cran: VennDiagram | Projects | Ecosyste.ms: Papers

10.1186/s12935-021-02086-5

PODN is a prognostic biomarker and correlated with immune infiltrates in osteosarcoma
Cited by: 9
Author(s): Feng Yao, Zhenxin Zhu, Jun Wen, Fu Yong Zhang, Zheng Zhang, Lei Zhu, Guang Hao Su, Quan Yuan, Yun Fang Zhen, Xiao Dong Wang
Software Mentions: 7
Published: over 3 years ago

10.1186/s12864-018-4805-8

Transcription profiling of butanol producer Clostridium beijerinckii NRRL B-598 using RNA-Seq
Cited by: 14
Author(s): Karel Sedlář, Pavlína Koščová, Maryna Vasylkivska, Barbora Branská, Jan Kolek, Kristyna Kupkova, Petra Patáková, Ivo Provazník
Software Mentions: 7
Published: over 6 years ago

10.1186/s12935-021-01774-6

Tumor mutation burden in connection with immune-related survival in uterine corpus endometrial carcinoma
Cited by: 14
Author(s): Ling Zhao, Xueshu Fu, Xiling Han, Yu Yao, Yaping Ye, Jun Gao
Software Mentions: 7
Published: almost 4 years ago

10.3390/jcm9061974

Dysregulation of microRNA Modulatory Network in Abdominal Aortic Aneurysm
Cited by: 13
Author(s): Daniel Zalewski, Karol P Ruszel, Andrzej Stępniewski, Dariusz Gałkowski, Jacek Bogucki, Łukasz Komsta, Przemysław Kołodziej, Paulina Chmiel, Tomasz Zubilewicz, Marcin Feldo, Janusz Kocki, Anna Bogucka‐Kocka
Software Mentions: 7
Published: over 4 years ago

10.1186/s12864-021-07766-0

Genome analysis of Pseudomonas sp. OF001 and Rubrivivax sp. A210 suggests multicopper oxidases catalyze manganese oxidation required for cylindrospermopsin transformation
Cited by: 0
Author(s): Erika Berenice Martínez-Ruiz, Myriel Cooper, Jimena Barrero-Canosa, Mindia Haryono, Irina Bessarab, Rohan B. H. Williams, Ulrich Szewzyk
Software Mentions: 7
Published: over 3 years ago

10.1042/BSR20203336

Comprehensive analysis of tumor mutation burden and immune microenvironment in gastric cancer
Cited by: 17
Author(s): Jie Yu, QianYun Zhang, Mengchuan Wang, Shi-Dong Liang, Hongyun Huang, Lang Xie, Chunhui Cui
Software Mentions: 7
Published: almost 4 years ago

10.15252/emmm.201910812

Synthetic lethality between <scp>VPS</scp> 4A and <scp>VPS</scp> 4B triggers an inflammatory response in colorectal cancer
Cited by: 26
Author(s): Ewelina Szymańska, Paulina Nowak, Krzysztof Kolmus, Magdalena Cybulska, Krzysztof Goryca, Edyta Derezińska-Wołek, Anna Szumera‐Ciećkiewicz, Marta Brewinska‐Olchowik, Aleksandra Grochowska, Katarzyna Piwocka, Monika Prochorec‐Sobieszek, Michał Mikula, Marta Miączyńska
Software Mentions: 7
Published: almost 5 years ago

10.1080/19490976.2020.1794466

Alterations of gut microbiota composition in neonates conceived by assisted reproductive technology and its relation to infant growth
Cited by: 6
Author(s): Qun Lü, Yuan Lin, Ting Chen, Hong Lv, Feiyang Diao, Cong Liu, Meijuan Peng, Xiufeng Ling, Hong Li, Yun Wang, Yongyue Wei, Jiangbo Du, Guangfu Jin, Yankai Xia, Hongxia Ma, Xingyin Liu, Hongbing Shen, Zhibin Hu
Software Mentions: 7
Published: over 4 years ago

10.1186/s13075-016-1120-0

A discrete cluster of urinary biomarkers discriminates between active systemic lupus erythematosus patients with and without glomerulonephritis
Cited by: 25
Author(s): Carolina Landolt-Marticorena, Stephenie D. Prokopec, Stacey Morrison, Babak Noamani, Dennisse Bonilla, Heather N. Reich, James W. Scholey, Carmen Ávila-Casado, Paul R. Fortin, Paul C. Boutros, Joan E. Wither
Software Mentions: 7
Published: about 8 years ago

10.3389/fgene.2021.737656

Integrated Analysis of the Expression Characteristics, Prognostic Value, and Immune Characteristics of PPARG in Breast Cancer
Cited by: 5
Author(s): Jianbin Wu, Mingmin Luo, Zhuangwei Chen, Lei Li, Xiaoxi Huang
Software Mentions: 7
Published: about 3 years ago

10.1128/AEM.00646-21

Spatial and Temporal Dynamics of Prokaryotic and Viral Community Assemblages in a Lotic System (Manatee Springs, Florida)
Cited by: 8
Author(s): Kema Malki, Natalie A. Sawaya, Michael J. Tisza, Felipe H. Coutinho, Karyna Rosario, Anna J. Székely, Mya Breitbart
Software Mentions: 7
Published: about 3 years ago

10.3389/fpls.2021.637115

The Molecular Basis of Kale Domestication: Transcriptional Profiling of Developing Leaves Provides New Insights Into the Evolution of a Brassica oleracea Vegetative Morphotype
Cited by: 9
Author(s): Tatiana Arias, Chad E. Niederhuth, Paula McSteen, J. Chris Pires
Software Mentions: 7
Published: over 3 years ago

10.3389/fphar.2020.00076

Efficacy of Chinese Herbal Formula Sini Zuojin Decoction in Treating Gastroesophageal Reflux Disease: Clinical Evidence and Potential Mechanisms
Cited by: 10
Author(s): Shaowei Li, Mengfen Huang, Guojing Wu, Wei-Han Huang, Zhanhui Huang, Xiaoqian Yang, Jinming Ou, Qipeng Wei, Chengli Liu, YU Shaoyuan
Software Mentions: 7
Published: over 4 years ago

10.1186/s13059-021-02372-5

Dynamics of alternative splicing during somatic cell reprogramming reveals functions for RNA-binding proteins CPSF3, hnRNP UL1, and TIA1
Cited by: 11
Author(s): Claudia Vivori, Panagiotis Papasaikas, Ralph Stadhouders, Bruno Di Stefano, Anna Ribó Rubio, Clara Berenguer Balaguer, Serena Francesca Generoso, Anna Mallol, José Luis Sardina, Bernhard Payer, Thomas Graf, Juan Valcárcel
Software Mentions: 7
Published: over 3 years ago

10.1186/s13054-021-03503-x

Fluid proteomics of CSF and serum reveal important neuroinflammatory proteins in blood–brain barrier disruption and outcome prediction following severe traumatic brain injury: a prospective, observational study
Cited by: 26
Author(s): Caroline Lindblad, Elisa Pin, David R. Just, Faiez Al Nimer, Peter Nilsson, Bo‐Michael Bellander, Mikael Svensson, Fredrik Piehl, Eric Peter Thelin
Software Mentions: 7
Published: over 3 years ago

10.3390/microorganisms9081642

Culture-Independent and Culture-Dependent Characterization of the Black Soldier Fly Gut Microbiome Reveals a Large Proportion of Culturable Bacteria with Potential for Industrial Applications
Cited by: 20
Author(s): Dorothee Tegtmeier, Sabine Hurka, Sanja Mihajlović, Maren Bodenschatz, Stephanie Schlimbach, Andreas Vilcinskas
Software Mentions: 7
Published: over 3 years ago

10.3390/microorganisms8101505

Reanalysis of Gene Expression Profiles of CD4+ T Cells Treated with HIV-1 Latency Reversal Agents
Cited by: 3
Author(s): Antônio Victor Campos Coelho, Romero Marinho de Moura, Sérgio Crovella
Software Mentions: 7
Published: about 4 years ago

10.1371/journal.pone.0227434

Comparing bioinformatic pipelines for microbial 16S rRNA amplicon sequencing
Cited by: 237
Author(s): Andrei Prodan, Valentina Tremaroli, Harald Brolin, Aeilko H. Zwinderman, Max Nieuwdorp, Evgeni Levin
Software Mentions: 7
Published: almost 5 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

10.3389/fcell.2019.00283

A Combined Mass Spectrometry and Data Integration Approach to Predict the Mitochondrial Poly(A) RNA Interacting Proteome
Cited by: 2
Author(s): Selma L van Esveld, Şirin Cansız-Arda, Fenna Hensen, Robin van der Lee, Martijn Huynen, Johannes N. Spelbrink
Software Mentions: 7
Published: about 5 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

10.1186/s12864-019-6162-7

Transcriptome analysis of the differential effect of the NADPH oxidase gene RbohB in Phaseolus vulgaris roots following Rhizobium tropici and Rhizophagus irregularis inoculation
Cited by: 11
Author(s): Citlali Fonseca-García, Alejandra E. Zayas, Jesús Montiel, Noreide Nava, Federico Sánchez, Carmen Quinto
Software Mentions: 7
Published: about 5 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

10.1371/journal.pone.0201751

Pancreatic cancer survival analysis defines a signature that predicts outcome
Cited by: 52
Author(s): Pichai Raman, Ravikanth Maddipati, Kian Huat Lim, Aydın Tözeren
Software Mentions: 7
Published: over 6 years ago

10.1371/journal.pone.0230218

Identification of a master transcription factor and a regulatory mechanism for desiccation tolerance in the anhydrobiotic cell line Pv11
Cited by: 10
Author(s): Takahiro Yamada, Yusuke Hiki, Noriko Hiroi, Elena Shagimardanova, Oleg Gusev, Richard Cornette, Takahiro Kikawada, Akira Funahashi
Software Mentions: 7
Published: over 4 years ago

10.1038/s41598-020-70318-1

The role of seagrass vegetation and local environmental conditions in shaping benthic bacterial and macroinvertebrate communities in a tropical coastal lagoon
Cited by: 25
Author(s): Zahra Hassan Ali Alsaffar, John K. Pearman, J. Cúrdia, Joanne I. Ellis, María Ll. Calleja, Pedro Ruiz-Compean, Florian Roth, Rodrigo Villalobos, Burton H. Jones, Xosé Anxelu G. Morán, Susana Carvalho
Software Mentions: 7
Published: over 4 years ago

10.1242/dmm.039297

Genome-wide analysis of androgen receptor binding and transcriptomic analysis in mesenchymal subsets during prostate development
Cited by: 10
Author(s): Christopher Nash, Nadia Boufaied, Dunarel Badescu, Yu Chang Wang, Miltiadis Paliouras, Mark Trifiro, Jiannis Ragoussis, Axel A. Thomson
Software Mentions: 7
Published: over 5 years ago

10.1111/1751-7915.13634

Soil microbiota influences clubroot disease by modulating Plasmodiophora brassicae and Brassica napus transcriptomes
Cited by: 19
Author(s): Stéphanie Daval, Kévin Gazengel, Arnaud Belcour, Juliette Linglin, Anne‐Yvonne Guillerm‐Erckelboudt, Alain Sarniguet, Maria Manzanares-Dauleux, Lionel Lebreton, Christophe Mougel
Software Mentions: 7
Published: over 4 years ago

10.3389/fphar.2021.688528

Explore the Usefulness of Concurrent Chemotherapy in Stage II Nasopharyngeal Carcinoma: A Retrospective Study
Cited by: 3
Author(s): Peijing Li, YuLin Lai, Fang He, Yuan-Yuan Chen, Zhuo‐Sheng Gu, Wei Luo, Qun Zhang
Software Mentions: 7
Published: about 3 years ago

10.1016/j.celrep.2020.107930

Pseudo-RNA-Binding Domains Mediate RNA Structure Specificity in Upstream of N-Ras
Cited by: 17
Author(s): Nele Merret Hollmann, Pravin Kumar Ankush Jagtap, Paweł Masiewicz, Tanit Guitart, Bernd Simon, Jan Provazník, Frank Stein, Per Haberkant, Lara Sweetapple, Laura Villacorta, Dylan Mooijman, Vladimı́r Beneš, Mikhail M. Savitski, Fátima Gebauer, Janosch Hennig
Software Mentions: 7
Published: over 4 years ago

10.7717/peerj.3730

Uncovering unseen fungal diversity from plant DNA banks
Cited by: 16
Author(s): Erin M. Datlof, Anthony S. Amend, Kamala Earl, J. Hayward, Clifford W. Morden, Rachael Wade, Geoffrey Zahn, Nicole A. Hynson
Software Mentions: 6
Published: about 7 years ago

10.1155/2020/8182358

Two Gene Set Variation Index as Biomarker of Bacterial and Fungal Sepsis
Cited by: 4
Author(s): Xiaowen Zheng, Yifeng Luo, Qian Li, Jihua Feng, Chunling Zhao, Junyu Lu, Jiefeng Luo, Jianfeng Zhang
Software Mentions: 6
Published: over 4 years ago

10.1038/s41598-018-25450-4

Feminizing Wolbachia influence microbiota composition in the terrestrial isopod Armadillidium vulgare
Cited by: 34
Author(s): Jessica Dittmer, Didier Bouchon
Software Mentions: 6
Published: over 6 years ago

10.7717/peerj.9975

Identification of NUF2 and FAM83D as potential biomarkers in triple-negative breast cancer
Cited by: 11
Author(s): Xiuming Zhai, Zhaowei Yang, Xiji Liu, Z P Dong, Dandan Zhou
Software Mentions: 6
Published: about 4 years ago

10.3389/fmicb.2020.01036

Niche Differentiation in the Composition, Predicted Function, and Co-occurrence Networks in Bacterial Communities Associated With Antarctic Vascular Plants
Cited by: 29
Author(s): Qian Zhang, Jacquelinne J. Acuña, Nitza G. Inostroza, Paola Durán, Marı́a de la Luz Mora, Michael J. Sadowsky, Milko A. Jorquera
Software Mentions: 6
Published: over 4 years ago

10.1038/s41598-019-39576-6

Metagenome-assembled genomes provide new insight into the microbial diversity of two thermal pools in Kamchatka, Russia
Cited by: 57
Author(s): Laetitia G. E. Wilkins, Cassandra L. Ettinger, Guillaume Jospin, Jonathan A. Eisen
Software Mentions: 6
Published: over 5 years ago

10.3389/fmicb.2015.00277

Isolation of a significant fraction of non-phototroph diversity from a desert Biological Soil Crust
Cited by: 44
Author(s): Ulisses Nunes da Rocha, Hinsby Cadillo‐Quiroz, Ulaş Karaöz, Lara Rajeev, Niels Klitgord, Sean Dunn, Viet Truong, Mayra Buenrostro, Benjamin P. Bowen, Ferrán García-Pichel, Aindrila Mukhopadhyay, Trent Northen, Eoin L. Brodie
Software Mentions: 6
Published: over 9 years ago

10.1016/j.ccell.2017.07.004

Swarm Intelligence-Enhanced Detection of Non-Small-Cell Lung Cancer Using Tumor-Educated Platelets
Cited by: 212
Author(s): Myron G. Best, Nik Sol, Sjors G J G In ‘t Veld, Adrienne Vancura, Mirte Muller, Anna-Larissa N. Niemeijer, Aniko V. Fejes, Lee Ann Tjon Kon Fat, Anna Egberdina Huis In 't Veld, Cyra E. Leurs, Tessa Y. Le Large, Laura L. Meijer, Irsan Kooi, François Rustenburg, Pepijn Schellen, Heleen Verschueren, Edward P. Post, Laurine E. Wedekind, Jillian Wilhelmina Paulina Bracht, Michelle Esenkbrink, Leon J. Wils, Francesca Favaro, Jilian D. Schoonhoven, Jihane Tannous, Hanne Meijers-Heijboer, Geert Kazemier, Elisa Giovannetti, Jaap C. Reijneveld, Sander Idema, Joep Killestein, Michal Heger, Saskia C.A. de Jager, Rolf T. Urbanus, Imo E. Hoefer, Gérard Pasterkamp, Christine Mannhalter, José Gomez-Arroyo, Harm Jan Bogaard, David P. Noske, W. Peter Vandertop, Daan van den Broek, Bauke Ylstra, R. Jonas A. Nilsson, Jelle Wesseling, Niki Karachaliou, Rafael Rosell, Elizabeth Lee-Lewandrowski, Kent Lewandrowski, Bakhos A. Tannous, Adrianus J. de Langen, Egbert F. Smit, Michel M. van den Heuvel, Thomas Würdinger
Software Mentions: 6
Published: over 7 years ago

10.3389/fmicb.2021.724980

Appendectomy Is Associated With Alteration of Human Gut Bacterial and Fungal Communities
Cited by: 16
Author(s): Shanshan Cai, Yanyun Fan, Bangzhou Zhang, J. H. Lin, Xiaomin Yang, Yunpeng Liu, Jingjing Liu, Jianlin Ren, Hui Xu
Software Mentions: 6
Published: about 3 years ago

10.1186/s13058-019-1098-z

A subgroup of microRNAs defines PTEN-deficient, triple-negative breast cancer patients with poorest prognosis and alterations in RB1, MYC, and Wnt signaling
Cited by: 33
Author(s): Dong‐Yu Wang, Deena M.A. Gendoo, Yaacov Ben‐David, James R. Woodgett, Eldad Zacksenhaus
Software Mentions: 6
Published: almost 6 years ago

10.1186/1471-2164-15-1053

Cross-species transcriptomic analysis elucidates constitutive aryl hydrocarbon receptor activity
Cited by: 10
Author(s): Ren Sun, Lauren C. Chong, Trent T. Simmons, Kathleen E. Houlahan, Stephenie D. Prokopec, John D. Watson, Ivy D. Moffat, Sanna Lensu, Jere Lindén, Christine P’ng, Allan B. Okey, Raimo Pohjanvirta, Paul C. Boutros
Software Mentions: 6
Published: almost 10 years ago

10.1093/gigascience/giaa116

The Dynamic Proteome of Oligodendrocyte Lineage Differentiation Features Planar Cell Polarity and Macroautophagy Pathways
Cited by: 8
Author(s): Paria Pooyan, Razieh Karamzadeh, Mehdi Mirzaei, Anna Meyfour, Ardeshir Amirkhan, Yunqi Wu, Vivek Gupta, Hossein Baharvand, Mohammad Javan, Ghasem Hosseini Salekdeh
Software Mentions: 6
Published: about 4 years ago

10.1371/journal.pgen.1009737

Corticosterone pattern-dependent glucocorticoid receptor binding and transcriptional regulation within the liver
Cited by: 9
Author(s): Benjamin P. Flynn, Matthew T. Birnie, Yvonne M. Kershaw, Audrys G Pauža, Sohyoung Kim, Songjoon Baek, Mark F. Rogers, Alex Paterson, Diana A. Stavreva, David Murphy, Gordon L. Hager, Stafford Lightman, Becky Conway-Campbell
Software Mentions: 6
Published: over 3 years ago

10.1093/gigascience/giz050

Metabolic responses of rice cultivars with different tolerance to combined drought and heat stress under field conditions
Cited by: 48
Author(s): Lovely Mae F Lawas, Xia Li, Alexander Erban, Joachim Kopka, S. V. Krishna Jagadish, Ellen Zuther, Dirk K. Hincha
Software Mentions: 6
Published: over 5 years ago

10.1038/s41598-019-44302-3

Dose-dependent effects of chronic alcohol drinking on peripheral immune responses
Cited by: 41
Author(s): Suhas Sureshchandra, Anthony M. Raus, Allen Jankeel, Brian Jin Kee Ligh, Nicole A.R. Walter, Natali Newman, Kathleen A. Grant, Ilhem Messaoudi
Software Mentions: 6
Published: over 5 years ago

10.1186/s12864-018-4782-y

Gene expression profiling in the developing secondary palate in the absence of Tbx1 function
Cited by: 2
Author(s): Maria Zoupa, Guilherme M. Xavier, Stephanie Bryan, Ioannis Theologidis, Matthew Arno, Martyn T. Cobourne
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pone.0075136

Synergistic Re-Activation of Epigenetically Silenced Genes by Combinatorial Inhibition of DNMTs and LSD1 in Cancer Cells
Cited by: 31
Author(s): Han Han, Xiaojing Yang, Kurinji Pandiyan, Gangning Liang
Software Mentions: 6
Published: about 11 years ago

10.1155/2020/2719739

Development of an Immune Infiltration-Related Eight-Gene Prognostic Signature in Colorectal Cancer Microenvironment
Cited by: 15
Author(s): Beilei Wu, Lijun Tao, Daping Yang, Wei Li, Hongbo Xu, Qianggui He
Software Mentions: 6
Published: about 4 years ago

10.18632/oncotarget.15749

Gene regulatory pattern analysis reveals essential role of core transcriptional factors’ activation in triple-negative breast cancer
Cited by: 15
Author(s): Li Min, Cheng Zhang, Like Qu, Jialiang Huang, Lan Jiang, Jiafei Liu, Luca Pinello, Guo‐Cheng Yuan, Chengchao Shou
Software Mentions: 6
Published: over 7 years ago

10.1186/s13059-017-1367-z

MICRA: an automatic pipeline for fast characterization of microbial genomes from high-throughput sequencing data
Cited by: 9
Author(s): Ségolène Caboche, Gaël Even, Alexandre Loywick, Christophe Audebert, David Hot
Software Mentions: 6
Published: almost 7 years ago

10.1007/s11060-021-03721-x

LAG-3 expression in the inflammatory microenvironment of glioma
Cited by: 19
Author(s): Maximilian J. Mair, Barbara Kiesel, Katharina Feldmann, Georg Widhalm, Karin Dieckmann, Adelheid Wöhrer, Leonhard Müllauer, Matthias Preusser, Anna S. Berghoff
Software Mentions: 6
Published: over 3 years ago

10.1523/ENEURO.0066-20.2020

Peripheral Nerve Single-Cell Analysis Identifies Mesenchymal Ligands that Promote Axonal Growth
Cited by: 33
Author(s): Jeremy S. Toma, Konstantina Karamboulas, Matthew Carr, Adelaida Kolaj, Scott A. Yuzwa, Neemat Mahmud, Mekayla Storer, David R. Kaplan, Freda D. Miller
Software Mentions: 6
Published: over 4 years ago

10.3390/ijms22116034

mTOR Driven Gene Transcription Is Required for Cholesterol Production in Neurons of the Developing Cerebral Cortex
Cited by: 9
Author(s): Martin Schüle, Tamer Butto, Sri Dewi, Laura Schlichtholz, Susanne Strand, Susanne Gerber, Kristina Endres, Susann Schweiger, Jennifer Winter
Software Mentions: 6
Published: over 3 years ago

10.7717/peerj.7141

Comparison of soil bacterial community and functional characteristics following afforestation in the semi-arid areas
Cited by: 27
Author(s): Jiaojiao Deng, Yan Zhang, You Yin, Xu Zhu, Wenxu Zhu, Yongbin Zhou
Software Mentions: 6
Published: over 5 years ago

10.3389/fpsyt.2021.716722

Transcriptomics Analysis Reveals Shared Pathways in Peripheral Blood Mononuclear Cells and Brain Tissues of Patients With Schizophrenia
Cited by: 6
Author(s): Xuemian Song, Yiyun Liu, Juncai Pu, Siwen Gui, Xiaogang Zhong, Xiaopeng Chen, Weiyi Chen, Xiang Chen, Yue Chen, Haiyang Wang, Ke Cheng, Libo Zhao, Peng Xie
Software Mentions: 6
Published: about 3 years ago

10.7717/peerj.3051

Taxonomic and functional trait diversity of wild bees in different urban settings
Cited by: 97
Author(s): Étienne Normandin, Nicolas J. Vereecken, Christopher M. Buddle, Valérie Fournier
Software Mentions: 6
Published: over 7 years ago

10.3389/fimmu.2021.632798

Comprehensive Transcriptomic Analysis Identifies Novel Antiviral Factors Against Influenza A Virus Infection
Cited by: 11
Author(s): Ao Zhou, Dong Xia, Mengyun Liu, Bin Tang
Software Mentions: 6
Published: over 3 years ago

10.3389/fgene.2021.571231

Identification and Analysis of Potential Key Genes Associated With Hepatocellular Carcinoma Based on Integrated Bioinformatics Methods
Cited by: 21
Author(s): Zhuolin Li, Yao Lin, Bizhen Cheng, Qiaoxin Zhang, Yingmu Cai
Software Mentions: 6
Published: over 3 years ago

10.1186/s12864-015-1840-6

Male and female mice show significant differences in hepatic transcriptomic response to 2,3,7,8-tetrachlorodibenzo-p-dioxin
Cited by: 38
Author(s): Jamie Lee, Stephenie D. Prokopec, John D. Watson, Ren Sun, Raimo Pohjanvirta, Paul C. Boutros
Software Mentions: 6
Published: over 9 years ago

10.7150/ijms.46456

Lipid Metabolism is the common pathologic mechanism between Type 2 Diabetes Mellitus and Parkinson's disease
Cited by: 6
Author(s): Xi Zhang, Yu Fan, Yuan Luo, Lingjing Jin, Siguang Li
Software Mentions: 6
Published: almost 5 years ago

10.7150/ijms.51918

Exploration of the relationship between tumor mutation burden and immune infiltrates in colon adenocarcinoma
Cited by: 3
Author(s): Rong Ouyang, Zhongzhuan Li, Peng Peng, Jinxiu Zhang, Jun Li, Mengbin Qin, Jiean Huang
Software Mentions: 6
Published: almost 4 years ago

10.1186/s12866-020-01987-1

Long-term effects of mixed planting on arbuscular mycorrhizal fungal communities in the roots and soils of Juglans mandshurica plantations
Cited by: 7
Author(s): Ji Li, Zhang Yan, Yuchun Yang, Lü Yang, Na Yang, Depeng Zhang
Software Mentions: 6
Published: about 4 years ago

10.1186/s12864-020-6684-z

Transcriptomic analysis of marine endophytic fungi extract identifies highly enriched anti-fungal fractions targeting cancer pathways in HepG2 cell lines
Cited by: 7
Author(s): Ethel J. S. Blessie, Wasco Wruck, Benaiah Annertey Abbey, Audrey Ncube, Nina Graffmann, Vincent Amarh, Patrick Kobina Arthur, James Adjaye
Software Mentions: 6
Published: over 4 years ago

10.1186/s12866-020-01806-7

Co-occurrence pattern and function prediction of bacterial community in Karst cave
Cited by: 23
Author(s): Yiyi Dong, Jie Gao, Qingshan Wu, Yilang Ai, Yu Feng Huang, Wenzhang Wei, Shiyu Sun, Qingbei Weng
Software Mentions: 6
Published: over 4 years ago

10.3389/fpls.2017.01094

Root Hair Mutations Displace the Barley Rhizosphere Microbiota
Cited by: 80
Author(s): Senga Robertson-Albertyn, Rodrigo Alegria Terrazas, Katharin Balbirnie, Manuel Blank, Agnieszka Janiak, Iwona Szarejko, Beata Chmielewska, J Karcz, Jenny Morris, Pete E. Hedley, Timothy S. George, Davide Bulgarelli
Software Mentions: 6
Published: over 7 years ago

10.3389/fonc.2019.01509

Screening the Cancer Genome Atlas Database for Genes of Prognostic Value in Acute Myeloid Leukemia
Cited by: 16
Author(s): Jie Ni, Yang Wu, Feng Qi, Xiao Li, Shengwen Yu, Siwen Liu, Jifeng Feng, Yuxiao Zheng
Software Mentions: 6
Published: almost 5 years ago

10.1371/journal.pone.0255139

De novo sequencing and analysis of the transcriptome of two highbush blueberry (Vaccinium corymbosum L.) cultivars ‘Bluecrop’ and ‘Legacy’ at harvest and following post-harvest storage
Cited by: 2
Author(s): María Cárcamo de la Concepción, Daniel J. Sargent, Nada Šurbanovski, Richard Colgan, Marco Moretto
Software Mentions: 6
Published: over 3 years ago

10.3389/fgene.2021.657658

Weighted Gene Co-expression Network Analysis Identified a Novel Thirteen-Gene Signature Associated With Progression, Prognosis, and Immune Microenvironment of Colon Adenocarcinoma Patients
Cited by: 2
Author(s): Cangang Zhang, Zhe Zhao, Haibo Li, Shukun Yao, Dongyan Zhao
Software Mentions: 6
Published: over 3 years ago

10.1038/s41396-020-00783-z

Root pathogen diversity and composition varies with climate in undisturbed grasslands, but less so in anthropogenically disturbed grasslands
Cited by: 16
Author(s): Camille S. Delavaux, Josh L. Schemanski, Geoffrey L. House, Alice G. Tipton, Benjamin A. Sikes, James D. Bever
Software Mentions: 6
Published: about 4 years ago

10.1038/s41598-020-72914-7

Short-term variability of the human serum metabolome depending on nutritional and metabolic health status
Cited by: 19
Author(s): Inoncent Agueusop, Petra B. Musholt, Beate Klaus, Kendra E. Hightower, Aimo Kannt
Software Mentions: 6
Published: about 4 years ago

10.3389/fped.2021.663054

Identification of CDC20 as a Novel Biomarker in Diagnosis and Treatment of Wilms Tumor
Cited by: 3
Author(s): Qinlin Shi, Bo Tang, Yanping Li, Yonglin Li, Tao Lin, Dalin He, Guanghui Wei
Software Mentions: 6
Published: about 3 years ago

10.1186/s40168-020-00917-7

Spatial heterogeneity of bacterial colonization across different gut segments following inter-species microbiota transplantation
Cited by: 56
Author(s): Na Li, Bo Zuo, Shimeng Huang, Benhua Zeng, Dandan Han, Tiantian Li, Ting Liu, Zhenhua Wu, Hong Wei, Jiangchao Zhao, Junjun Wang
Software Mentions: 6
Published: about 4 years ago

10.3389/fonc.2021.685026

A Novel Prognostic Signature Based on Metabolism-Related Genes to Predict Survival and Guide Personalized Treatment for Head and Neck Squamous Carcinoma
Cited by: 8
Author(s): Ying Liu, Youliang Weng, Yijie Pan, Ze‐Ning Huang, Xiaochuan Chen, Wenquan Hong, Ting Lin, Lihua Wang, Wei Liu, Sufang Qiu
Software Mentions: 6
Published: over 3 years ago

10.1371/journal.pgen.1009474

Dynamic neurogenomic responses to social interactions and dominance outcomes in female paper wasps
Cited by: 6
Author(s): Floria M. K. Uy, Christopher M. Jernigan, Natalie C. Zaba, Eshan Mehrotra, Sara Miller, Michael J. Sheehan
Software Mentions: 6
Published: about 3 years ago

10.1038/s41598-019-50864-z

Circular RNA differential expression in blood cell populations and exploration of circRNA deregulation in pediatric acute lymphoblastic leukemia
Cited by: 62
Author(s): Enrico Gaffo, Elena Boldrin, Anna Dal Molin, Silvia Bresolin, Annagiulia Bonizzato, Luca Trentin, Chiara Frasson, Klaus‐Michael Debatin, Lueder Hinrich Meyer, Geertruy te Kronnie, Stefania Bortoluzzi
Software Mentions: 6
Published: about 5 years ago

10.1186/s12864-016-3199-8

Identification of novel targets of diabetic nephropathy and PEDF peptide treatment using RNA-seq
Cited by: 29
Author(s): Ana Rubín, Anna C. Salzberg, Yuka Imamura, Anzor Grivitishvilli, Joyce Tombran-Tink
Software Mentions: 6
Published: about 8 years ago

10.3389/fmolb.2020.582911

Comprehensive Analysis of the Relationships Between Tumor Mutation Burden With Immune Infiltrates in Cervical Cell Carcinoma
Cited by: 9
Author(s): Cankun Zhou, Chaomei Li, Shunqing Peng, Liangcheng Zhou, Huan Li
Software Mentions: 6
Published: about 4 years ago

10.3389/fmicb.2019.01665

Spatial Environmental Heterogeneity Determines Young Biofilm Assemblages on Microplastics in Baltic Sea Mesocosms
Cited by: 97
Author(s): Katharina Kesy, Sonja Oberbeckmann, Bernd Kreikemeyer, Matthias Labrenz
Software Mentions: 5
Published: over 5 years ago

10.1186/s42523-020-00040-w

The microbiome of captive hamadryas baboons
Cited by: 6
Author(s): Xuanji Li, Urvish Trivedi, Asker Brejnrod, Gisle Vestergaard, Martin Steen Mortensen, Mads F. Bertelsen, Søren J. Sørensen
Software Mentions: 5
Published: over 4 years ago

10.3389/fmicb.2018.00897

Lactobacillus frumenti Facilitates Intestinal Epithelial Barrier Function Maintenance in Early-Weaned Piglets
Cited by: 54
Author(s): Jun Hu, Lingli Chen, Wenyong Zheng, Min Shi, Liu Liu, Chunlin Xie, Xinkai Wang, Youguo Niu, Qiliang Hou, Xichen Xu, Baoyang Xu, Yimei Tang, Shengqian Zhou, Yiqin Yan, Tao Yang, Libao Ma, Xianghua Yan
Software Mentions: 5
Published: over 6 years ago

10.1038/s41598-018-25015-5

Metabolic systems analysis of LPS induced endothelial dysfunction applied to sepsis patient stratification
Cited by: 22
Author(s): Sarah McGarrity, Ósk Anuforo, Haraldur Halldórsson, Andreas Bergmann, Skarphéđinn Halldórsson, Sirus Palsson, H Henriksen, Pär I. Johansson, Óttar Rolfsson
Software Mentions: 5
Published: over 6 years ago

10.1002/cam4.4180

Identification of a novel 10 immune‐related genes signature as a prognostic biomarker panel for gastric cancer
Cited by: 9
Author(s): Tingna Chen, Chaogang Yang, Rongzhang Dou, Bin Xiong
Software Mentions: 5
Published: over 3 years ago

10.1002/cam4.3959

IBSP, a potential recurrence biomarker, promotes the progression of colorectal cancer via Fyn/β‐catenin signaling pathway
Cited by: 8
Author(s): Cheng Yan, Ying Qin, Mengmeng Dai, Liping Liu, Yicheng Ni, Qiao Sun, Lulu Li, Yaoyao Zhou, Cheng Qiu, Yuyang Jiang
Software Mentions: 5
Published: over 3 years ago

10.1186/1471-2105-12-35

VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R
Cited by: 1,681
Author(s): Hanbo Chen, Paul C. Boutros
Software Mentions: 5
Published: almost 14 years ago

10.3389/fmicb.2019.02587

Complementary DNA/RNA-Based Profiling: Characterization of Corrosive Microbial Communities and Their Functional Profiles in an Oil Production Facility
Cited by: 15
Author(s): Silvia J. Salgar-Chaparro, Laura L. Machuca
Software Mentions: 5
Published: about 5 years ago

10.18632/aging.202635

Transcriptome profiling reveals target in primary myelofibrosis together with structural biology study on novel natural inhibitors regarding JAK2
Cited by: 7
Author(s): Weihang Li, Bin Yuan, Yingjing Zhao, Tianxing Lu, Shilei Zhang, Ziyi Ding, Dong Wang, Sheng Zhong, Guangxun Gao, Ming Yan
Software Mentions: 5
Published: over 3 years ago

10.1371/journal.pone.0201031

Salmonella spp. transmission in a vertically integrated poultry operation: Clustering and diversity analysis using phenotyping (serotyping, phage typing) and genotyping (MLVA)
Cited by: 18
Author(s): Helen Crabb, Joanne L. Allen, Joanne M. Devlin, Simon M. Firestone, C. R. Wilks, James R. Gilkerson
Software Mentions: 5
Published: over 6 years ago

10.1186/s12859-021-04121-8

Euler diagrams drawn with ellipses area-proportionally (Edeap)
Cited by: 6
Author(s): Michael Wybrow, Peter Rodgers, Fadi K. Dib
Software Mentions: 5
Published: over 3 years ago

10.3389/fmicb.2016.01363

The Willow Microbiome Is Influenced by Soil Petroleum-Hydrocarbon Concentration with Plant Compartment-Specific Effects
Cited by: 46
Author(s): Stacie Tardif, Étienne Yergeau, Julien Tremblay, Pierre Legendre, Lyle G. Whyte, Charles W. Greer
Software Mentions: 5
Published: about 8 years ago

10.1371/journal.pone.0088515

Extensive Expression Differences along Porcine Small Intestine Evidenced by Transcriptome Sequencing
Cited by: 29
Author(s): Núria Mach, Mustapha Berri, Diane Esquerré, Claire Chevaleyre, Gaëtan Lemonnier, Yvon Billon, Patricia Lepage, Isabelle P. Oswald, Joël Doré, Claire Rogel–Gaillard, Jordi Estellé
Software Mentions: 5
Published: almost 11 years ago

10.1073/pnas.2110758118

TET2 as a tumor suppressor and therapeutic target in T-cell acute lymphoblastic leukemia
Cited by: 22
Author(s): Maike Bensberg, Olof Rundquist, Aida Selimović, Cathrine Lagerwall, Mikael Benson, Mika Gustafsson, Hartmut Vogt, Antonio Lentini, Colm E. Nestor
Software Mentions: 5
Published: over 3 years ago

10.3389/fmicb.2016.01727

Gradual Changes of Gut Microbiota in Weaned Miniature Piglets
Cited by: 123
Author(s): Jun Hu, Yangfan Nie, Jian Wei Chen, Yong Zhang, Zhi‐Chang Wang, Qi-Wen Fan, Xianghua Yan
Software Mentions: 5
Published: about 8 years ago

10.1371/journal.pbio.3000091

Non-proteolytic ubiquitin modification of PPARγ by Smurf1 protects the liver from steatosis
Cited by: 16
Author(s): Kun Yan Zhu, Yi Tang, Xuan Xu, Hien Dang, Liu-Ya Tang, Xiang Wang, Xin Wei Wang, Ying E. Zhang
Software Mentions: 5
Published: almost 6 years ago

10.1002/ece3.6196

Competition with insectivorous ants as a contributor to low songbird diversity at low elevations in the eastern Himalaya
Cited by: 12
Author(s): K. Supriya, Trevor D. Price, Corrie S. Moreau
Software Mentions: 5
Published: over 4 years ago

10.3389/fmicb.2018.02212

A Class 1 Histone Deacetylase as Major Regulator of Secondary Metabolite Production in Aspergillus nidulans
Cited by: 29
Author(s): Angelo Pidroni, Birgit Faber, Gerald Brosch, Ingo Bauer, Stefan Graessle
Software Mentions: 5
Published: about 6 years ago

10.3390/insects11090578

The Microbiome of Neotropical Water Striders and Its Potential Role in Codiversification
Cited by: 12
Author(s): Anakena M. Castillo, Kristin Saltonstall, Carlos F. Arias, Karina Chavarria, Luis A. Ramírez‐Camejo, Luis C. Mejía, Luis F. De León
Software Mentions: 5
Published: about 4 years ago

10.3389/fmicb.2018.02227

Analysis of the Rumen Microbiome and Metabolome to Study the Effect of an Antimethanogenic Treatment Applied in Early Life of Kid Goats
Cited by: 19
Author(s): Leticia Abecia, Gonzalo Martínez Fernández, Kate Waddams, A. I. Martin-García, Eric Pinloche, Christopher J. Creevey, Stuart E. Denman, C. J. Newbold, D. R. Yáñez-Ruíz
Software Mentions: 5
Published: about 6 years ago

10.7717/peerj.6806

Shared genomic outliers across two divergent population clusters of a highly threatened seagrass
Cited by: 25
Author(s): Nikki Leanne Phair, Robert J. Toonen, Ingrid S. Knapp, Sophie von der Heyden
Software Mentions: 5
Published: over 5 years ago

10.7717/peerj.6162

Diversity analysis of the rhizospheric and endophytic bacterial communities of Senecio vulgaris L. (Asteraceae) in an invasive range
Cited by: 20
Author(s): Dandan Cheng, Zhongsai Tian, Liang Feng, Lin Xu, Hongmei Wang
Software Mentions: 5
Published: almost 6 years ago

10.3389/fmicb.2020.559728

Dynamic Changes in the Microbiome of Rice During Shoot and Root Growth Derived From Seeds
Cited by: 21
Author(s): Mengying Wang, Alexander W. Eyre, Michael R. Thon, Yeonyee Oh, Ralph A. Dean
Software Mentions: 5
Published: about 4 years ago

Projects: cran: VennDiagram

Papers Mentioning VennDiagram 626