cran: pheatmap | Projects | Ecosyste.ms: Papers

10.18632/oncotarget.19483

Identification of hub genes involved in the development of hepatocellular carcinoma by transcriptome sequencing
Cited by: 8
Author(s): Yongchang Zheng, Junyu Long, Liangcai Wu, Haohai Zhang, Lin Li, Ying Zheng, Anqiang Wang, Jianzhen Lin, Xiaobo Yang, Xinting Sang, Ke Hu, Jie Pan, Haitao Zhao
Software Mentions: 3
Published: about 9 years ago

10.1186/s13068-021-01880-7

CRISPRi screens reveal genes modulating yeast growth in lignocellulose hydrolysate
Cited by: 14
Author(s): Friederike Gutmann, Cosimo Jann, Filipa Pereira, Anders Johansson, Lars M. Steinmetz, Kiran Raosaheb Patil
Software Mentions: 3
Published: over 5 years ago

10.7150/jca.35801

Identification of a six-lncRNA signature based on a competing endogenous RNA network for predicting the risk of tumour recurrence in bladder cancer patients
Cited by: 8
Author(s): Danfeng Zhao, Qiang Peng, Lu Wang, Cong Li, Yulin Lv, Yong Liu, Zhichao Wang, Ruizhe Fang, Jiaqi Wang, Zhongqing Liu, Wanhai Xu
Software Mentions: 3
Published: over 6 years ago

10.1155/2020/5156304

Comprehensive Analyses of miRNA-mRNA Network and Potential Drugs in Idiopathic Pulmonary Arterial Hypertension
Cited by: 8
Author(s): Chan Li, Zeyu Zhang, Qian Xu, Ruizheng Shi
Software Mentions: 3
Published: about 6 years ago

10.3390/ijms22020514

Transcriptome Analysis and Identification of Lipid Genes in Physaria lindheimeri, a Genetic Resource for Hydroxy Fatty Acids in Seed Oil
Cited by: 3
Author(s): Grace Q. Chen, Won Nyeong Kim, Kumiko Johnson, Mid-Eum Park, Kyeong‐Ryeol Lee, Hyun Uk Kim
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-017-10613-6

Metagenomic evidence of stronger effect of stylo (legume) than bahiagrass (grass) on taxonomic and functional profiles of the soil microbial community
Cited by: 15
Author(s): Zhihui Yang, Honghui Zhu, Shenglei Fu, Qing Yao
Software Mentions: 3
Published: about 9 years ago

10.1038/s41419-020-02769-3

LEF1 mediates osteoarthritis progression through circRNF121/miR-665/MYD88 axis via NF-кB signaling pathway
Cited by: 31
Author(s): Tianfu Wang, Zhiyu Hao, Changcheng Liu, Lebin Yuan, Li Li, Menghong Yin, Qing Li, Zhiming Qi, Zi Wang
Software Mentions: 3
Published: about 6 years ago

10.1038/s41419-020-03181-7

Calcium and TRPV4 promote metastasis by regulating cytoskeleton through the RhoA/ROCK1 pathway in endometrial cancer
Cited by: 53
Author(s): Xingchen Li, Yuan Cheng, Zhiqi Wang, Jingyi Zhou, Yuanyuan Jia, Xijing He, Lijun Zhao, Yangyang Dong, Fan Yuan, Xiao Yang, Boqiang Shen, Xiangsong Wu, Jiaqi Wang, Chunyang Xiong, Lihui Wei
Software Mentions: 3
Published: almost 6 years ago

10.1155/2020/2071593

High Expression of UBB, RAC1, and ITGB1 Predicts Worse Prognosis among Nonsmoking Patients with Lung Adenocarcinoma through Bioinformatics Analysis
Cited by: 11
Author(s): Huan Deng, Yo-Ping Huang, Li Wang, Ming Chen
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-018-20518-7

Csde1 binds transcripts involved in protein homeostasis and controls their expression in an erythroid cell line
Cited by: 20
Author(s): Kat Moore, Nurcan Yağcı, Floris van Alphen, Nahuel A. Paolini, Rastislav Horos, Ntsiki M. Held, Riekelt H. Houtkooper, Emile van den Akker, Alexander B. Meijer, Peter A. C. ât Hoen, Marieke von Lindern
Software Mentions: 3
Published: over 8 years ago

10.1038/s41598-018-29186-z

Inter-individual differences in contamination profiles as tracer of social group association in stranded sperm whales
Cited by: 5
Author(s): Joseph Schnitzler, Marianna Pinzone, Marijke Autenrieth, Abbo van Neer, Lonneke L. IJsseldijk, Jonathan L. Barber, Rob Deaville, Paul D. Jepson, Andrew Brownlow, Tobias Schaffeld, Jean-Pierre Thomé, Ralph Tiedemann, Krishna Das, Ursula Siebert
Software Mentions: 3
Published: about 8 years ago

10.1038/s41598-018-32198-4

Experimental Adaptation of the Yellow Fever Virus to the Mosquito Aedes albopictus and Potential risk of urban epidemics in Brazil, South America
Cited by: 26
Author(s): Fadila Amraoui, Adrien Pain, Géraldine Piorkowski, Marie Vazeille, Dinair Couto-Lima, Xavier de Lamballerie, Ricardo Lourenço‐de‐Oliveira, Anna‐Bella Failloux
Software Mentions: 3
Published: almost 8 years ago

10.1038/s41598-019-40974-z

G-protein Gα13 functions as a cytoskeletal and mitochondrial regulator to restrain osteoclast function
Cited by: 11
Author(s): Shinichi Nakano, Kenzo Inoue, Cheng Xu, Zhonghao Deng, Viktoriya Syrovatkina, G. Vitone, Liang Zhao, Xin‐Yun Huang, Baohong Zhao
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-019-41625-z

Improved survival prognostication of node-positive malignant melanoma patients utilizing shotgun proteomics guided by histopathological characterization and genomic data
Cited by: 12
Author(s): Lázaro Betancourt, Krzysztof Pawłowski, Jonatan Eriksson, Attila Marcell Szász, Shamik Mitra, Indira Pla, Charlotte Welinder, Henrik Ekedahl, Per Broberg, Roger Appelqvist, Maria Yakovleva, Y. Sugita, Kenichi Miharada, Christian Ingvar, Lotta Lundgren, Bo Baldetorp, Håkan Olsson, Melinda Rezeli, Elisabet Wieslander, Péter Horvatovich, Johan Malm, Göran Jönsson, György Markó-Varga
Software Mentions: 3
Published: over 7 years ago

10.1186/s12859-014-0422-y

YersiniaBase: a genomic resource and analysis platform for comparative analysis of Yersinia
Cited by: 9
Author(s): Shi Tan, Avirup Dutta, Nicholas S. Jakubovics, Mia Yang Ang, Cheuk Chuen Siow, Naresh V.R. Mutha, Hamed Heydari, Wei Yee Wee, George T.F. Wong, Siew Woh Choo
Software Mentions: 3
Published: over 11 years ago

10.1155/2021/2545459

Identification of Differentially Expressed circRNAs, miRNAs, and Genes in Patients Associated with Cartilaginous Endplate Degeneration
Cited by: 0
Author(s): Haiwei Xu, Yongjin Li, Jianhua Li, Zhenxin Huo, Guowang Li, Lilong Du, Lijun Tian, Bei Xu
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-019-47866-2

Early life exposures shape the CD4+ T cell transcriptome, influencing proliferation, differentiation, and mitochondrial dynamics later in life
Cited by: 6
Author(s): Catherine G. Burke, Jason R. Myers, Lisbeth A. Boulé, Christina M. Post, Paul S. Brookes, B. Paige Lawrence
Software Mentions: 3
Published: about 7 years ago

10.18632/oncotarget.24035

Reversible LSD1 inhibition with HCI-2509 induces the p53 gene expression signature and disrupts the MYCN signature in high-risk neuroblastoma cells
Cited by: 21
Author(s): Sumati Gupta, Kelly Doyle, Timothy Mosbruger, Andrew Butterfield, Alexis Weston, Allison Ast, Mohan R. Kaadige, Anupam Verma, Sunil Sharma
Software Mentions: 3
Published: over 8 years ago

10.1155/2020/3040839

The Oncogenic Role of CENPA in Hepatocellular Carcinoma Development: Evidence from Bioinformatic Analysis
Cited by: 17
Author(s): Yuan Zhang, Lei Yang, Jia Shi, Yao Lu, Xiaorong Chen, Zongguo Yang
Software Mentions: 3
Published: over 6 years ago

10.1186/s12859-020-03657-5

GenAPI: a tool for gene absence-presence identification in fragmented bacterial genome sequences
Cited by: 17
Author(s): Miglė Gabrielaitė, Rasmus Lykke Marvig
Software Mentions: 3
Published: about 6 years ago

10.1186/s12859-021-04040-8

A machine learning-based gene signature of response to the novel alkylating agent LP-184 distinguishes its potential tumor indications
Cited by: 6
Author(s): Umesh Kathad, Aditya Kulkarni, Joseph McDermott, Jordan Wegner, Peter Carr, Neha Biyani, Rama Modali, Jaepyeong Cha, Panna Sharma, Kishor Bhatia
Software Mentions: 3
Published: over 5 years ago

10.3390/ijms22052282

The RNAi Mechanism Regulates a New Exonuclease Gene Involved in the Virulence of Mucorales
Cited by: 8
Author(s): Carlos Pèrez-Arques, María Isabel Navarro-Mendoza, Laura Murcia, Eusebio Navarro, Victoriano Garre
Software Mentions: 3
Published: over 5 years ago

10.18632/oncotarget.24598

Tracking cellular and molecular changes in a species-specific manner during experimental tumor progression <i>in vivo</i>
Cited by: 9
Author(s): Émilie Indersie, Katarzyna B. Hooks, Caroline Capdevielle, Monique Fabrè, Nathalie Dugot‐Senant, Angélique Desplat, Sébastien Lepreux, Aksam Merched, Christophe Grosset, Martin Hagedorn
Software Mentions: 3
Published: over 8 years ago

10.1038/s41598-020-57806-0

Novel Analytical Platform For Robust Identification of Cell Migration Inhibitors
Cited by: 6
Author(s): Parinyachat Somchai, Kriengkrai Phongkitkarun, Patipark Kueanjinda, Supawan Jamnongsong, Kulthida Vaeteewoottacharn, Vor Luvira, Seiji Okada, Siwanon Jirawatnotai, Somponnat Sampattavanich
Software Mentions: 3
Published: over 6 years ago

10.1007/s00253-021-11478-6

The plant secondary compound swainsonine reshapes gut microbiota in plateau pikas (Ochotona curzoniae)
Cited by: 6
Author(s): Shien Ren, Chao Fan, Liangzhi Zhang, Xianjiang Tang, Haibo Fu, Chuanfa Liu, Shangang Jia, Yanming Zhang
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-020-59469-3

Targeting Oncogenic Super Enhancers in MYC-Dependent AML Using a Small Molecule Activator of NR4A Nuclear Receptors
Cited by: 18
Author(s): S. Greg Call, Ryan P. Duren, Anil K. Panigrahi, Huu Lam Nguyen, Pablo R. Freire, Sandra L. Grimm, Cristian Coarfa, Orla M. Conneely
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-020-61688-7

Prognostic implications of EGFR protein expression in sporadic colorectal tumors: Correlation with copy number status, mRNA levels and miRNA regulation
Cited by: 15
Author(s): Sofía Del Carmen, Luis A. Corchete, Ruth Gervás, A Barrio Rodriguez, María José García, José A. Sánchez Alcázar, José María Sánchez García, Óscar Bengoechea, Luís Muñoz-Bellvis, José María Sayagués, Mónica Viñarás Abad
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-020-63148-8

Comprehensive immunogenomic landscape analysis of prognosis-related genes in head and neck cancer
Cited by: 22
Author(s): Lei Li, Xiaoli Wang, Qian Lei, Chuanzheng Sun, Yan Xi, Ran Chen, Yongming He
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-020-63607-2

Regulatory relationship between quality variation and environment of Cistanche deserticola in three ecotypes based on soil microbiome analysis
Cited by: 17
Author(s): Xiao Sun, Li Zhang, Jin Pei, Linfang Huang
Software Mentions: 3
Published: over 6 years ago

10.18632/oncotarget.25572

Transcriptome profiling of anti-müllerian hormone treated preantral/small antral mouse ovary follicles
Cited by: 2
Author(s): Zia Ur Rehman, Faheem Ahmed Khan, Farmanullah, Hira Sajjad Talpur, Qing Liu, Shenhe Liu, Liguo Yang
Software Mentions: 3
Published: about 8 years ago

10.1038/s41598-020-66939-1

Soluble silica stimulates osteogenic differentiation and gap junction communication in human dental follicle cells
Cited by: 17
Author(s): Pamela Uribe, Anders Johansson, Ravin Jugdaohsingh, Jonathan J. Powell, Catarina Magnusson, Marcela Dávila, Anna Westerlund, Maria Ransjö
Software Mentions: 3
Published: about 6 years ago

10.1038/s41598-020-66986-8

ssGSEA score-based Ras dependency indexes derived from gene expression data reveal potential Ras addiction mechanisms with possible clinical implications
Cited by: 100
Author(s): Ming Yi, Dwight V. Nissley, Frank McCormick, Robert M. Stephens
Software Mentions: 3
Published: about 6 years ago

10.1186/s12985-016-0592-5

Functional prediction of differentially expressed lncRNAs in HSV-1 infected human foreskin fibroblasts
Cited by: 15
Author(s): Benxia Hu, Yongxia Huo, Guijun Chen, Liping Yang, Dong‐Dong Wu, Jumin Zhou
Software Mentions: 3
Published: about 10 years ago

10.1038/s41598-020-68074-3

Tumor microenvironment characterization in head and neck cancer identifies prognostic and immunotherapeutically relevant gene signatures
Cited by: 25
Author(s): Mengqi Huo, Ying Zhang, Zhong Chen, Suxin Zhang, Yong-Rui Bao, Tianke Li
Software Mentions: 3
Published: about 6 years ago

10.3390/ijms22052442

Immunogenomic Identification for Predicting the Prognosis of Cervical Cancer Patients
Cited by: 10
Author(s): Qun Wang, Aurelia Vattai, Theresa� Vilsmaier, Till Kaltofen, Alexander Steger, Doris Mayr, Sven Mahner, Udo Jeschke, H Heidegger
Software Mentions: 3
Published: over 5 years ago

10.1155/2021/5527935

Wogonin Strengthens the Therapeutic Effects of Mesenchymal Stem Cells in DSS-Induced Colitis via Promoting IL-10 Production
Cited by: 11
Author(s): Qiongli Wu, Shu‐Juan Xie, Yinhong Zhu, Jingrou Chen, Jiatong Tian, Shiqiu Xiong, Changyou Wu, Yujin Ye, Yanwen Peng
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pntd.0009297

Expression profiling of Echinococcus multilocularis miRNAs throughout metacestode development in vitro
Cited by: 7
Author(s): Natalia Macchiaroli, Matías Preza, Moira Pérez, Laura Kamenetzky, Marcela Alejandra Cucher, Uriel Koziol, Estela Castillo, Matthew Berriman, Klaus Brehm, Mara Cecília Rosenzvit
Software Mentions: 3
Published: over 5 years ago

10.3389/fonc.2021.605296

Prediction of Post-hepatectomy Liver Failure in Patients With Hepatocellular Carcinoma Based on Radiomics Using Gd-EOB-DTPA-Enhanced MRI: The Liver Failure Model
Cited by: 15
Author(s): Yuyan Chen, Zelong Liu, Yun Xian Mo, Bin Li, Qian Zhou, Sui Peng, Shaoqiang Li, Ming Kuang
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0188082

Global analysis of gene expression mediated by OX1 orexin receptor signaling in a hypothalamic cell line
Cited by: 4
Author(s): Eric Koesema, Thomas Kodadek
Software Mentions: 3
Published: almost 9 years ago

10.3389/fonc.2020.553628

Up-regulation of L Antigen Family Member 3 Associates With Aggressive Progression of Breast Cancer
Cited by: 3
Author(s): Xubin Dong, Shihui Lv, Di Gu, Xiaohua Zhang, Zhiqiang Ye
Software Mentions: 3
Published: over 5 years ago

10.1210/clinem/dgaa382

Effect of Gut Microbiota and <i>PNPLA3</i> rs738409 Variant on Nonalcoholic Fatty Liver Disease (NAFLD) in Obese Youth
Cited by: 39
Author(s): Ayesha Monga Kravetz, Todd Testerman, Brittany Galuppo, Joerg Graf, Bridget Pierpont, Stephan Siebel, Richard Feinn, Nicola Santoro
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pone.0210650

LncRNA expression profile and ceRNA analysis in tomato during flowering
Cited by: 24
Author(s): Zhenchao Yang, Chengcheng Yang, Zhengyan Wang, Yang Zhao, Danyan Chen, Yongjun Wu
Software Mentions: 3
Published: over 7 years ago

10.3389/fgene.2019.00561

Genome-Wide Identification and Homoeologous Expression Analysis of PP2C Genes in Wheat (Triticum aestivum L.)
Cited by: 44
Author(s): Xiao‐Lan Yu, Jiapeng Han, Efan Wang, Jie Xiao, Rui Hu, Guangxiao Yang, Guoqing He
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pone.0157937

Comorbid Analysis of Genes Associated with Autism Spectrum Disorders Reveals Differential Evolutionary Constraints
Cited by: 20
Author(s): Maude M. David, David Enard, Alp Ozturk, Jena Daniels, Ji Ye Jung, Leticia Díaz-Beltrán, Dennis P. Wall
Software Mentions: 3
Published: about 10 years ago

10.3390/nu13020637

Sex-Dependent Effects of 7,8-Dihydroxyflavone on Metabolic Health Are Associated with Alterations in the Host Gut Microbiome
Cited by: 8
Author(s): Pulkit Sharma, Guojun Wu, Deeptha Kumaraswamy, Natalie Burchat, Hong Ye, Yongjia Gong, Liping Zhao, Yan Y. Lam, Harini Sampath
Software Mentions: 3
Published: over 5 years ago

10.3389/fonc.2021.634617

CD96 Correlates With Immune Infiltration and Impacts Patient Prognosis: A Pan-Cancer Analysis
Cited by: 31
Author(s): Wenrui Ye, Cong Luo, Fangkun Liu, Zhixiong Liu, Fenghua Chen
Software Mentions: 3
Published: over 5 years ago

10.1098/rsos.210113

Gene expression associated with disease resistance and long-term growth in a reef-building coral
Cited by: 9
Author(s): Emma R. Kelley, Robin S. Sleith, Mikhail V. Matz, Rachel M. Wright
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-021-93893-3

Microarray-based selection of a serum biomarker panel that can discriminate between latent and active pulmonary TB
Cited by: 6
Author(s): Zhihui Li, Jianjun Hu, Pengchong Liu, Dan Cui, Hongqin Di, Shucai Wu
Software Mentions: 3
Published: about 5 years ago

10.1186/s12958-021-00801-5

Trophoblast derived extracellular vesicles specifically alter the transcriptome of endometrial cells and may constitute a critical component of embryo-maternal communication
Cited by: 19
Author(s): Kasun Godakumara, James Ord, Freddy Lättekivi, Keerthie Dissanayake, Janeli Viil, Nageswara Rao Boggavarapu, Omid R. Faridani, Kersti Jääger, Agne Velthut-Meikas, Ülle Jaakma, Andres Salumets, Alireza Fazeli
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pgen.1008941

A point mutation decouples the lipid transfer activities of microsomal triglyceride transfer protein
Cited by: 16
Author(s): Meredith H. Wilson, Sujith Rajan, Aidan Danoff, Richard White, Monica R. Hensley, Vanessa H. Quinlivan, Rosario Recacha, James H. Thierer, Frederick J. Tan, Elisabeth M Busch-Nentwich, Lloyd W. Ruddock, M. Mahmood Hussain, Steven A. Farber
Software Mentions: 3
Published: about 6 years ago

10.21203/rs.3.rs-86169/v1

Clofazimine is a broad-spectrum coronavirus inhibitor that antagonizes SARS-CoV-2 replication in primary human cell culture and hamsters
Cited by: 11
Author(s): Shuofeng Yuan, Xin Yin, Xiangzhi Meng, Jasper Fuk Woo Chan, Zi‐Wei Ye, Laura Riva, Lars Pache, Chris Chun-Yiu Chan, Pok-Man Lai, Chris Chun Yiu Chan, Vincent Kwok Man Poon, Naoko Matsunaga, Yuan Pu, Chun-Kit Yuen, Jianli Cao, Ronghui Liang, Kaiming Tang, Sheng Li, Yushen Du, Wan Xu, Kong-Hung Sze, Jinxia Zhang, Hin Chu, Kin‐Hang Kok, Kelvin Kai-Wang To, Dong-Yan Jin, Ren Sun, Sumit K. Chanda, Kwok‐Yung Yuen
Software Mentions: 3
Published: almost 6 years ago

10.3389/fmicb.2019.01424

The Diversity and Geographic Distribution of Cultivable Bacillus-Like Bacteria Across Black Soils of Northeast China
Cited by: 17
Author(s): Junjie Liu, Xiao Yang Cui, Zhuxiu Liu, Guo Zhaokui, Zhenhua Yu, Qin Yao, Yueyu Sui, Jian Jin, Xiaobing Liu
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pone.0242263

Identification of prognostic genes in uveal melanoma microenvironment
Cited by: 23
Author(s): Huan Luo, Chi Ma
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12931-019-0995-0

Identification of differentially expressed proteins in the injured lung from zinc chloride smoke inhalation based on proteomics analysis
Cited by: 13
Author(s): Xiaowei Xie, Jiemin Zhao, Lei Xie, Haiyan Wang, Yan Xiao, Yingjia She, Lingyun Ma
Software Mentions: 3
Published: over 7 years ago

10.1128/mBio.02359-20

Gene Loss and Acquisition in Lineages of Pseudomonas aeruginosa Evolving in Cystic Fibrosis Patient Airways
Cited by: 26
Author(s): Miglė Gabrielaite, Helle Krogh Johansen, Søren Molin, Finn C. Nielsen, Rasmus Lykke Marvig
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.ppat.1008006

Shigella sonnei infection of zebrafish reveals that O-antigen mediates neutrophil tolerance and dysentery incidence
Cited by: 17
Author(s): Vincenzo Torraca, Myrsini Kaforou, Jayne Watson, Gina Duggan, Hazel Guerrero-Gutierrez, Sina Krokowski, Michael Hollinshead, Tom Clarke, Rafal Mostowy, Gillian S. Tomlinson, Vanessa Sancho‐Shimizu, Abigail Clements, Serge Mostowy
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.ppat.1008870

Eomes cannot replace its paralog T-bet during expansion and differentiation of CD8 effector T cells
Cited by: 7
Author(s): Jonas Fixemer, Jonas Hummel, Frederic Arnold, Christoph S. N. Klose, Alexis Hofherr, Kristoffer Weißert, Tamara Kögl, Michael Köttgen, Sebastian J. Arnold, Peter Aichele, Yakup Tanriver
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pbio.3000335

Mouse HSA+ immature cardiomyocytes persist in the adult heart and expand after ischemic injury
Cited by: 13
Author(s): Mariana Valente, Tatiana P. Resende, Diana S. Nascimento, Odile Burlen-Defranoux, Francisca Soares-da-Silva, B. Dupont, Ana Cumano, Perpétua Pinto-do-Ó
Software Mentions: 3
Published: about 7 years ago

10.1038/s41598-021-98073-x

Pressure ulcers microbiota dynamics and wound evolution
Cited by: 12
Author(s): Catherine Dunyach‐Remy, Florian Salipante, Jean‐Philippe Lavigne, Maxime Brunaud, Christophe Dematteı, Alex Yahiaoui-Martinez, Sophie Bastide, C. Palayer, Albert Sotto, Anthony Gélis
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pntd.0006280

Transcriptomes of Trypanosoma brucei rhodesiense from sleeping sickness patients, rodents and culture: Effects of strain, growth conditions and RNA preparation methods
Cited by: 27
Author(s): Julius Mulindwa, Kevin Leiss, David Ibberson, Kevin Kamanyi Marucha, Claudia Helbig, Larissa Mélo do Nascimento, Eleanor Silvester, Keith R. Matthews, Enock Matovu, John Enyaru, Christine Clayton
Software Mentions: 3
Published: over 8 years ago

10.3389/fgene.2019.00373

Identification of Potential Crucial Genes Associated With the Pathogenesis and Prognosis of Endometrial Cancer
Cited by: 45
Author(s): Li Liu, Jiajing Lin, Haiyang He
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.pone.0241924

Identification of a 6-gene signature for the survival prediction of breast cancer patients based on integrated multi-omics data analysis
Cited by: 7
Author(s): Wenju Mo, Yuqin Ding, Shuai Zhao, Dayang Zou, Xiaowen Ding
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pone.0047833

Metabolic Profiling Reveals Sphingosine-1-Phosphate Kinase 2 and Lyase as Key Targets of (Phyto-) Estrogen Action in the Breast Cancer Cell Line MCF-7 and Not in MCF-12A
Cited by: 22
Author(s): Nadja Engel, Jan Lisec, Birgit Piechulla, Barbara Nebe
Software Mentions: 3
Published: almost 14 years ago

10.1371/journal.pone.0248430

High mutation burden in the checkpoint and micro-RNA processing genes in myelodysplastic syndrome
Cited by: 5
Author(s): Ivan S. Moiseev, Nikolai Tsvetkov, Ildar Barkhatov, Maria V. Barabanshikova, Dmitrii S. Bug, Natalya Vitalievna Petuhova, Артем Тишков, Evgeny Bakin, Е. А. Измайлова, Alena I. Shakirova, Alexander Kulagin, Elena Morozova
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2021.564780

Distinct Extracellular RNA Profiles in Different Plasma Components
Cited by: 8
Author(s): Jing Jia, Shangdong Yang, Jinyong Huang, Hong Zheng, Ying He, Liang Wang
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pgen.1007909

Dual role of DMXL2 in olfactory information transmission and the first wave of spermatogenesis
Cited by: 10
Author(s): Clara Gobé, Maëva Elzaïat, Nicolas Meunier, Marjolaine André, Eli Sellem, Patrice Congar, Luc Jouneau, Aurélie Allais‐Bonnet, Ikrame Naciri, Bruno Passet, Eric Pailhoux, Maëlle Pannetier
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.pone.0253701

Exposure to dexamethasone modifies transcriptomic responses of free-living stages of Strongyloides stercoralis
Cited by: 3
Author(s): Rutchanee Rodpai, Oranuch Sanpool, Tongjit Thanchomnang, Pokkamol Laoraksawong, Lakkhana Sadaow, Patcharaporn Boonroumkaew, Arporn Wangwiwatsin, Chaisiri Wongkham, Porntip Laummaunwai, Wannaporn Ittiprasert, Paul J Brindley, Pewpan M. Intapan, Wanchai Maleewong
Software Mentions: 3
Published: about 5 years ago

10.1038/s41597-020-00754-1

Transcriptome dataset of human corneal endothelium based on ribosomal RNA-depleted RNA-Seq data
Cited by: 13
Author(s): Yoshiyuki Tokuda, Naoki Okumura, Yuya Komori, Naoya Hanada, Kei Tashiro, Noriko Koizumi, Masakazu Nakano
Software Mentions: 3
Published: almost 6 years ago

10.3389/fgene.2020.589326

Temporospatial Flavonoids Metabolism Variation in Ginkgo biloba Leaves
Cited by: 17
Author(s): Ying Guo, Tongli Wang, Fangfang Fu, Guibin Wang
Software Mentions: 3
Published: almost 6 years ago

10.3389/fonc.2021.693353

Identification of Key Genes Related to CD8+ T-Cell Infiltration as Prognostic Biomarkers for Lung Adenocarcinoma
Cited by: 6
Author(s): Minjun Du, Yicheng Liang, Zixu Liu, Xingkai Li, Mei Liang, Boxuan Zhou, Yushun Gao
Software Mentions: 3
Published: almost 5 years ago

10.3389/fgene.2019.00786

Specific Glioma Prognostic Subtype Distinctions Based on DNA Methylation Patterns
Cited by: 15
Author(s): Xueran Chen, Chenggang Zhao, Zhiyang Zhao, Hongzhi Wang, Zhiyou Fang
Software Mentions: 3
Published: almost 7 years ago

10.3389/fmicb.2020.01794

Fermentation Characteristics of Lactococcus lactis subsp. lactis Isolated From Naturally Fermented Dairy Products and Screening of Potential Starter Isolates
Cited by: 16
Author(s): Weicheng Li, Ren Min, Lana Duo, Jing Li, Shuai Wang, Yaru Sun, Min Li, Weiyi Ren, Qiangchuan Hou, Jie Yu, Zhihong Sun, Tingting Sun
Software Mentions: 3
Published: about 6 years ago

10.1038/srep12978

From lithotroph- to organotroph-dominant: directional shift of microbial community in sulphidic tailings during phytostabilization
Cited by: 42
Author(s): Xiaofang Li, Philip L. Bond, Joy D. Van Nostrand, Jizhong Zhou, Longbin Huang
Software Mentions: 3
Published: about 11 years ago

10.3389/fgene.2021.665173

Identification and Validation of a Novel RNA-Binding Protein-Related Gene-Based Prognostic Model for Multiple Myeloma
Cited by: 6
Author(s): Wei Wang, Shiwen Xu, Xia-Yin Zhu, Qixin Guo, Min Zhu, Xin-Li Mao, Yahong Chen, Shaowei Li, Wenda Luo
Software Mentions: 3
Published: over 5 years ago

10.1038/srep13888

Comprehensive urinary metabolomic profiling and identification of potential noninvasive marker for idiopathic Parkinson’s disease
Cited by: 107
Author(s): Hemi Luan, Liang-Feng Liu, Tian Zhi, Manwen Zhang, Ka-Kit Chua, Ju‐Xian Song, Vincent Mok, Min Li, Zongwei Cai
Software Mentions: 3
Published: almost 11 years ago

10.3389/fonc.2020.553983

Human Endogenous Retrovirus Expression Is Upregulated in the Breast Cancer Microenvironment of HIV Infected Women: A Pilot Study
Cited by: 8
Author(s): Gislaine Curty, Greta A. Beckerle, Luis P. Íñiguez, Robert L. Furler, Pedro S. de Carvalho, Jez L. Marston, Stéphane Champiat, Jonas J. Heymann, Christopher E. Ormsby, Gustavo Reyes‐Terán, Marcelo A. Soares, Douglas F. Nixon, Matthew L. Bendall, Fábio E. Leal, Miguel de Mulder Rougvie
Software Mentions: 3
Published: almost 6 years ago

10.3389/fmicb.2018.02023

Vertical Distribution of Microbial Eukaryotes From Surface to the Hadal Zone of the Mariana Trench
Cited by: 34
Author(s): Zhimeng Xu, Min Wang, Wenxue Wu, Yifan Li, Qian Liu, Yuye Han, Hongbing Shao, Andrew McMinn, Hongbin Liu
Software Mentions: 3
Published: about 8 years ago

10.3389/fgene.2019.01045

Population Genetic Analysis of Modern and Ancient DNA Variations Yields New Insights Into the Formation, Genetic Structure, and Phylogenetic Relationship of Northern Han Chinese
Cited by: 25
Author(s): Pengyu Chen, Jian Wu, Li Luo, Hongyan Gao, Mengge Wang, Xing Zou, Yingxiang Li, Chen Gang, Haibo Luo, Limei Yu, Yanyan Han, Jia Fu, Guanglin He
Software Mentions: 3
Published: almost 7 years ago

10.3389/fgene.2021.741325

Multiomics Analysis Reveals the Prognostic Non-tumor Cell Landscape in Glioblastoma Niches
Cited by: 0
Author(s): Zixuan Xiao, Wei Zhang, Guanzhang Li, Wendong Li, Liang-In Lin, Taixiang Sun, Yufei He, Guang Liu, Lu Wang, Xiaohan Han, Hao Wen, Yong Liu, Yifan Chen, Haoyu Wang, Jing Li, Yubo Fan, Jing Zhang
Software Mentions: 3
Published: almost 5 years ago

10.3389/fonc.2020.597569

Identification and Validation of an Autophagy-Related lncRNA Signature for Patients With Breast Cancer
Cited by: 13
Author(s): Ruyue Zhang, Qingwen Zhu, Dengke Yin, Zichang Yang, Jiahao Guo, Jingmin Zhang, Yubing Zhou, Jane Yu
Software Mentions: 3
Published: over 5 years ago

10.1038/srep27623

Multiplex giant magnetoresistive biosensor microarrays identify interferon-associated autoantibodies in systemic lupus erythematosus
Cited by: 31
Author(s): J. Lee, D. James Haddon, Hannah Wand, J. M. Price, Vivian K. Diep, Drew A. Hall, Michelle Petri, Emily C. Baechler, Imelda Balboni, Paul J. Utz, Shan X. Wang
Software Mentions: 3
Published: about 10 years ago

10.1038/srep28075

Cellular responses to HSV-1 infection are linked to specific types of alterations in the host transcriptome
Cited by: 52
Author(s): Benxia Hu, Li X, Yongxia Huo, Yafen Yu, Qiuping Zhang, Guijun Chen, Yaping Zhang, Nigel W. Fraser, Dong‐Dong Wu, Jumin Zhou
Software Mentions: 3
Published: about 10 years ago

10.1038/s41598-021-91846-4

High-resolution transcriptional landscape of xeno-free human induced pluripotent stem cell-derived cerebellar organoids
Cited by: 28
Author(s): Samuel Nayler, Devika Agarwal, Fabiola Curion, Rory Bowden, Esther B. E. Becker
Software Mentions: 3
Published: about 5 years ago

10.1186/s12967-020-02255-6

Development and validation of a novel immune-related prognostic model in hepatocellular carcinoma
Cited by: 60
Author(s): Zheng Wang, Jie Zhu, Yongjuan Liu, Changhong Liu, Wenqi Wang, Fengzhe Chen, Lixian Ma
Software Mentions: 3
Published: over 6 years ago

10.3390/nu13061808

Short- and Branched-Chain Fatty Acids as Fecal Markers for Microbiota Activity in Vegans and Omnivores
Cited by: 24
Author(s): Iris Trefflich, Suzanne W. Dietrich, Annett Braune, Klaus Abraham, Cornelia Weikert
Software Mentions: 3
Published: over 5 years ago

10.1038/srep33342

Metabolic engineering of cottonseed oil biosynthesis pathway via RNA interference
Cited by: 29
Author(s): Zhongping Xu, Jingwen Li, Xiaoping Guo, Shuangxia Jin, Xianlong Zhang
Software Mentions: 3
Published: almost 10 years ago

10.1038/srep33151

De novo Transcriptome Analysis Reveals Distinct Defense Mechanisms by Young and Mature Leaves of Hevea brasiliensis (Para Rubber Tree)
Cited by: 37
Author(s): Yuxiao Fang, Hailiang Mei, Binhui Zhou, Xiaohu Xiao, Meng Yang, Yacheng Huang, Xiangyu Long, Songnian Hu, Chaorong Tang
Software Mentions: 3
Published: almost 10 years ago

10.1038/s41598-021-91373-2

Transcriptome profiling analysis of muscle tissue reveals potential candidate genes affecting water holding capacity in Chinese Simmental beef cattle
Cited by: 4
Author(s): Lili Du, Tianpeng Chang, Bingxing An, Mang Liang, Xinghai Duan, Wentao Cai, Bo Zhu, Xue Gao, Yan Chen, Lingyang Xu, Lupei Zhang, Junya Li, Huijiang Gao
Software Mentions: 3
Published: over 5 years ago

10.1038/srep37376

Differential fecal microbiota are retained in broiler chicken lines divergently selected for fatness traits
Cited by: 73
Author(s): Qiangchuan Hou, Lai‐Yu Kwok, Yi Zheng, Lifeng Wang, Zhuang Guo, Jiachao Zhang, Weiqiang Huang, Yuxiang Wang, Li Leng, Hui Li, Heping Zhang
Software Mentions: 3
Published: almost 10 years ago

10.3389/fncel.2018.00352

IFN-γ Producing Th1 Cells Induce Different Transcriptional Profiles in Microglia and Astrocytes
Cited by: 22
Author(s): Chittappen Kandiyil Prajeeth, Oliver Dittrich‐Breiholz, Steven R. Talbot, Philippe A. Robert, Jochen Huehn, Martin Stangel
Software Mentions: 3
Published: almost 8 years ago

10.1128/mBio.00505-19

Codon Usage Heterogeneity in the Multipartite Prokaryote Genome: Selection-Based Coding Bias Associated with Gene Location, Expression Level, and Ancestry
Cited by: 17
Author(s): José Luis López, Mauricio Javier Lozano, Antonio Lagares, María Laura Fabre, Walter Omar Draghi, María Florencia Del Papa, Mariano Pistorio, Anke Becker, Daniel Wibberg, Andreas Schlüter, Alfred Pühler, Jochen Blom, Alexander Goesmann
Software Mentions: 3
Published: about 7 years ago

10.3389/fncel.2018.00528

Identification of Altered Developmental Pathways in Human Juvenile HD iPSC With 71Q and 109Q Using Transcriptome Profiling
Cited by: 24
Author(s): Karolina Świtońska, Wojciech J. Szlachcic, Luiza Handschuh, Paweł Wojciechowski, Łukasz Marczak, Michał Stelmaszczuk, Marek Figlerowicz, Maciej Figiel
Software Mentions: 3
Published: over 7 years ago

10.1038/srep40301

Evolution of protein N-glycosylation process in Golgi apparatus which shapes diversity of protein N-glycan structures in plants, animals and fungi
Cited by: 25
Author(s): Peng Wang, Hong Wang, Jiangtao Gai, Xiaoli Tian, Xiaoxiao Zhang, Yongzhi Lv, Yi Jiang
Software Mentions: 3
Published: over 9 years ago

10.1038/s41598-021-90583-y

Identification of Nrf2-responsive microRNA networks as putative mediators of myocardial reductive stress
Cited by: 13
Author(s): Justin M. Quiles, Mark E Pepin, Sini Sunny, Sandeep Shelar, Anil K. Challa, Brian Dalley, John R. Hoidal, Steven M. Pogwizd, Adam R. Wende, Namakkal S. Rajasekaran
Software Mentions: 3
Published: over 5 years ago

10.3390/jcm9092920

A Pilot Study on MicroRNA Profile in Tear Fluid to Predict Response to Anti-VEGF Treatments for Diabetic Macular Edema
Cited by: 9
Author(s): Hwei Wuen Chan, Binxia Yang, Wai P. Wong, Paul Blakeley, Ivan Seah, Queenie Shu Woon Tan, Haofei Wang, Mayuri Bhargava, Hazel Anne Lin, Charmaine Chai, Erlangga Ariadarma Mangunkusumo, Thet Naing, Yew Sen Yuen, Raman Sethi, Si Wang, Walter Hunziker, Lingam Gopal, Xinyi Su
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-021-95909-4

Identification of genes, pathways and transcription factor-miRNA-target gene networks and experimental verification in venous thromboembolism
Cited by: 3
Author(s): Yiming Su, Qiyi Li, Zhiyong Zheng, Xiaomin Wei, Peiyong Hou
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0249375

MiRNA-107 enhances the malignant progression of pancreatic cancer by targeting TGFBR3
Cited by: 11
Author(s): Tingke Tian, Qingmei Yang, Cuijuan Zhang, Xiaokun Li, Jiancheng Cheng
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2021.619056

Dynamic Transcriptome Sequencing of Bovine Alphaherpesvirus Type 1 and Host Cells Carried Out by a Multi-Technique Approach
Cited by: 5
Author(s): Dóra Tombácz, Norbert Moldován, Gábor Torma, Tibor Nagy, Ákos Hornyák, Zsolt Csabai, Gábor Gulyás, Miklós Boldogkői, Victoria A Jefferson, Zoltán Zádori, Florencia Meyer, Zsolt Boldogköi
Software Mentions: 3
Published: over 5 years ago

10.3389/fonc.2021.551160

Analysis of the EGFR Amplification and CDKN2A Deletion Regulated Transcriptomic Signatures Reveals the Prognostic Significance of SPATS2L in Patients With Glioma
Cited by: 16
Author(s): Haiwei Wang, Xinrui Wang, Liangpu Xu, Ji Zhang, Hua Cao
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0234029

An investigation into the beneficial effects and molecular mechanisms of humic acid on foxtail millet under drought conditions
Cited by: 8
Author(s): Jie Shen, Meijun Guo, Yuguo Wang, Xiangyang Yuan, Shuqi Dong, Xi-e Song, Peng Guo
Software Mentions: 3
Published: over 6 years ago

Projects: cran: pheatmap

Science Score: 75/100

Penalties:

Papers Mentioning pheatmap 2,572