cran: ggplot2 | Projects | Ecosyste.ms: Papers

10.3390/genes11020198

NF-YA Overexpression in Lung Cancer: LUAD
Cited by: 17
Author(s): Eugenia Bezzecchi, Mirko Ronzio, Valentina Semeghini, Valentina Andrioletti, Roberto Mantovani, Diletta Dolfini
Software Mentions: 7
Published: almost 5 years ago

10.12688/f1000research.14470.2

Clinotator: analyzing ClinVar variation reports to prioritize reclassification efforts
Cited by: 2
Author(s): Robert R. Butler, Pablo V. Gejman
Software Mentions: 7
Published: over 6 years ago

10.1093/database/baw160

FirebrowseR: an R client to the Broad Institute’s Firehose Pipeline
Cited by: 123
Author(s): Mario C. Deng, Johannes Brägelmann, Ivan Kryukov, Nuno Saraiva-Agostinho, Sven Perner
Software Mentions: 7
Published: almost 8 years ago

10.12688/f1000research.11290.1

Gene length and detection bias in single cell RNA sequencing protocols
Cited by: 71
Author(s): Belinda Phipson, Luke Zappia, Alicia Oshlack
Software Mentions: 7
Published: over 7 years ago

10.1038/s42003-020-0969-2

Integrative genome-wide analysis reveals the role of WIP proteins in inhibition of growth and development
Cited by: 11
Author(s): Maria Victoria Gómez Roldán, Farhaj Izhaq, Marion Verdenaud, John Saviour Yaw Eleblu, Aimen Haraghi, Vivien Sommard, Pierre Chambrier, David Latrasse, Teddy Jégu, Moussa Benhamed, Judit Szécsi, Mohammed Bendahmane, Adnane Boualem, Abdelhafid Bendahmane
Software Mentions: 7
Published: over 4 years ago

10.1038/s41598-021-95668-2

Short-term cell death in tissues of Pulsatilla vernalis seeds from natural and ex situ conserved populations
Cited by: 0
Author(s): Katarzyna M. Zielińska, Andrzej Kaźmierczak, Ewa Michalska
Software Mentions: 7
Published: over 3 years ago

10.1038/s41598-019-41940-5

The ciliary Frizzled-like receptor Tmem67 regulates canonical Wnt/β-catenin signalling in the developing cerebellum via Hoxb5
Cited by: 15
Author(s): Zakia Abdelhamed, Dina Abdelmottaleb, Mohammed E. El‐Asrag, Subaashini Natarajan, Gabrielle Wheway, Chris F. Inglehearn, Carmel Toomes, Colin A. Johnson
Software Mentions: 7
Published: over 5 years ago

10.2196/19791

Investigating the Prevalence of Reactive Online Searching in the COVID-19 Pandemic: Infoveillance Study
Cited by: 27
Author(s): Rafael A Badell-Grau, Jordan P. Cuff, Brendan P. Kelly, Helen Waller-Evans, Emyr Lloyd-Evans
Software Mentions: 7
Published: about 4 years ago

10.2196/15554

Longitudinal Study of the Variation in Patient Turnover and Patient-to-Nurse Ratio: Descriptive Analysis of a Swiss University Hospital
Cited by: 11
Author(s): Sarah N. Musy, Olga Endrich, Alexander Benedikt Leichtle, Peter Griffiths, Christos T. Nakas, Michaël Simon
Software Mentions: 7
Published: over 4 years ago

10.1186/s12931-020-01392-2

Characterisation of microbiota in saliva, bronchoalveolar lavage fluid, non-malignant, peritumoural and tumour tissue in non-small cell lung cancer patients: a cross-sectional clinical trial
Cited by: 27
Author(s): Rea Bingula, Edith Filaire, Ioana Molnar, Eve Delmas, Jean‐Yves Berthon, Marie‐Paule Vasson, Annick Bernalier-Donadille, Marc Filaire
Software Mentions: 7
Published: over 4 years ago

10.7554/eLife.12845

Two FGFRL-Wnt circuits organize the planarian anteroposterior axis
Cited by: 90
Author(s): M. Lucila Scimone, Lauren E. Cote, Travis Rogers, Peter W. Reddien
Software Mentions: 7
Published: over 8 years ago

10.1093/g3journal/jkab025

Nested association mapping reveals the genetic architecture of spike emergence and anthesis timing in intermediate wheatgrass
Cited by: 10
Author(s): Kayla R. Altendorf, Steven R. Larson, Lee R. DeHaan, Jared Crain, Jeffrey L. Neyhart, Kevin M. Dorn, James A. Anderson
Software Mentions: 7
Published: almost 4 years ago

10.3389/fnmol.2018.00225

NFIX Circular RNA Promotes Glioma Progression by Regulating miR-34a-5p via Notch Signaling Pathway
Cited by: 86
Author(s): Haidong Xu, Yu Zhang, Qi Ling, Lijuan Ding, Hong Jiang, Haojun Yu
Software Mentions: 7
Published: over 6 years ago

10.1038/s41598-019-52294-3

Oct4-mediated reprogramming induces embryonic-like microRNA expression signatures in human fibroblasts
Cited by: 16
Author(s): Lucie Pešková, Kateřina Černá, Jan Oppelt, Marek Mráz, Tomáš Bárta
Software Mentions: 7
Published: about 5 years ago

10.7717/peerj.11219

Construction and validation of an RNA-binding protein-associated prognostic model for colorectal cancer
Cited by: 8
Author(s): Yifei Miao, Hongling Zhang, Bai-Horng Su, Jiangtao Wang, Wuxia Quan, Qiutian Li, Denghai Mi
Software Mentions: 7
Published: over 3 years ago

10.1038/s41598-021-80970-w

Breath can discriminate tuberculosis from other lower respiratory illness in children
Cited by: 19
Author(s): Carly A. Bobak, Lili Kang, Lesley Workman, Lindy Bateman, Mohammad Sharif Khan, Margaretha Prins, Lloyd May, Flavio A. Franchina, Cynthia Baard, Mark P. Nicol, Heather J. Zar, Jane E. Hill
Software Mentions: 7
Published: almost 4 years ago

10.1186/s12870-020-02808-3

Integrated Transcriptomic and Metabolomic analysis reveals a transcriptional regulation network for the biosynthesis of carotenoids and flavonoids in ‘Cara cara’ navel Orange
Cited by: 18
Author(s): Haipeng Zhang, Jiajing Chen, Zhaoxin Peng, Meiyan Shi, Xiao Liu, Wen Huang, Youwu Jiang, Yunjiang Cheng, Juan Xu, Hongyan Zhang
Software Mentions: 7
Published: almost 4 years ago

10.1371/journal.pone.0241777

Soil nematode functional diversity, successional patterns, and indicator taxa associated with vertebrate decomposition hotspots
Cited by: 7
Author(s): Lois S. Taylor, Gary L. Phillips, Ernest C. Bernard, Jennifer M. DeBruyn
Software Mentions: 7
Published: about 4 years ago

10.7554/eLife.69549

A precisely adjustable, variation-suppressed eukaryotic transcriptional controller to enable genetic discovery
Cited by: 15
Author(s): Aslı Azizoğlu, Roger Brent, Fabian Rudolf
Software Mentions: 7
Published: over 3 years ago

10.1186/s12889-021-11530-0

Onset of effects of non-pharmaceutical interventions on COVID-19 infection rates in 176 countries
Cited by: 18
Author(s): Ingo W. Nader, Elisabeth L. Zeilinger, Dana Jomar, Clemens Zauchner
Software Mentions: 7
Published: over 3 years ago

10.1002/1878-0261.12911

LncRNA NKX2‐1‐AS1 promotes tumor progression and angiogenesis via upregulation of SERPINE1 expression and activation of the VEGFR‐2 signaling pathway in gastric cancer
Cited by: 39
Author(s): Fei Teng, Ju‐Xiang Zhang, Yi Chen, Xiaodong Shen, Chang Su, Yanjiao Guo, Pu‐Hua Wang, Chencheng Shi, Ming Lei, Yiou Cao, Shao‐Qun Liu
Software Mentions: 7
Published: almost 4 years ago

10.7554/eLife.61138

The biphasic and age-dependent impact of klotho on hallmarks of aging and skeletal muscle function
Cited by: 15
Author(s): Zachary Clemens, Sruthi Sivakumar, Abish Pius, Amrita Sahu, Sunita Shinde, Hikaru Mamiya, Nathaniel Luketich, Jian Cui, Purushottam D. Dixit, Joerg D. Hoeck, Sebastian Kreuz, Michael Franti, Aaron Barchowsky, Fabrisia Ambrosio
Software Mentions: 7
Published: over 3 years ago

10.1371/journal.pone.0254293

easyFulcrum: An R package to process and analyze ecological sampling data generated using the Fulcrum mobile application
Cited by: 4
Author(s): Matteo Di Bernardo, Timothy A. Crombie, Daniel E. Cook, Erik C. Andersen
Software Mentions: 7
Published: about 3 years ago

10.1371/journal.pgen.1008265

Genome-wide discovery of the daily transcriptome, DNA regulatory elements and transcription factor occupancy in the monarch butterfly brain
Cited by: 23
Author(s): Aldrin B. Lugena, Ying Zhang, Jérôme S. Menet, Christine Merlin
Software Mentions: 7
Published: over 5 years ago

10.3389/fpsyg.2019.00413

A Shared Food Source Is Not Necessary to Elicit Inequity Aversion in Dogs
Cited by: 5
Author(s): Jim McGetrick, Sabrina Ausserwöger, Ingrid Leidinger, Claudia Attar, Friederike Range
Software Mentions: 7
Published: over 5 years ago

10.3389/fmicb.2017.02624

Characterization of the Skin Microbiota of the Cane Toad Rhinella cf. marina in Puerto Rico and Costa Rica
Cited by: 15
Author(s): Juan G. Abarca, Ibrahim Zuñiga, Gilmary Ortiz-Morales, Armando Lugo, Mariel Viquez-Cervilla, Natalia Rodríguez-Hernández, Frances Vázquez-Sánchez, Catalina Murillo‐Cruz, Ernesto A. Torres-Rivera, Adrián A. Pinto‐Tomás, Filipa Godoy-Vitorino
Software Mentions: 7
Published: almost 7 years ago

10.3389/fcimb.2020.00131

Dysbiosis in Peripheral Blood Mononuclear Cell Virome Associated With Systemic Lupus Erythematosus
Cited by: 4
Author(s): Gangqiang Guo, Lele Ye, Xinyu Shi, Kejing Yan, Jingjing Huang, Kangming Lin, Dong Xing, Sisi Ye, Yuqing Wu, Baoqing Li, Chaosheng Chen, Xiangyang Xue, Huidi Zhang
Software Mentions: 7
Published: over 4 years ago

10.7554/eLife.69661

Integrated single-cell analysis unveils diverging immune features of COVID-19, influenza, and other community-acquired pneumonia
Cited by: 9
Author(s): Alex R. Schuurman, Tom D. Y. Reijnders, Anno Saris, Ivan Ramirez‐Moral, Michiel Schinkel, Justin de Brabander, Christine van Linge, Louis Vermeulen, Brendon P. Scicluna, W. Joost Wiersinga, Felipe A. Vieira Braga, Tom van der Poll
Software Mentions: 7
Published: over 3 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: about 5 years ago

10.1080/19490976.2021.1921927

Fecal microbiota composition associates with the capacity of human peripheral blood monocytes to differentiate into immunogenic dendritic cells in vitro
Cited by: 7
Author(s): Dušan Radojević, Sergej Tomić, Dušan Mihajlović, Maja Tolinački, Bojan Pavlović, Dragana Vučević, Svetlana Bojić, Nataša Golić, Miodrag Čolić, Jelena Đokić
Software Mentions: 7
Published: almost 4 years ago

10.1002/ece3.4397

Effect of plant root symbionts on performance of native woody species in competition with an invasive grass in multispecies microcosms
Cited by: 6
Author(s): Christina Birnbaum, Tim K. Morald, Mark Tibbett, Richard G. Bennett, Rachel J. Standish
Software Mentions: 7
Published: over 6 years ago

10.1080/19490976.2021.1921924

The microbiome of deep-sea fish reveals new microbial species and a sparsity of antibiotic resistance genes
Cited by: 15
Author(s): Fergus W. J. Collins, Calum J. Walsh, Beatriz Gómez‐Sala, E. Guijarro-García, David J. Stokes, Klara B. Jakobsdóttir, Kristján Kristjánsson, Finlay Burns, Paul D. Cotter, Mary C. Rea, Colin Hill, R. Paul Ross
Software Mentions: 7
Published: almost 4 years ago

10.1371/journal.pone.0233899

Recapitulation of prostate tissue cell type-specific transcriptomes by an in vivo primary prostate tissue xenograft model
Cited by: 2
Author(s): Nelson T. Gross, Jianmin Wang, Michael V. Fiandalo, Eduardo Cortes Gomez, Anica Watts, Alejandro Godoy, Gary J. Smith, Yue Wu
Software Mentions: 7
Published: over 4 years ago

10.7717/peerj.6902

Optimizing de novo genome assembly from PCR-amplified metagenomes
Cited by: 26
Author(s): Simon Roux, Gareth Trubl, Danielle Goudeau, Nandita Nath, Estelle Couradeau, Nathan A. Ahlgren, Yuanchao Zhan, David Marsan, Feng Chen, Jed A. Fuhrman, Trent Northen, Matthew B. Sullivan, V. I. Rich, Rex R. Malmstrom, Emiley A. Eloe‐Fadrosh
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.ppat.1005438

Transcriptome-Wide Analysis of Hepatitis B Virus-Mediated Changes to Normal Hepatocyte Gene Expression
Cited by: 42
Author(s): Jason Lamontagne, Joshua Chang Mell, Michael J. Bouchard
Software Mentions: 7
Published: almost 9 years ago

10.1371/journal.pone.0106150

Towards Monitoring Biodiversity in Amazonian Forests: How Regular Samples Capture Meso-Scale Altitudinal Variation in 25 km2 Plots
Cited by: 9
Author(s): D. Ryan Norris, Marie‐Josée Fortin, William E. Magnusson
Software Mentions: 7
Published: about 10 years ago

10.1111/1751-7915.13301

Desulfitobacteriumcontributes to the microbial transformation of 2,4,5-T by methanogenic enrichment cultures from a Vietnamese active landfill
Cited by: 12
Author(s): Ute Lechner, Dominique Türkowsky, Thi Thu Hang Dinh, Hassan Al-Fathi, Stefan Schwoch, Stefan Franke, Michelle-Sophie Gerlach, Mandy Koch, Martin von Bergen, Nico Jehmlich, Thi Cam Ha Dang
Software Mentions: 7
Published: over 6 years ago

10.1128/mBio.01432-18

A Natural History of Actinic Keratosis and Cutaneous Squamous Cell Carcinoma Microbiomes
Cited by: 31
Author(s): David Wood, Nancy Lachner, Jean-Marie Tan, Stephanie Tang, Nicola Angel, Antonia Laino, Richard Linedale, Kim‐Anh Lê Cao, Mark Morrison, Ian H. Frazer, H. Peter Soyer, Philip Hugenholtz
Software Mentions: 7
Published: about 6 years ago

10.3389/fonc.2021.654185

Overexpression of GINS4 Is Associated With Tumor Progression and Poor Survival in Hepatocellular Carcinoma
Cited by: 6
Author(s): Ziying Zhang, Peng Chen, Hui Xie, Peiguo Cao
Software Mentions: 7
Published: over 3 years ago

10.1128/mBio.00630-18

Leveraging Existing 16S rRNA Gene Surveys To Identify Reproducible Biomarkers in Individuals with Colorectal Tumors
Cited by: 34
Author(s): Marc A. Sze, Patrick D. Schloss
Software Mentions: 7
Published: over 6 years ago

10.1371/journal.pone.0245989

Effect of pre-operative bicarbonate infusion on maternal and perinatal outcomes among women with obstructed labour in Mbale hospital: A double blind randomized controlled trial
Cited by: 5
Author(s): Milton W. Musaba, Julius Wandabwa, Grace Ndeezi, Andrew Weeks, David Mukunya, Paul Waako, Victoria Nankabirwa, Kenneth Mugabe, Daniel Semakula, James K Tumwine, Justus K. Barageine
Software Mentions: 7
Published: almost 4 years ago

10.1371/journal.pone.0086986

Revealing Individual Signatures of Human T Cell CDR3 Sequence Repertoires with Kidera Factors
Cited by: 9
Author(s): Michael Epstein, Martino Barenco, Nigel Klein, Michael Hubank, Robin E. Callard
Software Mentions: 7
Published: almost 11 years ago

10.1128/mBio.00764-17

Drought Stress Results in a Compartment-Specific Restructuring of the Rice Root-Associated Microbiomes
Cited by: 278
Author(s): Christian Santos‐Medellín, Joseph Edwards, Zachary Liechty, Bao‐Anh Thi Nguyen, Venkatesan Sundaresan
Software Mentions: 7
Published: about 7 years ago

10.1371/journal.pone.0230767

The design and implementation of restraint devices for the injection of pathogenic microorganisms into Galleria mellonella
Cited by: 8
Author(s): Lance R. Fredericks, Mark D. Lee, Cooper R. Roslund, Angela Crabtree, Peter B. Allen, Paul A. Rowley
Software Mentions: 7
Published: over 4 years ago

10.1186/s12942-019-0177-9

Using data from online geocoding services for the assessment of environmental obesogenic factors: a feasibility study
Cited by: 13
Author(s): Maximilian Präger, Christoph Kurz, Julian Böhm, Michael Laxy, Werner Maier
Software Mentions: 7
Published: over 5 years ago

10.1007/s00572-020-01001-6

Phosphate availability and ectomycorrhizal symbiosis with Pinus sylvestris have independent effects on the Paxillus involutus transcriptome
Cited by: 6
Author(s): Christina Paparokidou, Jonathan R. Leake, David J. Beerling, Stephen A. Rolfe
Software Mentions: 7
Published: about 4 years ago

10.3390/nu12113444

Fructose-Induced Intestinal Microbiota Shift Following Two Types of Short-Term High-Fructose Dietary Phases
Cited by: 31
Author(s): Julia Beisner, Anita Gonzalez‐Granda, Maryam Basrai, Antje Damms-Machado, Stephan C. Bischoff
Software Mentions: 7
Published: about 4 years ago

10.1038/s41598-021-88694-7

Tumor mutation burden (TMB)-associated signature constructed to predict survival of lung squamous cell carcinoma patients
Cited by: 13
Author(s): Yan Duan, Yi Chen
Software Mentions: 7
Published: over 3 years ago

10.1186/s12942-019-0173-0

Citizen science informs human-tick exposure in the Northeastern United States
Cited by: 37
Author(s): W. Tanner Porter, Peter J. Motyka, Julie Wachara, Zachary A. Barrand, Zahraa Hmood, Marya McLaughlin, Kelsey Pemberton, Nathan C. Nieto
Software Mentions: 7
Published: over 5 years ago

10.7717/peerj.11894

Identification of a circRNA-miRNA-mRNA regulatory network for exploring novel therapeutic options for glioma
Cited by: 4
Author(s): Yi He, Yihong Chen, Yuxin Tong, Wenyong Long, Qing Liu
Software Mentions: 7
Published: over 3 years ago

10.1007/s11605-020-04836-8

Endoscopic Resection Without Subsequent Ablation Therapy for Early Barrett’s Neoplasia: Endoscopic Findings and Long-Term Mortality
Cited by: 7
Author(s): Sanne N. van Munster, Esther Nieuwenhuis, Bas L. Weusten, Lorenza Alvarez Herrero, Auke Bogte, A. Alkhalaf, B.E. Schenk, Erik J. Schoon, Wouter L. Curvers, Arjun D. Koch, Steffi Elisabeth Maria van de Ven, P.J.F. de Jonge, Thjon J. Tang, WB Nagengast, Frans Peters, Jessie Westerhof, Martin H. Houben, Jacques Bergman, Roos E. Pouw
Software Mentions: 7
Published: about 4 years ago

10.3389/fmolb.2021.656145

Identification and Exploration of Novel Macrophage M2-Related Biomarkers and Potential Therapeutic Agents in Endometriosis
Cited by: 10
Author(s): Zhongqi Cui, Ramesh Singh Bhandari, Lei Qin, Mingzhi Lu, Lei Zhang, Mengmei Zhang, Fenyong Sun, Lijin Feng, Shasha Zhao
Software Mentions: 7
Published: over 3 years ago

10.3390/jcm10173971

A Target for Increased Mortality Risk in Critically Ill Patients: The Concept of Perpetuity
Cited by: 1
Author(s): Jarrod Mosier, Julia M. Fisher, Cameron Hypes, Edward J. Bedrick, Elizabeth Salvagio Campbell, Karen Lutrick, Charles B. Cairns
Software Mentions: 7
Published: about 3 years ago

10.1097/MD.0000000000024184

Screening the key genes of prognostic value in the microenvironment for head and neck squamous cell carcinoma
Cited by: 4
Author(s): Di Meng, Tongjun Liu, Feng Ma, Mingguo Wang
Software Mentions: 7
Published: almost 4 years ago

10.3390/vaccines7030113

TIV Vaccination Modulates Host Responses to Influenza Virus Infection that Correlate with Protection against Bacterial Superinfection
Cited by: 5
Author(s): Angela Choi, Ioanna Christopoulou, Xavier Saelens, Adolfo Garcı́a-Sastre, Michael Schotsaert
Software Mentions: 7
Published: about 5 years ago

10.7717/peerj.7233

An artificial-vision- and statistical-learning-based method for studying the biodegradation of type I collagen scaffolds in bone regeneration systems
Cited by: 9
Author(s): Y. Robles-Bykbaev, Salvador Naya, Silvia Díaz‐Prado, D. Calle-Lopez, Vladimir Robles-Bykbaev, Luis Garzón, Clara Sanjurjo‐Rodríguez, Javier Tarrío-Saavedra
Software Mentions: 7
Published: over 5 years ago

10.1038/s41598-019-46118-7

Unraveling the effects of the gut microbiota composition and function on horse endurance physiology
Cited by: 24
Author(s): Sandra Plancade, Allison Clark, Catherine Philippe, Jean‐Christophe Helbling, Marie‐Pierre Moisan, Diane Esquerré, Laurence Le Moyec, Céline Robert, Éric Barrey, Núria Mach
Software Mentions: 7
Published: over 5 years ago

10.3389/fgene.2020.00936

NRG1, PIP4K2A, and HTR2C as Potential Candidate Biomarker Genes for Several Clinical Subphenotypes of Depression and Bipolar Disorder
Cited by: 13
Author(s): Аnastasia Levchenko, N. Vyalova, Timur Nurgaliev, Ivan V Pozhidaev, German G. Simutkin, Н. А. Бохан, Светлана Иванова
Software Mentions: 7
Published: over 4 years ago

10.3390/md18080379

Laminariales Host Does Impact Lipid Temperature Trajectories of the Fungal Endophyte Paradendryphiella salina (Sutherland.)
Cited by: 2
Author(s): Marine Vallet, Tarik Méziane, Najet Thiney, Soizic Prado, Cédric Hubas
Software Mentions: 7
Published: over 4 years ago

10.3389/fpls.2020.602645

Bradyrhizobium as the Only Rhizobial Inhabitant of Mung Bean (Vigna radiata) Nodules in Tropical Soils: A Strategy Based on Microbiome for Improving Biological Nitrogen Fixation Using Bio-Products
Cited by: 11
Author(s): Vinício Oliosi Favero, Rita Hilário de Carvalho, Victória Monteiro da Motta, Ana Beatriz Carneiro Leite, Márcia Reed Rodrigues Coelho, Gustavo Ribeiro Xavier, Norma Gouvêa Rumjanek, Segundo Urquiaga
Software Mentions: 7
Published: almost 4 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: about 4 years ago

10.7717/peerj.9493

Microbial and chemical dynamics of a toxic dinoflagellate bloom
Cited by: 9
Author(s): Nastassia V. Patin, Emily R. Brown, Gabriella Chebli, Claire Garfield, Julia Kubanek, Frank J. Stewart
Software Mentions: 7
Published: over 4 years ago

10.1186/s10020-019-0093-2

IgG Galactosylation status combined with MYOM2-rs2294066 precisely predicts anti-TNF response in ankylosing spondylitis
Cited by: 12
Author(s): Jing Liu, Qi Zhu, Jing Han, Hui Zhang, Yuan Li, Yanyun Ma, Dongyi He, Jianxin Gu, Xiaodong Zhou, John D. Reveille, Li Jin, Hejian Zou, Shifang Ren, Jiucun Wang
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.pone.0216229

Effects of cropping, smoothing, triangle count, and mesh resolution on 6 dental topographic metrics
Cited by: 23
Author(s): Michael A. Berthaume, Julia M. Winchester, Kornelius Kupczik
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.pone.0204076

The Arctic charr (Salvelinus alpinus) genome and transcriptome assembly
Cited by: 62
Author(s): Kris A. Christensen, Eric B. Rondeau, David R. Minkley, Jong S. Leong, Cameron M. Nugent, Roy G. Danzmann, Moira M. Ferguson, Agnieszka Stadnik, Robert H. Devlin, Robin Muzzerall, Michael G. Edwards, William S. Davidson, Ben F. Koop
Software Mentions: 7
Published: about 6 years ago

10.3389/fimmu.2021.645320

Effects of Hypoxia in Intestinal Tumors on Immune Cell Behavior in the Tumor Microenvironment
Cited by: 14
Author(s): Luping Zhang, Shaokun Wang, Yachen Wang, Wenjie Zhao, Yingli Zhang, Nan Zhang, Hong Xu
Software Mentions: 7
Published: over 3 years ago

10.1038/s41598-019-42784-9

Transcriptomic profiles conducive to immune-mediated tumor rejection in human breast cancer skin metastases treated with Imiquimod
Cited by: 23
Author(s): Mariya Rozenblit, Wouter Hendrickx, Adriana Heguy, Luis Chiriboga, Cynthia A. Loomis, Karina Ray, Farbod Darvishian, Mikala Egeblad, Sandra Demaria, Francesco M. Marincola, Davide Bedognetti, Sylvia Adams
Software Mentions: 7
Published: over 5 years ago

10.1038/s41598-017-10853-6

The Schistosoma mansoni genome encodes thousands of long non-coding RNAs predicted to be functional at different parasite life-cycle stages
Cited by: 39
Author(s): Elton J. R. Vasconcelos, Luis DaSilva, David S. Pires, Guilherme M. Lavezzo, Adriana S. A. Pereira, Murilo Sena Amaral, Sérgio Verjovski-Almeida
Software Mentions: 7
Published: about 7 years ago

10.15252/msb.20177881

High‐resolution definition of humoral immune response correlates of effective immunity against <scp>HIV</scp>
Cited by: 33
Author(s): Galit Alter, Karen G. Dowell, Eric N. Brown, Todd J. Suscovich, Anastassia Mikhailova, Alison E. Mahan, Bruce D. Walker, Falk Nimmerjahn, Chris Bailey‐Kellogg, Margaret E. Ackerman
Software Mentions: 7
Published: over 6 years ago

10.7717/peerj.7863

Manx shearwater (Puffinus puffinus) rafting behaviour revealed by GPS tracking and behavioural observations
Cited by: 6
Author(s): Cerren Richards, Oliver Padget, Tim Guilford, Amanda E. Bates
Software Mentions: 7
Published: about 5 years ago

10.7717/peerj.2574

YUCCAauxin biosynthetic genes are required for Arabidopsis shade avoidance
Cited by: 60
Author(s): Patricia Müller-Moulé, Kazunari Nozue, Melissa L Pytlak, Christine M. Palmer, Michael F. Covington, Andreah D. Wallace, Stacey L. Harmer, Julin Maloof
Software Mentions: 7
Published: about 8 years ago

10.1161/CIRCULATIONAHA.117.028084

Direct Comparison of Cardiac Myosin-Binding Protein C With Cardiac Troponins for the Early Diagnosis of Acute Myocardial Infarction
Cited by: 57
Author(s): Thomas E Kaier, Raphael Twerenbold, Christian Puelacher, Jack Marjot, Nazia Imambaccus, Jasper Boeddinghaus, Thomas Nestelberger, Patrick Badertscher, Zaid Sabti, María Rubini Giménez, Karin Wildi, Petra Hillinger, Karin Grimm, Sarah Loeffel, Samyut Shrestha, Dayana Flores, Janosch Cupa, Nikola Kozhuharov, Òscar Miró, Francisco Javier Martín‐Sánchez, Beata Morawiec, Katharina Rentsch, Jens Lohrmann, Wanda Kloos, Stefan Oßwald, Tobias Reichlin, Ekkehard Weber, Michael Marber, Christian Müeller
Software Mentions: 7
Published: about 7 years ago

10.3389/fmicb.2019.00675

Influence of Urbanization on Epiphytic Bacterial Communities of the Platanus × hispanica Tree Leaves in a Biennial Study
Cited by: 29
Author(s): Jordan Espenshade, Sofie Thijs, S.W. Gawroński, Hannelore Bové, Nele Weyens, Jaco Vangronsveld
Software Mentions: 7
Published: over 5 years ago

10.7554/eLife.35690

Selective increases in inter-individual variability in response to environmental enrichment in female mice
Cited by: 41
Author(s): Julia Körholz, Sara Zocher, Anna N. Grzyb, Benjamin Morisse, Alexandra Poetzsch, Fanny Ehret, Christopher Schmied, Gerd Kempermann
Software Mentions: 7
Published: about 6 years ago

10.1038/s41398-020-01176-8

The placenta protects the fetal circulation from anxiety-driven elevations in maternal serum levels of brain-derived neurotrophic factor
Cited by: 7
Author(s): Hayley Dingsdale, Xinsheng Nan, Samantha M. Garay, Annett Mueller, Lorna Sumption, Pedro Chacón-Fernández, Isabel Martinez‐Garay, Cédric Ghevaert, Yves‐Alain Barde, John Roshan
Software Mentions: 7
Published: almost 4 years ago

10.3389/fmolb.2020.587822

A Novel Prognostic Model of Endometrial Carcinoma Based on Clinical Variables and Oncogenomic Gene Signature
Cited by: 5
Author(s): Fang Deng, Jing Mu, Changzheng Qu, Fang Yang, Xing Liu, Xiaomin Zhang, Xiaoning Peng
Software Mentions: 7
Published: almost 4 years ago

10.7554/eLife.31977

Integration of human pancreatic islet genomic data refines regulatory mechanisms at Type 2 Diabetes susceptibility loci
Cited by: 101
Author(s): Matthias Thurner, Martijn van de Bunt, Jason Torres, Anubha Mahajan, Vibe Nylander, Amanda J. Bennett, Kyle J. Gaulton, Amy Barrett, Carla Burrows, Christopher G. Bell, Robert Lowe, Stephan Beck, Vardhman K. Rakyan, Anna L. Gloyn, Mark I. McCarthy
Software Mentions: 7
Published: almost 7 years ago

10.3390/nu10091248

Effect of Whey Protein Supplementation on Physical Performance and Body Composition in Army Initial Entry Training Soldiers
Cited by: 15
Author(s): Jeremy McAdam, Kaitlin McGinnis, Darren T. Beck, Cody T. Haun, Matthew A. Romero, Petey W. Mumford, Paul A. Roberson, Kaelin C. Young, Keith R. Lohse, Lockwood Cm, Michael D. Roberts, Jo Ellen M. Sefton
Software Mentions: 7
Published: about 6 years ago

10.1038/srep45369

Soil classification predicts differences in prokaryotic communities across a range of geographically distant soils once pH is accounted for
Cited by: 12
Author(s): Rachel Kaminsky, Blandine Trouche, Sergio E. Morales
Software Mentions: 7
Published: over 7 years ago

10.1038/srep39527

Synergetic effects of DNA methylation and histone modification during mouse induced pluripotent stem cell generation
Cited by: 13
Author(s): Guiying Wang, Rong Weng, Yuanyuan Lan, Xudong Guo, Qidong Liu, Xiaoqin Liu, Chenqi Lu, Jiuhong Kang
Software Mentions: 7
Published: almost 8 years ago

10.1038/srep41531

Transcriptomic analysis of common carp anterior kidney during Cyprinid herpesvirus 3 infection: Immunoglobulin repertoire and homologue functional divergence
Cited by: 23
Author(s): Matthew J. Neave, Agus Sunarto, Kenneth A. McColl
Software Mentions: 7
Published: almost 8 years ago

10.1002/cti2.1127

High‐dimensional analyses reveal a distinct role of T‐cell subsets in the immune microenvironment of gastric cancer
Cited by: 18
Author(s): Minyu Wang, Yen-Yu Huang, Joseph C Kong, Yu Sun, Daniela Tantalo, Han Xian Aw Yeang, Le Ying, Feng Yan, Dakang Xu, Heloise M. Halse, Natasha Di Costanzo, Ian Gordon, Catherine Mitchell, Laura K. Mackay, Rita A. Busuttil, Paul J. Neeson, Alex Boussioutas
Software Mentions: 7
Published: almost 5 years ago

10.3389/fgene.2020.612037

An Immune Gene-Related Five-lncRNA Signature for to Predict Glioma Prognosis
Cited by: 20
Author(s): Xinzhuang Wang, Ming Gao, Junyi Ye, Qiuyi Jiang, Quan Yang, Cheng Zhang, Shengtao Wang, Jian Zhang, Ligang Wang, Jianing Wu, Hua Zhan, Xu Hou, Dayong Han, Shen Zhao
Software Mentions: 7
Published: almost 4 years ago

10.3389/fgene.2019.00971

Assessing the Impact of Sample Heterogeneity on Transcriptome Analysis of Human Diseases Using MDP Webtool
Cited by: 15
Author(s): André Nicolau Aquime Gonçalves, Melissa Lever, Pedro Russo, Bruno Gomes-Correia, Alysson H. Urbanski, Gabriele Pollara, Mahdad Noursadeghi, Vinicius Maracaja‐Coutinho, Helder I. Nakaya
Software Mentions: 7
Published: about 5 years ago

10.1515/tnsci-2021-0002

IKBIP is a novel EMT-related biomarker and predicts poor survival in glioma
Cited by: 9
Author(s): Ying Yang, Jin Wang, Shi‐Hai Xu, Wen Lv, Fei Shi, Aijun Shan
Software Mentions: 7
Published: almost 4 years ago

10.3389/fpsyt.2021.668297

Estimating the Prevalence and Genetic Risk Mechanisms of ARFID in a Large Autism Cohort
Cited by: 26
Author(s): Tanner Koomar, Taylor Thomas, Natalie R. Pottschmidt, Michael Lutter, Jacob J. Michaelson
Software Mentions: 7
Published: over 3 years ago

10.7717/peerj.6687

A longitudinal study of the faecal microbiome and metabolome of periparturient mares
Cited by: 11
Author(s): Shebl E. Salem, Rachael Hough, Chris Probert, Thomas W. Maddox, Philipp Antczak, Julian M. Ketley, Nicola Williams, Sarah J. Stoneham, Debra Archer
Software Mentions: 7
Published: over 5 years ago

10.1525/collabra.116

Individual Importance Weighting of Domain Satisfaction Ratings does Not Increase Validity
Cited by: 21
Author(s): Julia M. Rohrer, Stefan C. Schmukle
Software Mentions: 7
Published: almost 7 years ago

10.15252/msb.20209652

A substrate‐based ontology for human solute carriers
Cited by: 24
Author(s): Eva Meixner, Ulrich Goldmann, Vitaly Sedlyarov, Stefania Scorzoni, Manuele Rebsamen, Enrico Gottardi, Giulio Superti‐Furga
Software Mentions: 7
Published: over 4 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: over 3 years ago

10.1038/s42003-020-01626-5

Mash-based analyses of Escherichia coli genomes reveal 14 distinct phylogroups
Cited by: 44
Author(s): Kaleb Z. Abram, Zulema Udaondo, Carissa Bleker, Visanu Wanchai, Trudy M. Wassenaar, Michael S. Robeson, David W. Ussery
Software Mentions: 7
Published: almost 4 years ago

10.7717/peerj.1871

Assessing migration patterns inPasserina cirisusing the world’s bird collections as an aggregated resource
Cited by: 8
Author(s): Ethan Linck, Eli S. Bridge, Jonah M. Duckles, Adolfo G. Navarro‐Sigüenza, Sievert Rohwer
Software Mentions: 7
Published: over 8 years ago

10.1038/s42003-020-01174-y

Chemically induced mutations in a MutaMouse reporter gene inform mechanisms underlying human cancer mutational signatures
Cited by: 12
Author(s): Marc A. Beal, Matthew J. Meier, Danielle P. LeBlanc, Clotilde Maurice, Jason M. O’Brien, Carole L. Yauk, Francesco Marchetti
Software Mentions: 7
Published: over 4 years ago

10.3389/fmicb.2020.628755

Horizontal Transmission of the Heritable Protective Endosymbiont Hamiltonella defensa Depends on Titre and Haplotype
Cited by: 11
Author(s): Heidi Kaech, Christoph Vorburger
Software Mentions: 7
Published: almost 4 years ago

10.1038/srep29042

Integrating roots into a whole plant network of flowering time genes in Arabidopsis thaliana
Cited by: 35
Author(s): Frédéric Bouché, Maria D’Aloia, Pierre Tocquin, Guillaume Lobet, Nathalie Detry, Claire Périlleux
Software Mentions: 7
Published: over 8 years ago

10.3389/fgene.2021.678780

Identification of a Four-Gene Signature With Prognostic Significance in Endometrial Cancer Using Weighted-Gene Correlation Network Analysis
Cited by: 7
Author(s): Shijin Huang, Lihong Pang, Changqiang Wei
Software Mentions: 7
Published: about 3 years ago

10.3389/fgene.2020.00396

Single-Cell Transcriptomic Analysis Reveals Mitochondrial Dynamics in Oocytes of Patients With Polycystic Ovary Syndrome
Cited by: 34
Author(s): Lingbin Qi, Boxuan Liu, Xian Chen, Qiwei Liu, Wanqiong Li, Bo Lv, Xiaoyu Xu, Lu Wang, Qiao Zeng, Jinfeng Xue, Zhigang Xue
Software Mentions: 7
Published: over 4 years ago

10.7554/eLife.59654

HNRNPM controls circRNA biogenesis and splicing fidelity to sustain cancer cell fitness
Cited by: 19
Author(s): Jessica Sy Ho, Federico Di Tullio, Megan Schwarz, Diana Low, Danny Incarnato, Tommaso Tabaglio, Jingxian Zhang, Heike Wollmann, Leilei Chen, Ömer An, Tim Chan, Alexander Hall Hickman, Simin Zheng, Vladimir Roudko, Sujun Chen, Alcida Karz, Musaddeque Ahmed, Housheng Hansen He, Benjamin Greenbaum, Salvatore Oliviero, Michela Serresi, Gaetano Gargiulo, Karen Mann, Eva Hernando, David J. Mulholland, Ivan Marazzi, Dave Keng Boon Wee, Ernesto Guccione
Software Mentions: 7
Published: over 3 years ago

10.3390/jcm9082426

Sex-Specific Prognostic Implications in Dilated Cardiomyopathy After Left Ventricular Reverse Remodeling
Cited by: 9
Author(s): Antonio Cannatà, Paolo Manca, Vincenzo Nuzzi, Caterina Gregorio, Jessica Artico, Piero Gentile, Carola Pio Loco, Federica Ramani, Giulia Barbati, Marco Merlo, Gianfranco Sinagra
Software Mentions: 7
Published: over 4 years ago

10.1186/s12870-019-1791-1

Size matters: three methods for estimating nuclear size in mycorrhizal roots of Medicago truncatula by image analysis
Cited by: 9
Author(s): Gennaro Carotenuto, Ivan Arcangelo Sciascia, Ludovica Oddi, Veronica Volpe, Andrea Genre
Software Mentions: 7
Published: over 5 years ago

Projects: cran: ggplot2

Papers Mentioning ggplot2 11,441