10.3389/fmed.2020.615312

Outcomes of COVID-19 Among Hospitalized Patients With Non-dialysis CKD
Cited by: 9
Author(s): Armando Coca, Carla Burballa, Francisco Javier Centellas Pérez, María José Pérez‐Sáez, Elena Bustamante-Munguira, Agustín Ortega, Carlos Dueñas, María Dolores Arenas, Juan Pérez-Martínez, Guillermo Ruíz, Marta Crespo, Francisco Llamas, Juan Bustamante‐Munguira, Julio Pascual
Software Mentions: 4
Published: over 5 years ago

10.3389/fneur.2019.01276

Application of an Imaging-Based Sum Score for Cerebral Amyloid Angiopathy to the General Population: Risk of Major Neurological Diseases and Mortality
Cited by: 10
Author(s): Pınar Yilmaz, M. Arfan Ikram, Wiro J. Niessen, Anand Viswanathan, Andreas Charidimou, Meike W. Vernooij
Software Mentions: 4
Published: over 6 years ago

10.3389/fonc.2019.01467

Mucinous Prostate Cancer Shows Similar Prognosis to Typical Prostate Acinar Carcinoma: A Large Population-Based and Propensity Score-Matched Study
Cited by: 10
Author(s): Feng Zhao, Xiaokai Yu, Mengyou Xu, Sunyi Ye, Shoumei Zang, Weixia Zhong, Guoping Ren, Xin Chen, Senxiang Yan
Software Mentions: 4
Published: over 6 years ago

10.3389/fonc.2020.01281

A Novel Staging System to Forecast the Cancer-Specific Survival of Patients With Resected Gallbladder Cancer
Cited by: 4
Author(s): Yongcong Yan, Jianhong Lin, Mengyu Zhang, Haohan Liu, Qicun Zhou, Ruibin Chen, Ke Wen, Jie Wang, Zhiyu Xiao, Kai Mao
Software Mentions: 4
Published: about 6 years ago

10.1017/gmh.2020.5

Suicide on Facebook-the tales of unnoticed departure in Bangladesh
Cited by: 9
Author(s): Tanjir Rashid Soron, Sheikh Mohammed Shariful Islam
Software Mentions: 4
Published: over 6 years ago

10.1186/s13321-021-00522-2

GNINA 1.0: molecular docking with deep learning
Cited by: 131
Author(s): Andrew T. McNutt, Paul Francoeur, Rishal Aggarwal, Takuya Masuda, Rocco Meli, Matthew Ragoza, Jocelyn Sunseri
Software Mentions: 4
Published: about 5 years ago

10.1007/s11764-020-00947-y

Antidepressant prescriptions and associated factors in men with prostate cancer and their female partners
Cited by: 2
Author(s): Tim Hartung, Ida Rask Moustsen-Helms, Signe Benzon Larsen, Elisabeth Anne Wreford Andersen, Nis P. Suppli, Christoffer Johansen, Anne Tjønneland, Anne Sofie Friberg, Susanne K. Kjær, Klaus Brasso, Lars Vedel Kessing, Anja Mehnert, Susanne Oksbjerg Dalton
Software Mentions: 4
Published: almost 6 years ago

10.1186/s13059-021-02333-y

Genomic insights into the origin, domestication and genetic basis of agronomic traits of castor bean
Cited by: 28
Author(s): Wei Xu, Di Wu, Tianquan Yang, Chao Sun, Zaiqing Wang, Bing Han, Shibo Wu, Anmin Yu, Mark A. Chapman, Sammy Muraguri, Qing Tan, Wenbo Wang, Zhigui Bao, Aizhong Liu, Li D
Software Mentions: 4
Published: over 5 years ago

10.1186/s12967-020-02400-1

Collapsing the list of myocardial infarction-related differentially expressed genes into a diagnostic signature
Cited by: 11
Author(s): German Osmak, Natalia Baulina, Philipp Koshkin, О. О. Фаворова
Software Mentions: 4
Published: about 6 years ago

10.18632/oncotarget.12204

Human PDE4D isoform composition is deregulated in primary prostate cancer and indicative for disease progression and development of distant metastases
Cited by: 21
Author(s): René Böttcher, Kalyan Dulla, Dianne van Strijp, Natasja F. Dits, Esther I. Verhoef, George S. Baillie, Geert J.L.H. van Leenders, Miles D. Houslay, Guido Jenster, Ralf Hoffmann
Software Mentions: 4
Published: almost 10 years ago

10.3390/ijms22031208

Transcriptomic Signatures and Upstream Regulation in Human Skeletal Muscle Adapted to Disuse and Aerobic Exercise
Cited by: 14
Author(s): Pavel A. Makhnovskii, Roman O. Bokov, Fedor A. Kolpakov, D. V. Popov
Software Mentions: 4
Published: over 5 years ago

10.7554/eLife.60546

Acquisition of innate odor preference depends on spontaneous and experiential activities during critical period
Cited by: 13
Author(s): Qiang Qiu, Yunming Wu, Limei Ma, Wenjing Xu, Max Hills, Vivekanandan Ramalingam, Chong Yu
Software Mentions: 4
Published: over 5 years ago

10.1155/2013/187509

Reconstruction and Analysis of Human Kidney-Specific Metabolic Network Based on Omics Data
Cited by: 8
Author(s): Ai-Di Zhang, Shao‐Xing Dai, Jing‐Fei Huang
Software Mentions: 4
Published: over 13 years ago

10.7554/eLife.68714

Deep learning detects cardiotoxicity in a high-content screen with induced pluripotent stem cell-derived cardiomyocytes
Cited by: 17
Author(s): Francis Grafton, Jaclyn J. Ho, Sara Ranjbarvaziri, Farshad Farshidfar, Anastasiia Budan, Stephanie Steltzer, Mahnaz Maddah, Kevin E. Loewke, Kristina Green, Snahel Patel, Tim Hoey, Mohammad A. Mandegar
Software Mentions: 4
Published: about 5 years ago

10.3389/fmicb.2018.00869

Taxon-Function Decoupling as an Adaptive Signature of Lake Microbial Metacommunities Under a Chronic Polymetallic Pollution Gradient
Cited by: 20
Author(s): Bachar Cheaib, Malo Le Boulch, Pierre-Luc Mercier, Nicolas Derôme
Software Mentions: 4
Published: over 8 years ago

10.1371/journal.pcbi.1006498

Full-Length Envelope Analyzer (FLEA): A tool for longitudinal analysis of viral amplicons
Cited by: 5
Author(s): Kemal Eren, Steven Weaver, Robert Ketteringham, Morné Valentyn, Melissa Smith, Venkatesh Kumar, Sanjay Mohan, Sergei L. Kosakovsky Pond, Ben Murrell
Software Mentions: 4
Published: over 7 years ago

10.1186/s13059-016-1145-3

Rapid transcriptional plasticity of duplicated gene clusters enables a clonally reproducing aphid to colonise diverse plant species
Cited by: 539
Author(s): Thomas C. Mathers, Yazhou Chen, Gemy Kaithakottil, Fabrice Legeai, Sam T. Mugford, Patrice Bâa-Puyoulet, Anthony Bretaudeau, Bernardo Clavijo, Stefano Colella, Olivier Collin, Tamás Dalmay, Thomas Derrien, Honglin Feng, Toni Gabaldón, Anna Jordan, Irene Julca, Graeme J. Kettles, Krissana Kowitwanich, Dominique Lavenier, Paolo Lenzi, Sara López-Gomollón, Damian Loska, Daniel Mapleson, Florian Maumus, Simon Moxon, Daniel D. Price, Akiko Sugio, Manuella van Munster, Marilyne Uzest, Darren Waite, Georg Jander, Denis Tagu, Alex C. C. Wilson, Cock van Oosterhout, David Swarbreck, Saskia A. Hogenhout
Software Mentions: 4
Published: over 9 years ago

10.1038/s41598-021-96149-2

Long noncoding RNA landscapes specific to benign and malignant thyroid neoplasms of distinct histological subtypes
Cited by: 2
Author(s): V. D. Yakushina, В. В. Стрельников, А. С. Танас, А. В. Лавров
Software Mentions: 4
Published: almost 5 years ago

10.3389/fpsyg.2020.00198

Conceptual Metaphors for Designing Smart Environments: Device, Robot, and Friend
Cited by: 11
Author(s): Jingoog Kim, Mary Lou Maher
Software Mentions: 4
Published: over 6 years ago

10.3389/fpsyt.2019.00593

Can an Emoji a Day Keep the Doctor Away? An Explorative Mixed-Methods Feasibility Study to Develop a Self-Help App for Youth With Mental Health Problems
Cited by: 16
Author(s): Levi van Dam, Sianne Rietstra, Eva Van der Drift, Geert Jan Stams, Rob van der Mei, Maria Mahfoud, Arne Popma, Eric Schlossberg, Alex Pentland, Todd G. Reid
Software Mentions: 4
Published: almost 7 years ago

10.1038/srep29434

Tumour sampling method can significantly influence gene expression profiles derived from neoadjuvant window studies
Cited by: 13
Author(s): Dominic Pearce, Laura Arthur, Arran Turnbull, Lorna Renshaw, Victoria Sabine, Jeremy Thomas, John M.S. Bartlett, J. Michael Dixon, Andrew H. Sims
Software Mentions: 4
Published: about 10 years ago

10.1371/journal.pone.0179891

Estimating psychopathological networks: Be careful what you wish for
Cited by: 155
Author(s): Sacha Epskamp, Joost Kruis, Maarten Marsman
Software Mentions: 4
Published: about 9 years ago

10.1371/journal.pcbi.1003424

Fast Reconstruction of Compact Context-Specific Metabolic Network Models
Cited by: 200
Author(s): Nikos Vlassis, Maria Pires Pacheco, Thomas Sauter
Software Mentions: 4
Published: over 12 years ago

10.1371/journal.pcbi.1008208

MASSpy: Building, simulating, and visualizing dynamic biological models in Python using mass action kinetics
Cited by: 14
Author(s): Zachary B. Haiman, Daniel C. Zielinski, Yuko Koike, James T. Yurkovich, Jaehyung Kim
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1007847

Medusa: Software to build and analyze ensembles of genome-scale metabolic network reconstructions
Cited by: 18
Author(s): Gregory L. Medlock, Thomas J. Moutinho, Jason A. Papin
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0106131

Gene Expression Profiling Reveals Epithelial Mesenchymal Transition (EMT) Genes Can Selectively Differentiate Eribulin Sensitive Breast Cancer Cells
Cited by: 47
Author(s): Zoltán Dezső, Judith Oestreicher, Amy Weaver, Stephanie Santiago, Sergei Agoulnik, Jesse C. Chow, Yoshiya Oda, Yasuhiro Funahashi
Software Mentions: 4
Published: almost 12 years ago

10.3390/cancers7040887

Meta-Analysis of DNA Tumor-Viral Integration Site Selection Indicates a Role for Repeats, Gene Expression and Epigenetics
Cited by: 27
Author(s): Janet Doolittle-Hall, Danielle L. Cunningham Glasspoole, William T. Seaman, Jennifer Webster‐Cyriaque
Software Mentions: 4
Published: over 10 years ago

10.1371/journal.ppat.1009697

Listeria monocytogenes infection rewires host metabolism with regulatory input from type I interferons
Cited by: 3
Author(s): Duygu Demiröz, Ekaterini Platanitis, Marsha Bryant, Philipp Fischer, Michaela Prchal-Murphy, Alexander Lercher, Caroline Lassnig, Manuela Baccarini, Mathias Müller, Andréas Bergthaler, Veronika Sexl, Marlies Dolezal, Thomas Decker
Software Mentions: 4
Published: about 5 years ago

10.1155/2015/605891

Evaluation of Penalized and Nonpenalized Methods for Disease Prediction with Large-Scale Genetic Data
Cited by: 2
Author(s): Sungho Won, Ho Sun Choi, Suyeon Park, Juyoung Lee, Changyi Park, Sunghoon Kwon
Software Mentions: 4
Published: over 11 years ago

10.1186/1471-2164-15-300

Visual gene-network analysis reveals the cancer gene co-expression in human endometrial cancer
Cited by: 81
Author(s): Wei-Chun Chou, An‐Lin Cheng, Marco Brotto, Chun‐Yu Chuang
Software Mentions: 4
Published: over 12 years ago

10.1371/journal.pone.0233543

A transcriptome-based approach to identify functional modules within and across primary human immune cells
Cited by: 10
Author(s): Saraï Mola, Sylvain Foisy, Gabrielle Boucher, François Major, Claudine Beauchamp, Mohamad Karaky, Philippe Goyette, Sylvie Lesage, John D. Rioux
Software Mentions: 4
Published: about 6 years ago

10.1186/s12859-019-2994-z

An elastic-net logistic regression approach to generate classifiers and gene signatures for types of immune cells and T helper cell subsets
Cited by: 29
Author(s): Arezo Torang, Paraag Gupta, David J. Klinke
Software Mentions: 4
Published: almost 7 years ago

10.1186/s12859-018-2401-1

Data integration by multi-tuning parameter elastic net regression
Cited by: 23
Author(s): Jie Liu, Gangning Liang, Kimberly D. Siegmund, Juan Pablo Lewinger
Software Mentions: 4
Published: almost 8 years ago

10.1007/s00360-020-01322-0

Phenotypic flexibility in heat production and heat loss in response to thermal and hydric acclimation in the zebra finch, a small arid-zone passerine
Cited by: 10
Author(s): Michał S. Wojciechowski, Anna Kowalczewska, Roger Colominas‐Ciuró, Małgorzata Jefimow
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0117818

mRNA Profiling Reveals Determinants of Trastuzumab Efficiency in HER2-Positive Breast Cancer
Cited by: 33
Author(s): Silvia von der Heyde, Sven Wagner, Czerny Alexander, M. Nietert, Fabian Ludewig, Gabriela Salinas-Riester, Dorit Arlt, Tim Beißbarth
Software Mentions: 4
Published: over 11 years ago

10.3390/s17020403

Towards a Semantic Web of Things: A Hybrid Semantic Annotation, Extraction, and Reasoning Framework for Cyber-Physical System
Cited by: 27
Author(s): Zhenyu Wu, Yuan Xu, Yunong Yang, Chunhong Zhang, Xinning Zhu, Yang Ji
Software Mentions: 4
Published: over 9 years ago

10.1038/s41598-018-21553-0

Environmental and anthropogenic factors affecting the increasing occurrence of shark-human interactions around a fast-developing Indian Ocean island
Cited by: 26
Author(s): Erwann Lagabrielle, Agathe Allibert, Jérémy J. Kiszka, Nicolas Loiseau, James P. Kilfoil, Anne Lemahieu
Software Mentions: 4
Published: over 8 years ago

10.3390/jcm10132797

Predictors for Perioperative Blood Transfusion in Patients Undergoing Open Cystectomy and Urinary Diversion and Development of a Nomogram: An Observational Cohort Study
Cited by: 4
Author(s): Dominique Engel, Christian M. Beilstein, Pascal Jerney, Marc A. Furrer, Fiona C. Burkhard, Lukas M. Löffel, Patrick Y. Wuethrich
Software Mentions: 4
Published: about 5 years ago

10.3389/fpsyg.2021.572437

Measuring Cognitive Load Using In-Game Metrics of a Serious Simulation Game
Cited by: 9
Author(s): Natalia Sevcenko, Manuel Ninaus, Franz Wortha, Korbinian Moeller, Peter Gerjets
Software Mentions: 4
Published: over 5 years ago

10.7717/peerj.3216

Analysis of genomic variation in lung adenocarcinoma patients revealed the critical role of PI3K complex
Cited by: 9
Author(s): Zhao min Deng, Lizhu Lin, Wen Qiu, Yong qun Zhang, Hong Zhong, Ping Liao, Wu Yun
Software Mentions: 4
Published: about 9 years ago

10.3389/fvets.2020.00635

The Iconic Atlantic Goliath Grouper (Epinephelus itajara): A Comprehensive Assessment of Health Indices in the Southeastern United States Population
Cited by: 6
Author(s): Christopher R. Malinowski, Justin R. Perrault, Felicia C. Coleman, Christopher C. Koenig, Justin M. Stilwell, Carolyn Cray, Nicole I. Stacy
Software Mentions: 4
Published: almost 6 years ago

10.1186/s13024-021-00462-3

A proteomic network approach resolves stage-specific molecular phenotypes in chronic traumatic encephalopathy
Cited by: 4
Author(s): Laura Gutierrez-Quiceno, Eric B. Dammer, Ashlyn G. Johnson, James Webster, Rhythm Shah, Duc M. Duong, Luming Yin, Nicholas T. Seyfried, Victor E. Alvarez, Thor D. Stein, Ann C. McKee, Chadwick M. Hales
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0235393

A comparison of Monte Carlo sampling methods for metabolic network models
Cited by: 28
Author(s): Shirin Fallahi, Hans J. Skaug, Guttorm Alendal
Software Mentions: 4
Published: about 6 years ago

10.1186/s40168-018-0404-9

Commensal microbiota modulate gene expression in the skin
Cited by: 126
Author(s): Jacquelyn S. Meisel, Georgia Sfyroera, Casey Bartow‐McKenney, Ciara Gimblet, Julia Bugayev, Joseph Horwinski, Brian Kim, Jonathan R. Brestoff, Amanda S. Tyldsley, Qi Zheng, Brendan P. Hodkinson, David Artis, Elizabeth A. Grice
Software Mentions: 4
Published: over 8 years ago

10.12688/f1000research.26429.2

netDx: Software for building interpretable patient classifiers by multi-'omic data integration using patient similarity networks
Cited by: 2
Author(s): Shraddha Pai, Philipp Weber, Ruth Isserlin, Hussam Kaka, Shirley Hui, Manjool Shah, Luca Giudice, Rosalba Giugno, Anne Krogh Nøhr, Jan Baumbach, Gary D. Bader
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-020-79320-z

Bioactive diterpenoids impact the composition of the root-associated microbiome in maize (Zea mays)
Cited by: 32
Author(s): Katie Murphy, Joseph Edwards, Katherine Louie, Benjamin P. Bowen, Venkatesan Sundaresan, Trent Northen, Philipp Zerbe
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0233277

Linguistic signaling, emojis, and skin tone in trust games
Cited by: 8
Author(s): J. Jobu Babin
Software Mentions: 4
Published: about 6 years ago

10.7554/eLife.46418

Self-sperm induce resistance to the detrimental effects of sexual encounters with males in hermaphroditic nematodes
Cited by: 20
Author(s): Lauren N. Booth, Travis J. Maures, Robin Yeo, Cindy Tantilert, Anne Brunet
Software Mentions: 4
Published: about 7 years ago

10.7554/eLife.47427

Default mode-visual network hypoconnectivity in an autism subtype with pronounced social visual engagement difficulties
Cited by: 42
Author(s): Michael Lombardo, Lisa T. Eyler, Adrienne Moore, Michael Datko, Cynthia Carter Barnes, Debra Cha, Eric Courchesne, Karen Pierce
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-019-49446-w

De novo transcriptome provides insights into the growth behaviour and resveratrol and trans-stilbenes biosynthesis in Dactylorhiza hatagirea - An endangered alpine terrestrial orchid of western Himalaya
Cited by: 19
Author(s): Nisha Dhiman, Nitesh Kumar Sharma, Pooja Thapa, Isha Sharma, Mohit Kumar Swarnkar, Amit Chawla, Ravi Shankar, Amita Bhattacharya
Software Mentions: 4
Published: almost 7 years ago

10.1186/gb-2011-12-3-r27

A genome-wide view of mutation rate co-variation using multivariate analyses
Cited by: 38
Author(s): Guruprasad Ananda, Francesca Chiaromonte, Kateryna D. Makova
Software Mentions: 4
Published: over 15 years ago

10.1038/s41598-020-65883-4

Anguillid eels as a surrogate species for conservation of freshwater biodiversity in Japan
Cited by: 18
Author(s): Hikaru Itakura, Ryoshiro Wakiya, Matthew Gollock, Kenzo Kaifu
Software Mentions: 4
Published: about 6 years ago

10.1093/gigascience/giz047

Single-cell transcriptomic landscape of nucleated cells in umbilical cord blood
Cited by: 24
Author(s): Yi Zhao, Xiao Li, Weihua Zhao, Jingwan Wang, Jun Yu, Ziyun Wan, Kai Gao, Gang Ye, Wang Xie, Bingbing Fan, Qinkai Wu, Bangwei Chen, Feng Xie, Jinghua Wu, Wei Zhang, Fang Chen, Huanming Yang, Jian Wang, Xun Xu, Bin Li, Shiping Liu, Yong Hou, Xiao Liu
Software Mentions: 4
Published: over 7 years ago

10.12688/f1000research.9893.2

exprso: an R-package for the rapid implementation of machine learning algorithms
Cited by: 12
Author(s): Thomas P. Quinn, Daniel S. Tylee, Stephen J. Glatt
Software Mentions: 4
Published: over 8 years ago

10.1038/s41598-018-36292-5

Metabolic phenotype of breast-fed infants, and infants fed standard formula or bovine MFGM supplemented formula: a randomized controlled trial
Cited by: 39
Author(s): Xuan He, Mariana Parenti, Tove Grip, Magnus Domellöf, Bo Lönnerdal, Olle Hernell, Niklas Timby, Carolyn M. Slupsky
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pone.0140885

Increased Transcript Complexity in Genes Associated with Chronic Obstructive Pulmonary Disease
Cited by: 18
Author(s): Lela Lackey, Evonne McArthur, Alain Laederach
Software Mentions: 4
Published: almost 11 years ago

10.3389/fpls.2021.693887

Mono-Locus and Pyramided Resistant Grapevine Cultivars Reveal Early Putative Biomarkers Upon Artificial Inoculation With Plasmopara viticola
Cited by: 14
Author(s): Ramona Mihaela Ciubotaru, Pietro Franceschi, L. Zulini, M. Stefanini, Domen Škrab, Márcia Denise Rossarolla, Peter Robatscher, Michael Oberhuber, Urška Vrhovšek, Giulia Chitarrini
Software Mentions: 4
Published: about 5 years ago

10.3389/fnins.2020.00887

Does Osteopathic Manipulative Treatment Induce Autonomic Changes in Healthy Participants? A Thermal Imaging Study
Cited by: 22
Author(s): Francesco Cerritelli, Daniela Cardone, Alessio Pirino, Arcangelo Merla, Fabio Scoppa
Software Mentions: 4
Published: almost 6 years ago

10.3389/fmicb.2020.00393

The Computational Diet: A Review of Computational Methods Across Diet, Microbiome, and Health
Cited by: 30
Author(s): Ameen Eetemadi, Navneet Rai, Beatriz Merchel Piovesan Pereira, Minseung Kim, Harold H. Schmitz, Ilias Tagkopoulos
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pbio.3000443

Machine learning of human plasma lipidomes for obesity estimation in a large population cohort
Cited by: 46
Author(s): Mathias J. Gerl, Christian Klose, Michał A. Surma, Céline Fernandez, Olle Melander, Satu Männistö, Katja Borodulin, Aki S. Havulinna, Veikko Salomaa, Elina Ikonen, Carlo Vittorio Cannistraci, Kai Simons
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pone.0248374

Belief in sexism shift: Defining a new form of contemporary sexism and introducing the belief in sexism shift scale (BSS scale)
Cited by: 5
Author(s): Miriam Katharina Zehnter, Francesca Manzi, Patrick E. Shrout, Madeline E. Heilman
Software Mentions: 4
Published: over 5 years ago

10.1186/s12864-019-5767-1

Transcriptomic responses to diet quality and viral infection in Apis mellifera
Cited by: 23
Author(s): Lindsay Rutter, Jimena Carrillo-Tripp, Bryony C. Bonning, Dianne Cook, Amy L. Toth, Adam Doležal
Software Mentions: 4
Published: about 7 years ago

10.7717/peerj.10211

The neuropsychological profile of professional action video game players
Cited by: 11
Author(s): Julie Justine Benoit, Eugenie Roudaia, Taylor Johnson, Trevor Love, Jocelyn Faubert
Software Mentions: 4
Published: over 5 years ago

10.1093/brain/awaa334

Recalibrating the epigenetic clock: implications for assessing biological age in the human cortex
Cited by: 86
Author(s): Gemma Shireby, Jonathan Davies, Paul T. Francis, Joe Burrage, Emma Walker, Grant W. A. Neilson, Aisha Dahir, Alan Thomas, Seth Love, Rebecca Smith, Katie Lunnon, Meena Kumari, Leonard C Schalkwyk, Kevin Morgan, Keeley Brookes, Eilís Hannon, Jonathan Mill
Software Mentions: 4
Published: almost 6 years ago

10.3390/cancers12020470

Transcriptome Analysis Identifies ALCAM Overexpression as a Prognosis Biomarker in Laryngeal Squamous Cell Carcinoma
Cited by: 10
Author(s): Pedro Nicolau-Neto, Paulo Thiago de Souza-Santos, Mariana Severo Ramundo, Priscila Valverde, Ivanir Martins, Izabella Costa Santos, Fernando Luiz Dias, Tatiana de Almeida Simão, Luís Felipe Ribeiro Pinto
Software Mentions: 4
Published: over 6 years ago

10.1083/jcb.201711048

A timer for analyzing temporally dynamic changes in transcription during differentiation in vivo
Cited by: 54
Author(s): David Bending, Paz Prieto Martín, Alina Paduraru, Catherine Ducker, Erik Marzaganov, Marie Laviron, Satsuki Kitano, Hitoshi Miyachi, Tessa Crompton, M. Ono
Software Mentions: 4
Published: about 8 years ago

10.1371/journal.pone.0240171

Tracing gestation and lactation in free ranging gray whales using the stable isotopic composition of epidermis layers
Cited by: 7
Author(s): Michelle Gelippi, Brian N. Popp, Marco F. W. Gauger, Javier Caraveo-Patiño
Software Mentions: 4
Published: almost 6 years ago

10.2196/18839

Computer-Controlled Virtual Humans in Patient-Facing Systems: Systematic Review and Meta-Analysis
Cited by: 29
Author(s): Debaleena Chattopadhyay, Tengteng Ma, Hasti Sharifi, Pamela Martyn‐Nemeth
Software Mentions: 4
Published: about 6 years ago

10.1007/s00702-021-02359-3

Covariation of psychobiological stress regulation with valence and quantity of social interactions in everyday life: disentangling intra- and interindividual sources of variation
Cited by: 5
Author(s): Martin Stoffel, Elvira Abbruzzese, Stefanie Rahn, Ulrike Bossmann, Markus Moessner, Beate Ditzen
Software Mentions: 4
Published: about 5 years ago

10.1186/s12862-016-0764-3

The biodiversity hotspot as evolutionary hot-bed: spectacular radiation of Erica in the Cape Floristic Region
Cited by: 45
Author(s): Michael D. Pirie, E. G. H. Oliver, A. Mugrabi de Kuppler, Berit Gehrke, Nicholas C Le Maitre, Martha Kandziora, Baoheng Du
Software Mentions: 4
Published: almost 10 years ago

10.1186/s12864-015-2001-7

Investigation of regions impacting inbreeding depression and their association with the additive genetic effect for United States and Australia Jersey dairy cattle
Cited by: 23
Author(s): Jeremy Howard, M. Haile‐Mariam, J.E. Pryce, Christian Maltecca
Software Mentions: 4
Published: almost 11 years ago

10.1038/s41398-019-0548-9

Epigenome-wide association study of depression symptomatology in elderly monozygotic twins
Cited by: 44
Author(s): Anna Starnawska, Qihua Tan, Mette Soerensen, Matt McGue, Ole Mors, Anders D. Børglum, Kaare Christensen, Mette Nyegaard, Lene Christiansen
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pbio.3000562

Should a viral genome stay in the host cell or leave? A quantitative dynamics study of how hepatitis C virus deals with this dilemma
Cited by: 6
Author(s): Shoya Iwanami, Kosaku Kitagawa, Hirofumi Ohashi, Yasufumi Asai, Kaho Shionoya, Wakana Saso, Kazane Nishioka, Hisashi Inaba, Shinji Nakaoka, Takaji Wakita, Odo Diekmann, Shingo Iwami, Koichi Watashi
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pcbi.1005495

Simultaneous inference of phylogenetic and transmission trees in infectious disease outbreaks
Cited by: 89
Author(s): Don Klinkenberg, J.A. Backer, Xavier Didelot, Caroline Colijn, Jacco Wallinga
Software Mentions: 4
Published: about 9 years ago

10.1371/journal.pntd.0005568

Detecting the impact of temperature on transmission of Zika, dengue, and chikungunya using mechanistic models
Cited by: 387
Author(s): Erin A. Mordecai, Jeremy M. Cohen, Michelle V. Evans, Prithvi Gudapati, Leah R. Johnson, Catherine A. Lippi, Kerri L. Miazgowicz, Courtney C. Murdock, Jason R. Rohr, Sadie J. Ryan, Van M. Savage, Marta S. Shocket, Anna Stewart Ibarra, Matthew B. Thomas, Daniel P. Weikel
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0058241

Allometric Convergence in Savanna Trees and Implications for the Use of Plant Scaling Models in Variable Ecosystems
Cited by: 20
Author(s): Andrew T. Tredennick, Lisa Patrick Bentley, Niall P. Hanan
Software Mentions: 4
Published: over 13 years ago

10.3389/fped.2020.00152

Pediatric Surgical Research Output in Germany in the Last 30 Years – An Assessment and International Comparison of Three Dedicated Paediatric Surgical Journals
Cited by: 4
Author(s): Christina Oetzmann von Sochaczewski, Oliver J. Muensterer
Software Mentions: 4
Published: over 6 years ago

10.3389/fnmol.2021.672614

Bisulfite Amplicon Sequencing Can Detect Glia and Neuron Cell-Free DNA in Blood Plasma
Cited by: 11
Author(s): Zac Chatterton, Natalia Mendelev, Sean Chen, Walter Carr, Gary H. Kamimori, Yongchao Ge, Andrew J. Dwork, Fatemeh Haghighi
Software Mentions: 4
Published: about 5 years ago

10.3389/fgene.2014.00248

The CNVrd2 package: measurement of copy number at complex loci using high-throughput sequencing data
Cited by: 22
Author(s): Hoang Nguyen, Tony R. Merriman, Michael A. Black
Software Mentions: 4
Published: about 12 years ago

10.1093/gbe/evw171

Estimating the Effective Sample Size of Tree Topologies from Bayesian Phylogenetic Analyses
Cited by: 49
Author(s): Robert Lanfear, Xia Hua, Dan L. Warren
Software Mentions: 4
Published: about 10 years ago

10.1002/jrsm.1167

Automated generation of node‐splitting models for assessment of inconsistency in network meta‐analysis
Cited by: 312
Author(s): Gert van Valkenhoef, Sofia Dias, A E Ades, Nicky J Welton
Software Mentions: 4
Published: almost 11 years ago

10.1038/srep13889

Quantifying the heritability of testicular germ cell tumour using both population-based and genomic approaches
Cited by: 53
Author(s): Kevin Litchfield, Hauke Thomsen, Jonathan S. Mitchell, Jan Sundquist, Richard S. Houlston, Kari Hemminki, Clare Turnbull
Software Mentions: 4
Published: almost 11 years ago

10.1038/s41598-020-59223-9

Long-term observations from Antarctica demonstrate that mismatched scales of fisheries management and predator-prey interaction lead to erroneous conclusions about precaution
Cited by: 79
Author(s): George M. Watters, Jefferson T. Hinke, Christian S. Reiss
Software Mentions: 4
Published: over 6 years ago

10.1186/s13148-021-01176-5

DNA methylation profiling identifies two distinct subgroups in breast cancers with low hormone receptor expression, mainly associated with HER2 amplification status
Cited by: 1
Author(s): Philipp Jurmeister, Karsten E. Weber, Sonia L. Villegas, Thomas Karn, Michael Untch, Anne Thieme, Volkmar Müller, Eliane Tabea Taube, Peter A. Fasching, Wolfgang Schmitt, Frederik Marmé, Elmar Stickeler, Bruno Valentin Sinn, Paul Jank, Christian Schem, Frederick Klauschen, Marion van Mackelenbergh, Carsten Denkert, Sibylle Loibl, David Capper
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pone.0230813

Metabolic reprograming of LPS-stimulated human lung macrophages involves tryptophan metabolism and the aspartate-arginosuccinate shunt
Cited by: 14
Author(s): Fanta Fall, Elodie Lamy, Marion Brollo, Emmanuel Naline, Natacha Lenuzza, Etienne Thévenot, Philippe Devillier, Stanislas Grassin-Delyle
Software Mentions: 4
Published: over 6 years ago

10.1016/j.cels.2018.08.011

Combined Experimental and System-Level Analyses Reveal the Complex Regulatory Network of miR-124 during Human Neurogenesis
Cited by: 38
Author(s): Lisa K. Kutsche, Deisy Morselli Gysi, Jörg Fallmann, Kerstin Lenk, Rebecca Petri, Anka Swiersy, Simon D. Klapper, Karolina Pircs, Shahryar Khattak, Peter F. Stadler, Johan Jakobsson, Katja Nowick, Volker Busskamp
Software Mentions: 4
Published: almost 8 years ago

10.1098/rsif.2019.0610

Construction, comparison and evolution of networks in life sciences and other disciplines
Cited by: 10
Author(s): Deisy Morselli Gysi, Katja Nowick
Software Mentions: 4
Published: over 6 years ago

10.1111/cogs.12910

Order Matters! Influences of Linear Order on Linguistic Category Learning
Cited by: 12
Author(s): Dorothée B. Hoppe, Jacolien van Rij, Petra Hendriks, Michael Ramscar
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0230490

Year-round temporal stability of a tropical, urban plant-pollinator network
Cited by: 15
Author(s): Alyssa B. Stewart, Pattharawadee Waitayachart
Software Mentions: 4
Published: over 6 years ago

10.1186/s12920-018-0403-5

Progression-specific genes identified in microdissected formalin-fixed and paraffin-embedded tissue containing matched ductal carcinoma in situ and invasive ductal breast cancers
Cited by: 12
Author(s): S Schultz, Harald Bartsch, Karl Sotlar, Karina Petat-Dutter, Michael Bonin, Steffen Kahlert, Nadia Harbeck, Ulrich Vogel, Harald Seeger, Tanja Fehm, Hans Neubauer
Software Mentions: 4
Published: almost 8 years ago

10.1038/s41598-021-93097-9

Identification of natural product modulators of Merkel cell carcinoma cell growth and survival
Cited by: 2
Author(s): Emily A. Smith, Natasha T. Hill, Tara Gelb, Khalid A. Garman, Ekaterina I. Goncharova, Heidi R. Bokesch, Chang‐Kwon Kim, Karen L. Wendt, Robert H. Cichewicz, Kirk R. Gustafson, Isaac Brownell, Curtis J. Henrich
Software Mentions: 4
Published: about 5 years ago

10.3389/fmicb.2021.642600

Metabolic Reliance on Photosynthesis Depends on Both Irradiance and Prey Availability in the Mixotrophic Ciliate, Strombidium cf. basimorphum
Cited by: 3
Author(s): Erin Ann Hughes, Maira Maselli, Helle Sørensen, Per Juel Hansen
Software Mentions: 4
Published: about 5 years ago

10.3389/fmicb.2021.701067

Nitrogen Supply and Host-Plant Genotype Modulate the Transcriptomic Profile of Plasmodiophora brassicae
Cited by: 3
Author(s): Kévin Gazengel, Yoann Aigu, Christine Lariagon, Mathilde Humeau, Antoine Gravot, Maria Manzanares-Dauleux, Stéphanie Daval
Software Mentions: 4
Published: about 5 years ago

10.1534/g3.116.033332

Marker-Based Estimates Reveal Significant Nonadditive Effects in Clonally Propagated Cassava (<i>Manihot esculenta</i>): Implications for the Prediction of Total Genetic Value and the Selection of Varieties
Cited by: 31
Author(s): Marnin D. Wolfe, Peter Kulakow, Ismail Rabbi, Jean‐Luc Jannink
Software Mentions: 4
Published: almost 10 years ago

10.1186/s12864-019-5850-7

Comprehensive functional profiling of long non-coding RNAs through a novel pan-cancer integration approach and modular analysis of their protein-coding gene association networks
Cited by: 6
Author(s): Kevin B. Walters, Radmir Sarsenov, Wen Siong Too, Roseanna K. Hare, Ian C. Paterson, D Lambert, Stephen Brown, James R. Bradford
Software Mentions: 4
Published: about 7 years ago

10.1186/s12918-017-0412-6

Detection of statistically significant network changes in complex biological networks
Cited by: 27
Author(s): Raghvendra Mall, Luigi Cerulo, Halima Bensmail, Antonio Iavarone, Michele Ceccarelli
Software Mentions: 4
Published: over 9 years ago

10.1007/s00592-018-1223-y

Negative pressure wound therapy in the treatment of diabetic foot ulcers may be mediated through differential gene expression
Cited by: 12
Author(s): Sebastian Borys, Agnieszka H. Ludwig-Słomczyńska, Michał Seweryn, Jerzy Hohendorff, Teresa Koblik, Julita Machlowska, Beata Kieć‐Wilk, Paweł Wołkow, Maciej Małecki
Software Mentions: 4
Published: almost 8 years ago

10.1371/journal.pcbi.1008219

A simple, scalable approach to building a cross-platform transcriptome atlas
Cited by: 12
Author(s): Paul W. Angel, Nadia Rajab, Yidi Deng, Chris M. Pacheco, Tyrone Chen, Kim‐Anh Lê Cao, Jarny Choi, Christine A. Wells
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12859-017-1549-4

BBCAnalyzer: a visual approach to facilitate variant calling
Cited by: 0
Author(s): Sarah Sandmann, Aniek O. de Graaf, Martin Dugas
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0110052

Visualization-Aided Classification Ensembles Discriminate Lung Adenocarcinoma and Squamous Cell Carcinoma Samples Using Their Gene Expression Profiles
Cited by: 15
Author(s): Ao Zhang, Chi Wang, Shiji Wang, Liang Li, Zhongmin Liu, Suyan Tian
Software Mentions: 4
Published: almost 12 years ago