cran: pheatmap | Projects | Ecosyste.ms: Papers

10.1001/jamanetworkopen.2020.13201

Association of<i>MUC16</i>Mutation With Response to Immune Checkpoint Inhibitors in Solid Tumors
Cited by: 50
Author(s): Lei Zhang, Xiaohong Han, Yuankai Shi
Software Mentions: 3
Published: about 6 years ago

10.1172/jci.insight.140134

Effects of tesamorelin on hepatic transcriptomic signatures in HIV-associated NAFLD
Cited by: 11
Author(s): Lindsay T Fourman, James M. Billingsley, George Agyapong, Shannan Ho Sui, Meghan N. Feldpausch, Julia B. Purdy, Isabel Zheng, Chelsea S Pan, Kathleen E. Corey, Martin Torriani, David E. Kleiner, Colleen Hadigan, Takara Stanley, Raymond T. Chung, Steven Grinspoon
Software Mentions: 3
Published: about 6 years ago

10.1172/jci.insight.145607

A surgical method for continuous intraportal infusion of gut microbial metabolites in mice
Cited by: 5
Author(s): Danny Orabi, Lucas J Osborn, Kevin Fung, William Massey, Anthony Horak, Federico Aucejo, Ibrahim Choucair, Beckey DeLucia, Zeneng Wang, Jan Claesen, J. Mark Brown
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

10.1038/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/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

10.1038/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

10.1038/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

10.1038/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

10.1038/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

10.1038/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

10.1038/s41598-020-74540-9

Transcriptome analysis of alternative splicing in the pathogen life cycle in human foreskin fibroblasts infected with Trypanosoma cruzi
Cited by: 4
Author(s): Hyeim Jung, Seonggyun Han, Younghee Lee
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-020-75904-x

Diverse and abundant resistome in terrestrial and aquatic vertebrates revealed by transcriptional analysis
Cited by: 13
Author(s): Yanmei Chen, Edward C. Holmes, Chen Xiao, Jiaxin Tian, Xian-Dan Lin, Xin-Cheng Qin, Wen-Hua Gao, Jing Liu, Zhongdao Wu, Yongzhen Zhang
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-020-76139-6

Multi-level analysis of reproduction in an Antarctic midge identifies female and male accessory gland products that are altered by larval stress and impact progeny viability
Cited by: 16
Author(s): Geoffrey Finch, Sonya Nandyal, Carlie Perretta, Benjamin Davies, Andrew J. Rosendale, Christopher J. Holmes, J. D. Gantz, Drew E. Spacht, Samuel T. Bailey, Marc E. Rothenberg, Kennan Oyen, Elise M. Didion, Souvik Chakraborty, Richard Lee, David L. Denlinger, Stephen F. Matter, Geoffrey M. Attardo, Matthew T. Weirauch, Joshua B. Benoit
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-020-77623-9

UBC9 coordinates inflammation affecting development of bladder cancer
Cited by: 15
Author(s): Xiaoliang Huang, Yuting Tao, Jiamin Gao, Xiaoting Zhou, Shaomei Tang, Caiwang Deng, Zhiyong Lai, Xinggu Lin, Qiuyan Wang, Tianyu Li
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-020-78439-3

Production of the antimicrobial compound tetrabromopyrrole and the Pseudomonas quinolone system precursor, 2-heptyl-4-quinolone, by a novel marine species Pseudoalteromonas galatheae sp. nov.
Cited by: 14
Author(s): Sara Skøtt Paulsen, Thomas Isbrandt, Markus Kirkegaard, Yannick Buijs, Mikael Lenz Strube, Eva C. Sonnenschein, Thomas Ostenfeld Larsen, Lone Gram
Software Mentions: 3
Published: over 5 years ago

10.3390/ijms20235912

Quantitative Trait Module-Based Genetic Analysis of Alzheimer’s Disease
Cited by: 4
Author(s): Shaoxun Yuan, Haitao Li, Jingjing Xie, Xiao Sun
Software Mentions: 3
Published: almost 7 years ago

10.3390/ijms21165640

Proteome-Wide Analyses Provide New Insights into the Compatible Interaction of Rice with the Root-Knot Nematode Meloidogyne graminicola
Cited by: 5
Author(s): Cheng Xiang, Xiaoping Yang, Deliang Peng, Houxiang Kang, Mao-Yan Liu, Wei Li, Wenkun Huang, Shiming Liu
Software Mentions: 3
Published: about 6 years ago

10.3390/ijms21176322

The Lysine Specific Demethylase-1 Negatively Regulates the COL9A1 Gene in Human Articular Chondrocytes
Cited by: 6
Author(s): Anne-Laure Durand, Alexandre Dufour, E. Aubert-Foucher, Christine Oger-Desfeux, Marielle Pasdeloup, Sébastien Lustig, Elvire Servien, Gualter Vaz, Emeline Perrier‐Groult, Frédéric Mallein-Gerin, J. Lafont
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

10.3390/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

10.3390/ijms22147298

Reprogramming mRNA Expression in Response to Defect in RNA Polymerase III Assembly in the Yeast Saccharomyces cerevisiae
Cited by: 1
Author(s): Izabela Rudzińska, Małgorzata Cieśla, Tomasz W. Turowski, Alicja Armatowska, Ewa Leśniewska, Magdalena Boguta
Software Mentions: 3
Published: about 5 years ago

10.3390/ijms221810073

Systemic Expression of Genes Involved in the Plant Defense Response Induced by Wounding in Senna tora
Cited by: 11
Author(s): Ji-Nam Kang, Woo-Haeng Lee, So Youn Won, Saemin Chang, Jaemin Hong, Tae‐Jin Oh, Si Myung Lee, Sang-Ho Kang
Software Mentions: 3
Published: almost 5 years ago

10.1186/s12974-020-01953-8

Coding transcriptome analyses reveal altered functions underlying immunotolerance of PEG-fused rat sciatic nerve allografts
Cited by: 2
Author(s): Tyler A. Smith, Cameron L. Ghergherehchi, Haley O. Tucker, George D. Bittner
Software Mentions: 3
Published: almost 6 years ago

10.1155/2021/1557968

Prognostic Analysis of Lung Adenocarcinoma Based on DNA Methylation Regulatory Factor Clustering
Cited by: 1
Author(s): Chen Yang, Chongquan Zhong, Shujun Bao, Fang Zheng, Jing Tang
Software Mentions: 3
Published: about 5 years ago

10.1155/2021/4664955

Systematic Profiling of mRNA Splicing Reveals the Prognostic Predictor and Potential Therapeutic Target for Glioblastoma Multiforme
Cited by: 5
Author(s): Botao Zhang, Quanyou Wu, Shujun Cheng, Wenbin Li
Software Mentions: 3
Published: about 5 years ago

10.18632/oncotarget.9037

Integrative analysis reveals clinical phenotypes and oncogenic potentials of long non-coding RNAs across 15 cancer types
Cited by: 16
Author(s): Zelin Wang, Bin Li, Stephen R. Piccolo, Xiaoqin Zhang, Junhao Li, Hui Zhou, Jianhua Yang, Liang‐Hu Qu
Software Mentions: 3
Published: over 10 years ago

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

10.18632/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

10.18632/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

10.18632/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

10.18632/oncotarget.27732

Novel combination therapy for melanoma induces apoptosis via a gap junction positive feedback mechanism
Cited by: 3
Author(s): Archis Bagati, Timothy C. Hutcherson, Zethan Koch, Joseph Pechette, Hossein Dianat, Cory Higley, Lisa Chiu, Yesul Song, Jay B. Shah, Elana Chazen, Andrew Nicolais, Peter Casey, Kyle Thompson, K. Burke, Mikhail A. Nikiforov, J. Zirnheld, Shoshanna N. Zucker
Software Mentions: 3
Published: almost 6 years ago

10.1186/s13018-020-01839-8

Bioinformatics analysis of differentially expressed genes in subchondral bone in early experimental osteoarthritis using microarray data
Cited by: 2
Author(s): Wang Zhao, Yong Ji, Hongwei Bao
Software Mentions: 3
Published: about 6 years ago

10.1515/med-2021-0241

A four-lncRNA signature for predicting prognosis of recurrence patients with gastric cancer
Cited by: 3
Author(s): Qiang Chen, Zunqi Hu, Xin Zhang, Ziran Wei, Hongbing Fu, Dejun Yang, Qing-Qing Cai
Software Mentions: 3
Published: over 5 years ago

10.1128/JVI.01010-21

Kinetic Multi-omic Analysis of Responses to SARS-CoV-2 Infection in a Model of Severe COVID-19
Cited by: 19
Author(s): Angelene M. Cantwell, Harinder Singh, Maryann P. Platt, Yonghao Yu, Yi‐Han Lin, Yuji Ikeno, Gene B. Hubbard, Yan Xiang, Norberto González-Juarbe, Peter H. Dube
Software Mentions: 3
Published: almost 5 years ago

10.1186/s13568-021-01200-0

Effects of altitude on human oral microbes
Cited by: 14
Author(s): Fang Liu, Tian Liang, Zhiying Zhang, Lijun Liu, Jing Li, Wenxue Dong, Han Zhang, Su Bai, Lifeng Ma, Longli Kang
Software Mentions: 3
Published: over 5 years ago

10.1186/s13568-020-00984-x

Diversity of active root-associated methanotrophs of three emergent plants in a eutrophic wetland in northern China
Cited by: 15
Author(s): Jiahe Cui, Ji Zhao, Zheng Wang, Weiwei Cao, Shaohua Zhang, Jumei Liu, Zhihua Bao
Software Mentions: 3
Published: over 6 years ago

10.1186/s40478-020-00956-z

Ultrastructural and dynamic studies of the endosomal compartment in Down syndrome
Cited by: 23
Author(s): Alexandra Botté, Jeanne Lainé, Laura Xicota, Xavier Heiligenstein, G. Fontaine, Amal Kasri, Isabelle Rivals, Pollyanna Goh, Orestis Faklaris, Jack-Christophe Cossec, Étienne Morel, Anne-Sophie Rebillat, Dean Nižetić, Graça Raposo, Marie‐Claude Potier
Software Mentions: 3
Published: about 6 years ago

10.1186/s40478-018-0569-2

ABCA1 haplodeficiency affects the brain transcriptome following traumatic brain injury in mice expressing human APOE isoforms
Cited by: 16
Author(s): Emilie L. Castranio, Cody M. Wolfe, Kyong Nyon Nam, Florent Letronne, Nicholas F. Fitz, Iliya Lefterov, Radosveta Koldamova
Software Mentions: 3
Published: about 8 years ago

10.1186/s40478-018-0636-8

Forced turnover of aged microglia induces an intermediate phenotype but does not rebalance CNS environmental cues driving priming to immune challenge
Cited by: 91
Author(s): Shane O'Neil, Kristina G. Witcher, Daniel B. McKim, Jonathan P. Godbout
Software Mentions: 3
Published: almost 8 years ago

10.1080/21623945.2020.1789283

Identification of differentially expressed mRNA and the Hub mRNAs modulated by lncRNA Meg3 as a competing endogenous RNA in brown adipose tissue of mice on a high-fat diet
Cited by: 5
Author(s): Yemin Zhang, Yalin Fu, Yuyang Zheng, Zhongyuan Wen, Changhua Wang
Software Mentions: 3
Published: over 6 years ago

10.1002/advs.202100962

Wireless Localized Electrical Stimulation Generated by an Ultrasound‐Driven Piezoelectric Discharge Regulates Proinflammatory Macrophage Polarization
Cited by: 37
Author(s): Ying Kong, Feng Liu, Baojin Ma, Jiazhi Duan, Wenhu Yuan, Yuanhua Sang, Lin Han, Shuhua Wang, Hong Liu
Software Mentions: 3
Published: over 5 years ago

10.18632/aging.203432

A comprehensive transcriptomic analysis of alternate interferon signaling pathways in peripheral blood mononuclear cells in rheumatoid arthritis
Cited by: 4
Author(s): Han Liang, Shenghao Tu, Pan Shen, Jiahui Yan, Yao Huang, Xin Ba, Tingting Li, Wei Chen Lin, Huihui Li, Kun Yu, Jing Guo, Ying Huang, Kai Qin, Yu Wang, Zhe Chen
Software Mentions: 3
Published: about 5 years ago

10.18632/aging.202163

Exploring diagnostic m6A regulators in endometriosis
Cited by: 32
Author(s): Li Jiang, Mengmeng Zhang, Jingni Wu, Sixue Wang, Yang Xiang, Mingyu Yi, Xinyue Zhang
Software Mentions: 3
Published: almost 6 years ago

10.18632/aging.202754

Identification of vital prognostic genes related to tumor microenvironment in pheochromocytoma and paraganglioma based on weighted gene co-expression network analysis
Cited by: 6
Author(s): Chun-Xian Chen, Dong‐Ning Chen, Xiong‐Lin Sun, Zhi‐Bin Ke, Fei Lin, Hang Chen, Xuan Tao, Fei Huang, Yong Wei, Ning Xu
Software Mentions: 3
Published: over 5 years ago

10.18632/aging.102300

COL6A6 interacted with P4HA3 to suppress the growth and metastasis of pituitary adenoma via blocking PI3K-Akt pathway
Cited by: 26
Author(s): Ruiqing Long, Zhuohui Liu, Jinghui Li, Hualin Yu
Software Mentions: 3
Published: almost 7 years ago

10.18632/aging.101541

Comprehensive analysis of circRNA expression pattern and circRNA-miRNA-mRNA network in the pathogenesis of atherosclerosis in rabbits
Cited by: 129
Author(s): Feng Zhang, Ruyou Zhang, Xiaoyu Zhang, Yingnan Wu, Xiaoying Li, Shuang Zhang, Wen-ying Hou, Yu Ding, Jiawei Tian, Lei Sun, Xiangdong Kong
Software Mentions: 3
Published: about 8 years ago

10.18632/aging.103958

Identification of genomic alterations and associated transcriptomic profiling reveal the prognostic significance of MMP14 and PKM2 in patients with pancreatic cancer
Cited by: 5
Author(s): Haiwei Wang, Xinrui Wang, Liangpu Xu, Yingying Lin, Ji Zhang, Hua Cao
Software Mentions: 3
Published: almost 6 years ago

10.18632/aging.102612

ASPM promotes glioblastoma growth by regulating G1 restriction point progression and Wnt-β-catenin signaling
Cited by: 29
Author(s): Xin Chen, Lijie Huang, Yang Yang, Suhua Chen, Jianjun Sun, Chang-cheng Ma, Jingcheng Xie, Yongmei Song, Jun Yang
Software Mentions: 3
Published: over 6 years ago

10.18632/aging.103811

A newly defined risk signature, consisting of three m6A RNA methylation regulators, predicts the prognosis of ovarian cancer
Cited by: 25
Author(s): Lili Fan, Yu Lin, Lei Han, Guang Shu, Lingyun He, Zhipeng Yan, Rihan Hai, Gang Yin
Software Mentions: 3
Published: almost 6 years ago

10.18632/aging.102178

Prognostic value of genome-wide DNA methylation patterns in noncoding miRNAs and lncRNAs in uveal melanomas
Cited by: 1
Author(s): Zheng Zhang, Dan Xu, Ke–Qing Shi, Minfeng Chen, Fan Liu
Software Mentions: 3
Published: about 7 years ago

10.18632/aging.102349

A molecular sub-cluster of colon cancer cells with low VDR expression is sensitive to chemotherapy, BRAF inhibitors and PI3K-mTOR inhibitors treatment
Cited by: 19
Author(s): Haiwei Wang, Xinrui Wang, Liangpu Xu, Ji Zhang, Hua Cao
Software Mentions: 3
Published: almost 7 years ago

10.18632/aging.202882

Transcriptome integration analysis and specific diagnosis model construction for Hodgkin's lymphoma, diffuse large B-cell lymphoma, and mantle cell lymphoma
Cited by: 2
Author(s): Wen‐Xing Li, Shao‐Xing Dai, Sanqi An, Tingting Sun, Justin Liu, Jun Wang, Leyna G. Liu, Yang Xiao, Hua Yang, Lixia Fan, Xiaoli Zhang, Wanqin Liao, Hua You, Luca Tamagnone, Fang Liu, Jing‐Fei Huang, Dahai Liu
Software Mentions: 3
Published: over 5 years ago

10.18632/aging.203039

Transcriptomic profile of the mice aging lung is associated with inflammation and apoptosis as important pathways
Cited by: 6
Author(s): Jazmín Calyeca, Yalbi I. Balderas-Martínez, Moisés Selman, Annie Pardo
Software Mentions: 3
Published: over 5 years ago

10.1155/2021/9652420

MicroRNA-520a Suppresses Pathogenesis and Progression of Non-Small-Cell Lung Cancer through Targeting the RRM2/Wnt Axis
Cited by: 11
Author(s): Youhua Xie, Congyu Xue, Shuai Guo, Lei Yang
Software Mentions: 3
Published: over 5 years ago

10.1155/2021/6697407

Identification of a 5-Gene-Based Scoring System by WGCNA and LASSO to Predict Prognosis for Rectal Cancer Patients
Cited by: 3
Author(s): He Huang, Shilei Xu, Aidong Chen, Fen Li, Jiezhong Wu, Xusheng Tu, Kunpeng Hu
Software Mentions: 3
Published: over 5 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

10.1186/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

10.1186/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/s12859-014-0422-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

10.1186/s12862-017-1074-0

Evidence of high-altitude adaptation in the glyptosternoid fish, Creteuchiloglanis macropterus from the Nujiang River obtained through transcriptome analysis
Cited by: 17
Author(s): Jingliang Kang, Xiuhui Ma, Shunping He
Software Mentions: 3
Published: almost 9 years ago

10.1186/s12864-020-6743-5

Transcriptome analysis reveals rapid defence responses in wheat induced by phytotoxic aphid Schizaphis graminum feeding
Cited by: 19
Author(s): Yong Zhang, Yu Fu, Qian Wang, Fei Liu, Qian Li, Julian Chen
Software Mentions: 3
Published: over 6 years ago

10.1186/s12864-021-07378-8

Genome-wide characterization of the WAK gene family and expression analysis under plant hormone treatment in cotton
Cited by: 19
Author(s): Dou Liu, Zhifang Li, Qian Shen, Huiran Shi, Huaizhu Li, Wenbo Wang, Changsong Zou, Hǎihóng Shāng, Hongbin Li, Gao Xiao
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-021-07894-7

Comparative genome and transcriptome analyses reveal innate differences in response to host plants by two color forms of the two-spotted spider mite Tetranychus urticae
Cited by: 4
Author(s): Shi‐Mei Huo, Zhichao Yan, Na Zhang, Lei Chen, Jing‐Tao Sun, Ary A. Hoffmann, Xiao‐Yue Hong
Software Mentions: 3
Published: about 5 years ago

10.1186/1471-2164-14-171

Transcriptomics of morphological color change in polychromatic Midas cichlids
Cited by: 76
Author(s): Frederico Henning, Julia C. Jones, Paolo Franchini, Axel Meyer
Software Mentions: 3
Published: over 13 years ago

10.1186/s12864-021-07653-8

Genome-wide identification of cyclin-dependent kinase (CDK) genes affecting adipocyte differentiation in cattle
Cited by: 12
Author(s): Cuili Pan, Zhaoxiong Lei, Shuzhe Wang, Xingping Wang, Dawei Wei, Xiaoyan Cai, Zhuoma Luoreng, Lei Wang, Yun Ma
Software Mentions: 3
Published: about 5 years ago

10.1186/s12864-015-1586-1

Comparative transcriptome profiling of Pyropia yezoensis (Ueda) M.S. Hwang & H.G. Choi in response to temperature stresses
Cited by: 61
Author(s): Peilong Sun, Yunxiang Mao, Guiyang Li, Min Cao, Fanna Kong, Lili Wang, Guoan Bi
Software Mentions: 3
Published: about 11 years ago

10.1186/s12864-019-6000-y

Hybrid sequencing of the Gynostemma pentaphyllum transcriptome provides new insights into gypenoside biosynthesis
Cited by: 14
Author(s): Tongtong Liang, Li-Qiu Zou, Sijie Sun, Xue-Jun Kuang, Jianhe Wei, Lizhi Wang, Ying Liu, Chao Sun
Software Mentions: 3
Published: about 7 years ago

10.1186/s12864-019-6340-7

The transcriptome variations of Panaxnotoginseng roots treated with different forms of nitrogen fertilizers
Cited by: 11
Author(s): Xiaohong Ou, Shipeng Li, Peiran Liao, Xiuming Cui, Binglian Zheng, Ye Yang, Dahui Liu, Yun Zheng
Software Mentions: 3
Published: almost 7 years ago

10.1186/s12864-021-07536-y

Expression characteristics of pineal miRNAs at ovine different reproductive stages and the identification of miRNAs targeting the AANAT gene
Cited by: 1
Author(s): Ran Di, Qiu Yue Liu, Shu Hui Song, Dong Tian, Jian He, Ying Ge, Xiang Yu Wang, Wen Hu, Joram M. Mwacharo, Zhang Yuan Pan, Jian Dong Wang, Qing Ma, G. L. Cao, Hui Jin, Liang Xiao, M. X. Chu
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-019-5603-7

Genomic comparison of serogroups O159 and O170 with other Vibrio cholerae serogroups
Cited by: 8
Author(s): Zhenpeng Li, Xin Lü, Duochun Wang, Wei Li Liang, Jingyun Zhang, Jie Li, Jialiang Xu, Bo Pang, Biao Kan
Software Mentions: 3
Published: over 7 years ago

10.1186/s12864-018-5325-2

Analysis of microRNAs, phased small interfering RNAs and their potential targets in Rosarugosa Thunb.
Cited by: 12
Author(s): Junqiang Guo, Qingyi Wang, Li Liu, Shuchao Ren, Shipeng Li, Peiran Liao, Zhigang Zhao, Chenyu Lu, Bingbing Jiang, Ramanjulu Sunkar, Yun Zheng
Software Mentions: 3
Published: over 7 years ago

10.1186/s12881-020-0992-7

An eight-mRNA signature outperforms the lncRNA-based signature in predicting prognosis of patients with glioblastoma
Cited by: 7
Author(s): Zhenyu Gong, Hong Fan, Hongxiang Wang, Xu Zhang, Juxiang Chen
Software Mentions: 3
Published: over 6 years ago

10.1186/s12920-020-0707-0

Transcriptome analysis reveals the link between lncRNA-mRNA co-expression network and tumor immune microenvironment and overall survival in head and neck squamous cell carcinoma
Cited by: 19
Author(s): Zhaoming Zhong, Min Hee Hong, Xiao Chen, Yan Xi, Yuanyuan Xu, Deyu Kong, Jun Deng, Yun Li, Rui Hu, Chuanzheng Sun, Jin Liang
Software Mentions: 3
Published: over 6 years ago

10.1186/s12920-019-0645-x

CDK1 and CCNB1 as potential diagnostic markers of rhabdomyosarcoma: validation following bioinformatics analysis
Cited by: 23
Author(s): Qianru Li, Liang Zhang, Jinfang Jiang, Yangyang Zhang, Xiaomeng Wang, Qiaochu Zhang, Yang Wang, Chunxia Liu, Feng Li
Software Mentions: 3
Published: almost 7 years ago

10.1186/s12920-019-0643-z

RNA-seq from archival FFPE breast cancer samples: molecular pathway fidelity and novel discovery
Cited by: 30
Author(s): Nathan D. Pennock, Sonali Jindal, Wesley Horton, Duanchen Sun, Jayasri Narasimhan, Lucia Carbone, Suzanne S. Fei, Robert P. Searles, Christina A. Harrington, Julja Burchard, Sheila Weinmann, Pepper Schedin, Zheng Xia
Software Mentions: 3
Published: almost 7 years ago

10.1186/s12920-018-0467-2

Glucocorticoid-driven transcriptomes in human airway epithelial cells: commonalities, differences and functional insight from cell lines and primary cells
Cited by: 29
Author(s): Mahmoud Mostafa, Christopher F. Rider, Suharsh Shah, Suzanne L. Traves, Paul M. Gordon, Anna Miller‐Larsson, Richard Leigh, Robert Newton
Software Mentions: 3
Published: over 7 years ago

10.1186/s12920-021-00971-6

Bioinformatic identification of hub genes and related transcription factors in low shear stress treated endothelial cells
Cited by: 2
Author(s): Yang Yang, Xiangshan Xu
Software Mentions: 3
Published: over 5 years ago

10.1186/s12866-020-02024-x

High-throughput sequencing analysis of the rhizosphere arbuscular mycorrhizal fungi (AMF) community composition associated with Ferula sinkiangensis
Cited by: 15
Author(s): Yunfeng Luo, Zhongke Wang, Ya-Ling He, Guifang Li, Xinhua Lv, Zhuang Li
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12882-018-1012-4

Fine needle aspirates of kidneys: a promising tool for RNA sequencing in native and transplanted kidneys
Cited by: 7
Author(s): Øystein Eikrem, Tedd Christian Walther, Arnar Flatberg, Vidar Beisvåg, Philipp Strauss, Mikael Farstad, Christian Beisland, Even Koch, Thomas Mueller, Hans-Peter Marti
Software Mentions: 3
Published: about 8 years ago

10.1186/s12870-020-02499-w

Genetic diversity of SAD and FAD genes responsible for the fatty acid composition in flax cultivars and lines
Cited by: 17
Author(s): Alexey A. Dmitriev, Parfait Kezimana, Tatiana A. Rozhmina, А. А. Жученко, Liubov V. Povkhova, Elena N. Pushkova, Roman O. Novakovskiy, Miroslav Pavelek, Gleb Vladimirov, Evgeny N. Nikolaev, Oxana Kovaleva, Yury Kostyukevich, Vitaliy Chagovets, Е. В. Романова, Anastasiya V. Snezhkina, Anna V. Kudryavtseva, George S. Krasnov, Nataliya V. Melnikova
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12870-021-03078-3

Genome-wide identification and expression analysis of LBD transcription factor genes in Moso bamboo (Phyllostachys edulis)
Cited by: 17
Author(s): Bin Huang, Zhinuo Huang, Ruifang Ma, Muthusamy Ramakrishnan, Jialu Chen, Zhijun Zhang, Kim Yrjälä
Software Mentions: 3
Published: about 5 years ago

10.1186/s12870-020-02634-7

The Transcriptome of Cunninghamia lanceolata male/female cone reveal the association between MIKC MADS-box genes and reproductive organs development
Cited by: 12
Author(s): Dandan Wang, Zhaodong Hao, Xiaofei Long, Zhanjun Wang, Xianrui Zheng, Daiquan Ye, Peng Ye, Weihuang Wu, Xiangyang Hu, Guibin Wang, Renhua Zheng, Jisen Shi, Jinhui Chen
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12870-015-0627-x

Transcriptomic comparison of the self-pollinated and cross-pollinated flowers of Erigeron breviscapus to analyze candidate self-incompatibility-associated genes
Cited by: 19
Author(s): Wei Zhang, Wei Xiang, Meng Heng-lin, Chunhua Ma, Ni-Hao Jiang, Guanghui Zhang, Shengchao Yang
Software Mentions: 3
Published: almost 11 years ago

10.1186/s12870-018-1304-7

Potential molecular mechanisms of overgrazing-induced dwarfism in sheepgrass (Leymus chinensis) analyzed using proteomic data
Cited by: 5
Author(s): Weibo Ren, Jihong Xie, Xiangyang Hou, Xiliang Li, Guo H, Ningning Hu, Lingyin Kong, Jize Zhang, Chun Chang, Zinian Wu
Software Mentions: 3
Published: over 8 years ago

10.1186/s12870-017-1165-5

Genome-wide analysis of the auxin/indoleacetic acid (Aux/IAA) gene family in allotetraploid rapeseed (Brassica napus L.)
Cited by: 27
Author(s): Haitao Li, Bo Wang, Qinghua Zhang, Jing Wang, Graham J. King, Kede Liu
Software Mentions: 3
Published: almost 9 years ago

10.1186/s12870-021-03049-8

Transcriptome and metabolomic analysis to reveal the browning spot formation of ‘Huangguan’ pear
Cited by: 10
Author(s): Qi Wang, Xinyi Wu, Li Liu, Daozhi Yao, Jinchao Li, Jie Fang, Xiaonan Chen, Li Zhu, Pu Liu, Zhenfeng Ye, Bing Jia, Wei Heng
Software Mentions: 3
Published: about 5 years ago

10.1080/21655979.2021.1911557

Identification and validation of the prognostic value of cyclic GMP-AMP synthase-stimulator of interferon (cGAS-STING) related genes in gastric cancer
Cited by: 10
Author(s): Kui-Sheng Yang, Changqing Xu, Jian Lv
Software Mentions: 3
Published: over 5 years ago

10.1186/s12575-020-00125-5

Combination of Size-Exclusion Chromatography and Ultracentrifugation Improves the Proteomic Profiling of Plasma-Derived Small Extracellular Vesicles
Cited by: 33
Author(s): Rui Wei, Libo Zhao, Guanyi Kong, Xiang Liu, Shoumin Zhu, Shutian Zhang, Li Min
Software Mentions: 3
Published: about 6 years ago

Projects: cran: pheatmap

Science Score: 75/100

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Papers Mentioning pheatmap 2,572