: accurate detection and genotyping of inversions using long read sub-alignmentCited by: 26
Author(s): Haojing Shao, Devika Ganesamoorthy, Tânia Duarte, Minh Duc Cao, Clive Hoggart, Lachlan Coin
Software Mentions: 5
Published: about 8 years ago
10.1038/s42003-020-01398-y
Genomic retargeting of p53 and CTCF is associated with transcriptional changes during oncogenic HRas-induced transformationCited by: 2
Author(s): Michal Schwartz, Avital Sarusi Portugez, Bracha Zukerman Attia, Miriam Tannenbaum, Leslie E. Cohen, Olga Loza, Emily Chase, Yousef Turman, Tommy Kaplan, Zaidoun Salah, Ofir Hakim
Software Mentions: 5
Published: over 5 years ago
10.1371/journal.pone.0231695
Genetic algorithm-based personalized models of human cardiac action potentialCited by: 18
Author(s): Dmitrii Smirnov, Andrey Pikunov, Roman Syunyaev, Ruslan Deviatiiarov, Oleg Gusev, Kedar Aras, Anna Gams, Aaron C. Koppel, Igor R. Efimov
Software Mentions: 5
Published: about 6 years ago
10.1186/s12859-021-04161-0
BoardION: real-time monitoring of Oxford Nanopore sequencing instrumentsCited by: 4
Author(s): Aimeric Bruno, Jean‐Marc Aury, Stéfan Engelen
Software Mentions: 5
Published: about 5 years ago
10.3390/cancers12040792
Analysis of HPV-Positive and HPV-Negative Head and Neck Squamous Cell Carcinomas and Paired Normal Mucosae Reveals Cyclin D1 Deregulation and Compensatory Effect of Cyclin D2Cited by: 7
Author(s): Jiří Novotný, Veronika Bandúrová, Hynek Strnad, Martin Chovanec, Miluše Hradilová, Jana Šáchová, Martin Šteffl, Josipa Grušanović, Roman Kodet, Václav Pačes, Lukáš Lacina, Karel Smetana, Jan Plzák, Michal Kolář, Tomáš Vomastek
Software Mentions: 5
Published: over 6 years ago