bioconductor: edgeR | Projects | Ecosyste.ms: Papers

10.3390/insects11110816

Chemosensory-Related Gene Family Members of the Horn Fly, Haematobia irritans irritans (Diptera: Muscidae), Identified by Transcriptome Analysis
Cited by: 5
Author(s): Pia U. Olafson, Christopher Saski
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pgen.1008667

DNA methylation and cis-regulation of gene expression by prostate cancer risk SNPs
Cited by: 14
Author(s): James Y. Dai, Xiaoyu Wang, Bo Wang, Wei Sun, Kristina M. Jordahl, Suzanne Kolb, Yaw A. Nyame, Jonathan L. Wright, Elaine A. Ostrander, Ziding Feng, Janet L. Stanford
Software Mentions: 1
Published: over 6 years ago

10.1515/med-2020-0237

Key pathways in prostate cancer with SPOP mutation identified by bioinformatic analysis
Cited by: 2
Author(s): Guanxiong Ding, Jian Sun, Lianhua Jiang, Peng Gao, Qing Zhou, Jianqing Wang, Shijun Tong
Software Mentions: 1
Published: over 6 years ago

10.3390/insects12030209

Antennal Transcriptome Analysis and Identification of Candidate Chemosensory Genes of the Harlequin Ladybird Beetle, Harmonia axyridis (Pallas) (Coleoptera: Coccinellidae)
Cited by: 11
Author(s): Gabriele Rondoni, Alessandro Roman, Camille Meslin, Nicolas Montagné, Eric Conti, Emmanuelle Jacquin‐Joly
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pgen.1005506

Identification of Four Mouse Diabetes Candidate Genes Altering β-Cell Proliferation
Cited by: 35
Author(s): Oliver Kluth, Daniela Matzke, Anne Kamitz, Markus Jähnert, Heike Vogel, Stephan Scherneck, Matthias B. Schulze, Harald Staiger, Fausto Machicao, Hans‐Ulrich Häring, Hans‐Georg Joost, Annette Schürmann
Software Mentions: 1
Published: almost 11 years ago

10.1172/jci.insight.89631

Plasma vesicle miRNAs for therapy response monitoring in Hodgkin lymphoma patients
Cited by: 113
Author(s): Monique A.J. van Eijndhoven, Josée M. Zijlstra, Nils J. Groenewegen, Esther E.E. Drees, Stuart van Niele, S. Rubina Baglio, Danijela Koppers-Lalić, Hans van der Voorn, Sten F. W. M. Libregts, Marca H. M. Wauben, Renée X. de Menezes, Jan R.T. van Weering, Rienk Nieuwland, Lydia Visser, Anke van den Berg, Daphne de Jong, D. Michiel Pegtel
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pgen.1004364

SHP2 Regulates Chondrocyte Terminal Differentiation, Growth Plate Architecture and Skeletal Cell Fates
Cited by: 51
Author(s): Margot E. Bowen, Ugur M. Ayturk, Kyle C. Kurek, Wentian Yang, Matthew L. Warman
Software Mentions: 1
Published: over 12 years ago

10.1515/med-2021-0276

Four long noncoding RNAs act as biomarkers in lung adenocarcinoma
Cited by: 3
Author(s): Zhihui Zhang, Liu Yang, Yujiang Li, Yingxi Wu, Xiang Li, Xu Wu
Software Mentions: 1
Published: over 5 years ago

10.1007/s00109-020-01922-x

Opposite regulation of piRNAs, rRNAs and miRNAs in the blood after subarachnoid hemorrhage
Cited by: 2
Author(s): Rafał Morga, Małgorzata Borczyk, Michał Korostyński, Marcin Piechota, Dżesika Hoinkis, Sławomir Gołda, Tomasz Dziedzic, Agnieszka Słowik, Marek Moskała, Joanna Pera
Software Mentions: 1
Published: over 6 years ago

10.1007/s00109-020-01954-3

Investigating the importance of B cells and antibodies during Trichuris muris infection using the IgMi mouse
Cited by: 4
Author(s): Rinal Sahputra, Erin A. Murphy, Ruth Forman, Iris Mair, Muhammad Zaki Hidayatullah Fadlullah, Ari Waisman, Werner Müller, Kathryn J. Else
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pgen.1002327

MicroRNA Expression and Regulation in Human, Chimpanzee, and Macaque Brains
Cited by: 112
Author(s): Hai Hu, Songlin Guo, Xi Jiang, Yanyan Zheng, Ning Fu, Xiaoyu Zhang, Corinna Menzel, Hongyu Liang, Hongyi Yang, Min Zhao, Rong Zeng, Wei Chen, Svante Pääbo, Philipp Khaitovich
Software Mentions: 1
Published: almost 15 years ago

10.1186/s12862-015-0322-4

Genetic variation of transgenerational plasticity of offspring germination in response to salinity stress and the seed transcriptome of Medicago truncatula
Cited by: 52
Author(s): Wendy Vu, Peter L. Chang, Ken S. Moriuchi, Maren Friesen
Software Mentions: 1
Published: over 11 years ago

10.1172/jci.insight.143023

Shifting osteogenesis in vascular calcification
Cited by: 11
Author(s): Jiayi Yao, Xinhui Wu, Xuguang Qiao, Daoqin Zhang, Li Zhang, Jocelyn Ma, Xinjiang Cai, Kristina I. Boström, Yucheng Yao
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pgen.1006422

Intron Lariat RNA Inhibits MicroRNA Biogenesis by Sequestering the Dicing Complex in Arabidopsis
Cited by: 68
Author(s): Ziwei Li, Shengpeng Wang, Cheng Junfeng, Chunxia Su, Zhong Songxiao, Qi Liu, Yuda Fang, Yao Yu, Hong Liu, Yun Zheng, Binglian Zheng
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pgen.1004043

Tomato Yield Heterosis Is Triggered by a Dosage Sensitivity of the Florigen Pathway That Fine-Tunes Shoot Architecture
Cited by: 82
Author(s): Ke Jiang, Katie L. Liberatore, Soon Ju Park, John Paul Alvarez, Zachary B. Lippman
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pgen.1005536

Fungal Infection Induces Sex-Specific Transcriptional Changes and Alters Sexual Dimorphism in the Dioecious Plant Silene latifolia
Cited by: 24
Author(s): Niklaus Zemp, Raquel Tavares, Alex Widmer
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pgen.1005093

Male-Biased Aganglionic Megacolon in the TashT Mouse Line Due to Perturbation of Silencer Elements in a Large Gene Desert of Chromosome 10
Cited by: 32
Author(s): Karl-F. Bergeron, Tatiana Cardinal, Aboubacrine M. Touré, Mélanie Béland, Diana L. Raiwet, David W. Silversides, Nicolas Pilon
Software Mentions: 1
Published: over 11 years ago

10.1186/s12861-017-0147-z

Transcriptome profiling reveals expression signatures of cranial neural crest cells arising from different axial levels
Cited by: 23
Author(s): Rachael Lumb, Sam Buckberry, Genevieve A. Secker, David Lawrence, Quenten Schwarz
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pgen.1008451

The comprehensive role of E-cadherin in maintaining prostatic epithelial integrity during oncogenic transformation and tumor progression
Cited by: 19
Author(s): Adam Olson, Vien Le, Joseph Aldahl, Eui-Young Yu, Erika Hooker, Yongfeng He, Dong-Hoon Lee, Won Kyung Kim, Robert D. Cardiff, Joseph Geradts, Zijie Sun
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pgen.1008045

Discovery and characterization of variance QTLs in human induced pluripotent stem cells
Cited by: 55
Author(s): Abhishek Sarkar, Po-Yuan Tung, John Blischak, Jonathan E. Burnett, Yang Li, Matthew Stephens, Yoav Gilad
Software Mentions: 1
Published: over 7 years ago

10.1021/acs.jafc.1c00130

1H NMR Metabolomics and Full-Length RNA-Seq Reveal Effects of Acylated and Nonacylated Anthocyanins on Hepatic Metabolites and Gene Expression in Zucker Diabetic Fatty Rats
Cited by: 8
Author(s): Kang Chen, Xuetao Wei, Raghunath Pariyani, Maaria Kortesniemi, Yumei Zhang, Baoru Yang
Software Mentions: 1
Published: over 5 years ago

10.1016/j.jaci.2016.05.031

Tumor progression locus 2 reduces severe allergic airway inflammation by inhibiting Ccl24 production in dendritic cells
Cited by: 9
Author(s): Yashaswini Kannan, Yanda Li, Stephanie M. Coomes, Isobel Okoye, Victoria S. Pelly, Srividya Sriskantharajah, Eva Gückel, Lauren M. Webb, Stephanie Czieso, Nikolay P. Nikolov, Andrew S. MacDonald, Steven C. Ley, Mark S. Wilson
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pgen.1006772

Pheromone independent unisexual development in Cryptococcus neoformans
Cited by: 27
Author(s): Rachana Gyawali, Youbao Zhao, Jianfeng Lin, Yumeng Fan, Xinping Xu, Srijana Upadhyay, Xiaorong Lin
Software Mentions: 1
Published: over 9 years ago

10.1186/s40104-017-0202-4

Evaluation of fatty acid metabolism and innate immunity interactions between commercial broiler, F1 layer × broiler cross and commercial layer strains selected for different growth potentials
Cited by: 8
Author(s): Nicky‐Lee Willson, R. E. A. Forder, Rick Tearle, G. S. Nattrass, Robert J. Hughes, P. I. Hynd
Software Mentions: 1
Published: about 9 years ago

10.3390/v13010140

Interactions of Viral Proteins from Pathogenic and Low or Non-Pathogenic Orthohantaviruses with Human Type I Interferon Signaling
Cited by: 8
Author(s): Giulia Gallo, Grégory Caignard, Karine Badonnel, Guillaume Chevreux, Samuel Terrier, Agnieszka M. Szemiel, Gleyder Román-Sosa, Florian Binder, Quan Gu, Ana da Silva Filipe, Rainer G. Ulrich, Alain Kohl, Damien Vitour, Noël Tordo, Myriam Ermonval
Software Mentions: 1
Published: over 5 years ago

10.1186/s12861-015-0054-0

Development of the follicular basement membrane during human gametogenesis and early folliculogenesis
Cited by: 66
Author(s): A. Marijne Heeren, Liesbeth van Iperen, Daniëlle B Klootwijk, Ana de Melo Bernardo, Matthias S Roost, Maria M Gomes Fernandes, L. A. Louwe, Carina G. J. M. Hilders, Frans M. Helmerhorst, Lucette Aj van der Westerlaken, Susana M. Chuva de Sousa Lopes
Software Mentions: 1
Published: over 11 years ago

10.1093/jac/dkaa296

A genome-wide analysis of Escherichia coli responses to fosfomycin using TraDIS-Xpress reveals novel roles for phosphonate degradation and phosphate transport systems
Cited by: 13
Author(s): A. Keith Turner, Muhammad Yasir, Sarah Bastkowski, Andrea Telatin, Andrew J. Page, Ian G. Charles, Mark A. Webber
Software Mentions: 1
Published: about 6 years ago

10.18632/aging.203157

Immune infiltration-related N6-methyladenosine RNA methylation regulators influence the malignancy and prognosis of endometrial cancer
Cited by: 19
Author(s): Jian Ma, Di Yang, Xiaolong Ma
Software Mentions: 1
Published: about 5 years ago

10.1074/jbc.M116.733733

miR-30 Family Controls Proliferation and Differentiation of Intestinal Epithelial Cell Models by Directing a Broad Gene Expression Program That Includes SOX9 and the Ubiquitin Ligase Pathway
Cited by: 33
Author(s): Bailey C. E. Peck, John Sincavage, Sydney Feinstein, Amanda T. Mah, James G. Simmons, P. Kay Lund, Praveen Sethupathy
Software Mentions: 1
Published: about 10 years ago

10.3390/v12030329

Pervasive Differential Splicing in Marek’s Disease Virus Can Discriminate CVI-988 Vaccine Strain from RB-1B Very Virulent Strain in Chicken Embryonic Fibroblasts
Cited by: 6
Author(s): Yashar Sadigh, Abdessamad Tahiri-Alaoui, Stephen J. Spatz, Venugopal Nair, Paolo Ribeca
Software Mentions: 1
Published: over 6 years ago

10.1128/JVI.01873-15

Epstein-Barr Viruses (EBVs) Deficient in EBV-Encoded RNAs Have Higher Levels of Latent Membrane Protein 2 RNA Expression in Lymphoblastoid Cell Lines and Efficiently Establish Persistent Infections in Humanized Mice
Cited by: 19
Author(s): Goran Gregorovic, Elizabeth A. Boulden, Rachel Bosshard, Claudio Elgueta Karstegl, Rebecca L. Skalsky, Bryan R. Cullen, Cornelia Gujer, Patrick C. Rämer, Christian Münz, Paul J. Farrell
Software Mentions: 1
Published: almost 11 years ago

10.18632/aging.101904

The acute transcriptional response to resistance exercise: impact of age and contraction mode
Cited by: 14
Author(s): Colleen S. Deane, Ryan M. Ames, Bethan E. Phillips, Michael N. Weedon, Craig R. G. Willis, Catherine Boereboom, Haitham Abdulla, Syed S I Bukhari, Jonathan N. Lund, John P. Williams, Daniel J. Wilkinson, Kenneth Smith, Iain J. Gallagher, Fawzi Kadi, Nathaniel J. Szewczyk, Philip J. Atherton, Timothy Etheridge
Software Mentions: 1
Published: over 7 years ago

10.3390/v11060498

Cholesterol-25-hydroxylase Is a Chicken ISG That Restricts ALV-J Infection by Producing 25-hydroxycholesterol
Cited by: 26
Author(s): Tingting Xie, Mei Feng, Manman Dai, Guodong Mo, Zonghai Ruan, Guiyan Wang, Meiqing Shi, Xiquan Zhang
Software Mentions: 1
Published: over 7 years ago

10.1074/jbc.RA120.015877

Elongin A associates with actively transcribed genes and modulates enhancer RNA levels with limited impact on transcription elongation rate in vivo
Cited by: 13
Author(s): M. Behfar Ardehali, Manashree Damle, Carlos Perea-Resa, Michael D. Blower, Robert E. Kingston
Software Mentions: 1
Published: over 5 years ago

10.1016/j.jbc.2021.100403

Targeting primary and metastatic uveal melanoma with a G protein inhibitor
Cited by: 20
Author(s): Michael D. Onken, Carol M. Makepeace, Kevin M. Kaltenbronn, Joelle Choi, Leonel F. Hernandez‐Aya, Katherine N. Weilbaecher, Kisha Piggott, P. Kumar Rao, Carla M. Yuede, Alethia J. Dixon, Patrick Osei‐Owusu, John A. Cooper, Kendall J. Blumer
Software Mentions: 1
Published: over 5 years ago

10.1186/s12872-020-01629-4

Electronic cigarette extract induced toxic effect in iPS-derived cardiomyocytes
Cited by: 7
Author(s): Hesham Basma, Swetha Tatineni, Kajari Dhar, Fang Qiu, Stephen I. Rennard, Brian D. Lowes
Software Mentions: 1
Published: about 6 years ago

10.3390/v11050473

Transcriptome Response of Female Culicoides sonorensis Biting Midges (Diptera: Ceratopogonidae) to Early Infection with Epizootic Hemorrhagic Disease Virus (EHDV-2)
Cited by: 5
Author(s): Dana Nayduch, Vijay Shankar, Mary Katherine Mills, Tanner Robl, Barbara S. Drolet, Mark G. Ruder, Erin D. Scully, Christopher Saski
Software Mentions: 1
Published: over 7 years ago

10.1186/s12885-017-3907-z

Gene-expression signature regulated by the KEAP1-NRF2-CUL3 axis is associated with a poor prognosis in head and neck squamous cell cancer
Cited by: 75
Author(s): Akhileshwar Namani, Md. Matiur Rahaman, Ming Chen, Xiuwen Tang
Software Mentions: 1
Published: over 8 years ago

10.3390/v6124880

Immunology of Bats and Their Viruses: Challenges and Opportunities
Cited by: 76
Author(s): Tony Schountz
Software Mentions: 1
Published: over 11 years ago

10.1016/j.jbc.2021.101156

Iron loading induces cholesterol synthesis and sensitizes endothelial cells to TNFα-mediated apoptosis
Cited by: 9
Author(s): Allison L. Fisher, Daniel N. Srole, Nicolaos Palaskas, David Meriwether, Srinivasa T. Reddy, Tomas Ganz, Elizabeta Nemeth
Software Mentions: 1
Published: almost 5 years ago

10.1186/s12929-018-0477-6

Differential genome-wide profiling of alternative polyadenylation sites in nasopharyngeal carcinoma by high-throughput sequencing
Cited by: 7
Author(s): Ya Xu, Ying Qing Li, Na Liu, Qiuming He, Xin Tang, Xin Wen, Xiao Yang, Ying Sun, Ling TANG
Software Mentions: 1
Published: almost 8 years ago

10.1186/s12885-019-6032-3

Survival analysis of immune-related lncRNA in low-grade glioma
Cited by: 46
Author(s): Xiaozhi Li, Yutong Meng
Software Mentions: 1
Published: about 7 years ago

10.1186/s12885-021-08193-w

High HSPA8 expression predicts adverse outcomes of acute myeloid leukemia
Cited by: 18
Author(s): Jun Li, Zheng Ge
Software Mentions: 1
Published: over 5 years ago

10.3390/v6031317

Hantavirus Immunology of Rodent Reservoirs: Current Status and Future Directions
Cited by: 46
Author(s): Tony Schountz, Joseph Prescott
Software Mentions: 1
Published: over 12 years ago

10.7150/jca.33157

Establishment and Characterization of a CTC Cell Line from Peripheral Blood of Breast Cancer Patient
Cited by: 19
Author(s): Pan Zhao, Weiping Zhou, Chang Liu, Huirong Zhang, Zhiqiang Cheng, Weiqing Wu, Kaisheng Liu, Hong Hu, Caineng Zhong, Yayuan Zhang, Dongxian Zhou, Feiyuan Liu, Yong Dai, Jianhong Wang, Chang Zou
Software Mentions: 1
Published: over 7 years ago

10.1007/s11262-019-01676-w

Transcriptome analysis of fowl adenovirus serotype 4 infection in chickens
Cited by: 8
Author(s): Guangcai Ren, Han Wang, Miaorong Huang, Yuanyuan Yan, Liu Fan, Ruiai Chen
Software Mentions: 1
Published: about 7 years ago

10.1080/21505594.2020.1857572

Comprehensive analysis of lncRNA expression profiles in cytopathic biotype BVDV-infected MDBK cells provides an insight into biological contexts of host–BVDV interactions
Cited by: 11
Author(s): Xun Gao, Chao Niu, Zhuo Wang, Shijie Jia, Meijing Han, Yingying Ma, Xiaohong Guan, Li Wang, Xinyuan Qiao, Yigang Xu
Software Mentions: 1
Published: over 5 years ago

10.1080/21505594.2020.1838741

Aprepitant, an antiemetic agent, interferes with metal ion homeostasis ofCandida aurisand displays potent synergistic interactions with azole drugs
Cited by: 18
Author(s): Hassan E. Eldesouky, Nadia A. Lanman, Tony R. Hazbun, Mohamed N. Seleem
Software Mentions: 1
Published: almost 6 years ago

10.1186/s12885-015-1586-1

Somatic drivers of B-ALL in a model of ETV6-RUNX1; Pax5 +/− leukemia
Cited by: 20
Author(s): Louise van der Weyden, George Giotopoulos, Kim Wong, Alistair G. Rust, Carla Daniela Robles-Espinoza, Hikari Osaki, Brian J. P. Huntly, David J. Adams
Software Mentions: 1
Published: about 11 years ago

10.7150/jca.37267

Overexpression of DUSP6 enhances chemotherapy-resistance of ovarian epithelial cancer by regulating the ERK signaling pathway
Cited by: 17
Author(s): Yan Gao, Hui Li, Qing Han, Yuan Li, Tongxia Wang, Cuiyu Huang, Youdong Mao, Xi Wang, Qun Zhang, Tian Jing, David M. Irwin, Tan H, Hongyan Guo
Software Mentions: 1
Published: over 6 years ago

10.1186/s40478-018-0555-8

Dipeptide repeat proteins activate a heat shock response found in C9ORF72-ALS/FTLD patients
Cited by: 22
Author(s): Daniel A. Mordes, Mercedes Prudencio, Lindsey D. Goodman, Joseph R. Klim, Rob Moccia, Francesco Limone, Olli Pietiläinen, Kaitavjeet Chowdhary, Dennis W. Dickson, Rosa Rademakers, Nancy M. Bonini, Leonard Petrucelli, Kevin Eggan
Software Mentions: 1
Published: about 8 years ago

10.1080/21505594.2020.1726561

Distinct host-immune response toward species related intracellular mycobacterial killing: A transcriptomic study
Cited by: 9
Author(s): Abhilasha Madhvi, Hridesh Mishra, Novel N. Chegou, Gerard Tromp, Carel Jacobus Van Heerden, Ray-Dean Pietersen, Gina Leisching, Bienyameen Baker
Software Mentions: 1
Published: over 6 years ago

10.1186/s12885-020-07399-8

Prediction of prognostic signatures in triple-negative breast cancer based on the differential expression analysis via NanoString nCounter immune panel
Cited by: 5
Author(s): Gregory B. Lim, Young-Ae Kim, Jihoon Seo, Hee Jin Lee, Gyungyub Gong, Sung Hee Park
Software Mentions: 1
Published: almost 6 years ago

10.3390/vetsci8080156

Transcriptomic Profiling of Dromedary Camels Immunised with a MERS Vaccine Candidate
Cited by: 0
Author(s): Sharif Hala, Paolo Ribeca, Haya A. Aljami, Suliman A. Alsagaby, Ibrahim Qasim, Sarah C. Gilbert, Naif Khalaf Alharbi
Software Mentions: 1
Published: about 5 years ago

10.1186/s12885-021-08482-4

CD36 promotes vasculogenic mimicry in melanoma by mediating adhesion to the extracellular matrix
Cited by: 11
Author(s): Carmela Martini, Mark O. DeNichilo, Danielle P. King, Michaelia P. Cockshell, Brenton Ebert, Brian Dale, Lisa M. Ebert, Anthony E. Woods, Claudine S. Bonder
Software Mentions: 1
Published: about 5 years ago

10.7150/jca.47902

Clinical significance of long non-coding RNA DUXAP8 and its protein coding genes in hepatocellular carcinoma
Cited by: 10
Author(s): Xiangkun Wang, Xiwen Liao, Rui Huang, Jianlu Huang, Zijun Chen, Xin Zhou, Chengkun Yang, Chuangye Han, Guangzhi Zhu, Tao Peng
Software Mentions: 1
Published: over 6 years ago

10.18632/aging.101269

The effects of graded levels of calorie restriction: XI. Evaluation of the main hypotheses underpinning the life extension effects of CR using the hepatic transcriptome
Cited by: 28
Author(s): Davina Derous, Sharon E. Mitchell, Lu Wang, Cara L Green, Yingchun Wang, Luonan Chen, Jing–Dong Jackie Han, Daniel E. L. Promislow, David Lusseau, Alex Douglas, John R. Speakman
Software Mentions: 1
Published: about 9 years ago

10.3390/vetsci6030059

Application of Transcriptomics to Enhance Early Diagnostics of Mycobacterial Infections, with an Emphasis on Mycobacterium avium ssp. paratuberculosis
Cited by: 15
Author(s): Marielle H. van den Esker, Ad P. Koets
Software Mentions: 1
Published: about 7 years ago

10.1186/s13567-020-00793-x

Systematic identification of chicken type I, II and III interferon-stimulated genes
Cited by: 12
Author(s): Manman Dai, Tingting Xie, Ming Liao, Xiquan Zhang, Mei Feng
Software Mentions: 1
Published: over 6 years ago

10.1186/s12967-020-02639-8

Plasma exosome-derived microRNAs expression profiling and bioinformatics analysis under cross-talk between increased low-density lipoprotein cholesterol level and ATP-sensitive potassium channels variant rs1799858
Cited by: 7
Author(s): Cheng Liu, Yanxian Lai, Songsong Ying, Junfang Zhan, Yan Shen
Software Mentions: 1
Published: almost 6 years ago

10.1186/s12885-021-07995-2

Comprehensive analysis of ceRNA networks reveals prognostic lncRNAs related to immune infiltration in colorectal cancer
Cited by: 25
Author(s): Jingyi Chen, Yuxuan Song, Mei Li, Yu Zhang, Ting-Ru Lin, Jie Sun, Di Wang, Yulan Liu, Junyu Guo, Weidong Yu
Software Mentions: 1
Published: over 5 years ago

10.7554/eLife.70322

Epi-mutations for spermatogenic defects by maternal exposure to di(2-ethylhexyl) phthalate
Cited by: 5
Author(s): Yukiko Tando, Hitoshi Hiura, Asuka Takehara, Yumi Ito-Matsuoka, Takahiro Arima, Yasuhisa Matsui
Software Mentions: 1
Published: about 5 years ago

10.7150/jca.46084

UXT antisense RNA 1 sever as a novel prognostic long non-coding RNA in early stage pancreatic ductal adenocarcinoma patients after receiving pancreaticoduodenectomy
Cited by: 1
Author(s): Xiwen Liao, Rui Huang, Xiangkun Wang, Ketuan Huang, Chengkun Yang, Xin Zhou, Chuangye Han, Hao Su, Xinping Ye, Kang Liu, Guangzhi Zhu, Tao Peng
Software Mentions: 1
Published: over 5 years ago

10.1186/s13567-015-0279-8

Transcriptomic analysis of the host response to an iridovirus infection in Chinese giant salamander, Andrias davidianus
Cited by: 30
Author(s): Yuding Fan, Ming Xian Chang, Jie Ma, Scott E. LaPatra, Yi Hu, Lili Huang, Pin Nie, Lingbing Zeng
Software Mentions: 1
Published: almost 11 years ago

10.1186/s12885-021-08345-y

Persistent Newcastle disease virus infection in bladder cancer cells is associated with putative pro-survival and anti-viral transcriptomic changes
Cited by: 6
Author(s): Lee-Chin Chan, Jeevanathan Kalyanasundram, Sze-Wei Leong, Mas Jaffri Masarudin, Abhi Veerakumarasivam, Khatijah Yusoff, Soon Choy Chan, Suet Lin Chia
Software Mentions: 1
Published: over 5 years ago

10.18699/VJ21.054

Parent-of-origin effects on nuclear chromatin organization and behavior in a Drosophila model for Williams–Beuren Syndrome
Cited by: 1
Author(s): А. В. Медведева, Elena V. Tokmatcheva, A. N. Kaminskaya, S. A. Vasileva, Е. А. Никитина, Aleksandr V. Zhuravlev, Г. А. Захаров, Olga G. Zatsepina, Е. В. Савватеева-Попова
Software Mentions: 1
Published: almost 5 years ago

10.3390/vaccines9020067

Human Transcriptomic Response to the VSV-Vectored Ebola Vaccine
Cited by: 8
Author(s): Francesco Santoro, Alessia Donato, Simone Lucchesi, Sara Sorgi, Alice Gerlini, Mariëlle C. Haks, Tom H. M. Ottenhoff, Patrícia Gonzalez-Dias, VSV-EBOVAC Consortium, VSV-EBOPLUS Consortium, Hidehiko Nakaya, Angela Huttner, Claire‐Anne Siegrist, Donata Medaglini, Gianni Pozzi
Software Mentions: 1
Published: over 5 years ago

10.1016/j.omtm.2021.03.026

Discovery of key genes as novel biomarkers specifically associated with HPV-negative cervical cancer
Cited by: 13
Author(s): Yi Liu, Yichi Xu, Wenxiao Jiang, Huihui Ji, Zhiwei Wang, Xueqiong Zhu
Software Mentions: 1
Published: over 5 years ago

10.1016/j.omtm.2020.08.007

Generation of Nonhuman Primate Model of Cone Dysfunction through In Situ AAV-Mediated CNGB3 Ablation
Cited by: 14
Author(s): Qiang Lin, Ji‐Neng Lv, Kun Wu, Chang-Jun Zhang, Qin Liu, Zi‐Bing Jin
Software Mentions: 1
Published: about 6 years ago

10.18632/aging.101947

The small non-coding RNA profile of mouse oocytes is modified during aging
Cited by: 9
Author(s): Bettina P. Mihalas, Nicole J. Camlin, Miguel J Xavier, Alexandra E. Peters, Janet E. Holt, Jessie M. Sutherland, Eileen A. McLaughlin, Andrew L. Eamens, Brett Nixon
Software Mentions: 1
Published: over 7 years ago

10.1111/jcmm.14048

MCLPMDA: A novel method for miRNA-disease association prediction based on matrix completion and label propagation
Cited by: 50
Author(s): Shengsheng Yu, Cheng Liang, Qiu Xiao, Guanghui Li, Pingjian Ding, Jiawei Luo
Software Mentions: 1
Published: almost 8 years ago

10.18632/oncotarget.9181

RNA sequencing-based analysis of gallbladder cancer reveals the importance of the liver X receptor and lipid metabolism in gallbladder cancer
Cited by: 11
Author(s): Mingxin Zuo, Asif Rashid, Ying Wang, Apurva Jain, Donghui Li, Anu Behari, Vinay K. Kapoor, Eugene J. Koay, Ping Chang, Jean Nicholas Vauthey, Yanan Li, Jaime A. Espinoza, Juan Carlos Roa, Milind Javle
Software Mentions: 1
Published: over 10 years ago

10.1111/jcmm.14567

MicroRNA‐transcriptome networks in whole blood and monocytes of women undergoing preterm labour
Cited by: 12
Author(s): Alison G. Paquette, Oksana Shynlova, Xiaogang Wu, Mark Kibschull, Kai Wang, Nathan D. Price, Stephen J. Lye
Software Mentions: 1
Published: about 7 years ago

10.1111/jcmm.14627

Long non‐coding RNA LINC01225 promotes proliferation, invasion and migration of gastric cancer via Wnt/β‐catenin signalling pathway
Cited by: 13
Author(s): Ying Xü, Guohua Zhang, Chen Zou, Wenliang Qi, Zhigang Gong, Guoliang Zhang, Guansheng Ma, Wenbo Zhang, Pengcheng Jiang
Software Mentions: 1
Published: about 7 years ago

10.15252/msb.20145470

An organ boundary‐enriched gene regulatory network uncovers regulatory hierarchies underlying axillary meristem initiation
Cited by: 92
Author(s): Caihuan Tian, Xiaoni Zhang, Jun He, Haopeng Yu, Ying Wang, Bihai Shi, Yingying Han, Guoxun Wang, Xiaoming Feng, Cui Zhang, Jin Wang, Jiyan Qi, Rong Yu, Yuling Jiao
Software Mentions: 1
Published: almost 12 years ago

10.1038/s41380-019-0493-2

Early-life stress impairs postnatal oligodendrogenesis and adult emotional behaviour through activity-dependent mechanisms
Cited by: 92
Author(s): Anne Teissier, Corentin Le Magueresse, Jimmy Olusakin, Belmira L. S. Andrade da Costa, Angela Michela De Stasi, A. Bacci, Yuka Imamura Kawasawa, Vidita A. Vaidya, Patricia Gaspar
Software Mentions: 1
Published: about 7 years ago

10.1111/jcmm.14719

Systematic construction and validation of an immune prognostic model for lung adenocarcinoma
Cited by: 43
Author(s): Chenghan Luo, Mengyuan Lei, Yixia Zhang, Qian Zhang, Lifeng Li, Jingyao Lian, Shasha Li, Liping Wang, Guofu Pi
Software Mentions: 1
Published: almost 7 years ago

10.1111/mpp.12938

RpoN1 and RpoN2 play different regulatory roles in virulence traits, flagellar biosynthesis, and basal metabolism in Xanthomonas campestris
Cited by: 16
Author(s): Kaihuai Li, Guichun Wu, Y.P. Liao, Quan Zeng, Haihong Wang, Fengquan Liu
Software Mentions: 1
Published: over 6 years ago

10.18632/oncotarget.9297

Characterization of the novel indolylmaleimides' PDA-66 and PDA-377 effect on canine lymphoma cells
Cited by: 8
Author(s): Wen Li, Julia Beck, Laura Schmidt, Catrin Roolf, Anahit Pews‐Davtyan, Barbara C. Rütgen, Sabine E. Hammer, Saskia Willenbrock, Anett Sekora, Arndt Rolfs, Matthias Beller, Bertram Brenig, Ingo Nolte, Christian Junghanß, Ekkehard Schütz, Hugo Murua Escobar
Software Mentions: 1
Published: over 10 years ago

10.1111/jcmm.15090

Hedgehog signalling mediates drug resistance through targeting TAP1 in hepatocellular carcinoma
Cited by: 22
Author(s): Xiaotian Zhou, Jia Ding, Hui‐Yan Li, Jie‐Liang Zuo, Shengyang Ge, Hongyan Jia, Jian Wu
Software Mentions: 1
Published: over 6 years ago

10.1111/jcmm.15161

LncRNA ADAMTS9‐AS2 suppresses the proliferation of gastric cancer cells and the tumorigenicity of cancer stem cells through regulating SPOP
Cited by: 18
Author(s): Feiran Wang, Chong Tang, Dong Xu, Yijie Tang, Yasu Jiang, Xuesong Gao, Jiacheng Xu
Software Mentions: 1
Published: over 6 years ago

10.1002/1878-0261.12629

Exosome‐delivered circRNA promotes glycolysis to induce chemoresistance through the miR‐122‐PKM2 axis in colorectal cancer
Cited by: 305
Author(s): Xinyi Wang, Haiyang Zhang, Hao Yang, Ming Bai, Tao Ning, Ting Deng, Rui Li, Qian Fan, Kegan Zhu, Jialu Li, Zhan Yang, Guoguang Ying, Yi Ba
Software Mentions: 1
Published: over 6 years ago

10.1002/mnfr.201500050

Egg ovotransferrin‐derived ACE inhibitory peptide IRW increases ACE2 but decreases proinflammatory genes expression in mesenteric artery of spontaneously hypertensive rats
Cited by: 66
Author(s): Kaustav Majumder, Guanxiang Liang, Yanhong Chen, Leluo Guan, Sandra T. Davidge, Jianping Wu
Software Mentions: 1
Published: about 11 years ago

10.1007/s12035-020-02088-w

Large-Scale Analysis Reveals Gene Signature for Survival Prediction in Primary Glioblastoma
Cited by: 14
Author(s): Birbal Prasad, Yongji Tian, Xinzhong Li
Software Mentions: 1
Published: about 6 years ago

10.1007/s12035-018-0884-4

A Regulatory Circuitry Between Gria2, miR-409, and miR-495 Is Affected by ALS FUS Mutation in ESC-Derived Motor Neurons
Cited by: 29
Author(s): Davide Capauto, Alessio Colantoni, Lei Lü, Tiziana Santini, Giovanna Peruzzi, Silvia Biscarini, Mariangela Morlando, Neil A. Shneider, Elisa Caffarelli, Pietro Laneve, Irene Bozzoni
Software Mentions: 1
Published: over 8 years ago

10.1111/jcmm.15242

Characterization of the prognostic values and response to immunotherapy/chemotherapy of Krüppel‐like factors in prostate cancer
Cited by: 20
Author(s): Jialin Meng, Xiaofan Lu, Yu Jie Zhou, Meng Zhang, Lei Gao, Shenglin Gao, Fangrong Yan, Chaozhao Liang
Software Mentions: 1
Published: over 6 years ago

10.1111/jcmm.15244

Analysis of deep sequencing exosome‐microRNA expression profile derived from CP‐II reveals potential role of gga‐miRNA‐451 in inflammation
Cited by: 12
Author(s): Yabo Zhao, Yali Fu, Meiling Zou, Yingfei Sun, Xun Yin, Liangjie Niu, Yanzhang Gong, Xiuli Peng
Software Mentions: 1
Published: over 6 years ago

10.1007/s12035-019-01789-1

Inflammatory Responses Induced by the Rupture of Intracranial Aneurysms Are Modulated by miRNAs
Cited by: 14
Author(s): Michał Korostyński, Rafał Morga, Marcin Piechota, Dżesika Hoinkis, Sławomir Gołda, Tomasz Dziedzic, Agnieszka Słowik, Marek Moskała, Joanna Pera
Software Mentions: 1
Published: almost 7 years ago

10.1016/j.molmet.2021.101290

Epigenetic rewiring of skeletal muscle enhancers after exercise training supports a role in whole-body function and human health
Cited by: 10
Author(s): Kristine Williams, Germán D. Carrasquilla, Lars R. Ingerslev, Mette Yde Hochreuter, Svenja Hansson, Nicolas Pillon, Ida Donkin, Soetkin Versteyhe, Juleen R. Zierath, Tuomas O. Kilpeläinen, Romain Barrès
Software Mentions: 1
Published: almost 5 years ago

10.3892/mmr.2019.10852

Long non‑coding RNA Unigene56159 promotes glioblastoma multiforme cell proliferation and invasion through negatively regulating microRNA‑194‑5p
Cited by: 2
Author(s): Guangyu Jiang, Hang Dong, Dao‐Yi Yu, Xinyu Yang
Software Mentions: 1
Published: almost 7 years ago

10.3390/molecules22081364

Biochemical and Comparative Transcriptomic Analyses Identify Candidate Genes Related to Variegation Formation in Paeonia rockii
Cited by: 17
Author(s): Qianqian Shi, Long Li, Xiaoxiao Zhang, Jianrang Luo, Xiang Li, Lijuan Zhai, Li He, Yanlong Zhang
Software Mentions: 1
Published: about 9 years ago

10.1186/s12885-019-5671-8

CRKL regulates alternative splicing of cancer-related genes in cervical cancer samples and HeLa cell
Cited by: 24
Author(s): Qingling Song, Fengtao Yi, Yuhong Zhang, Daniel K. Jun Li, Yaxun Wei, Han Yu, Yi Zhang
Software Mentions: 1
Published: over 7 years ago

10.1186/s40478-019-0739-x

c-MYC overexpression induces choroid plexus papillomas through a T-cell mediated inflammatory mechanism
Cited by: 5
Author(s): Ashirwad Merve, Xinyu Zhang, Nicola Pomella, Serena Acquati, Joerg D. Hoeck, Anaëlle Dumas, Gabriel Rosser, Yichen Li, Jennie N. Jeyapalan, Silvia Vicenzi, Qianhai Fan, Zeng Jie Yang, Arianna Sabò, Denise Sheer, Axel Behrens, Silvia Marino
Software Mentions: 1
Published: over 7 years ago

10.3390/molecules22081292

Apigenin Impacts the Growth of the Gut Microbiota and Alters the Gene Expression of Enterococcus
Cited by: 28
Author(s): Minqian Wang, Jenni Firrman, Liqing Zhang, Gustavo Arango-Argoty, Peggy M. Tomasula, LinShu Liu, Weidong Xiao, Kit L. Yam
Software Mentions: 1
Published: about 9 years ago

10.3390/molecules23123276

Effect of Aspergillus flavus Fungal Elicitor on the Production of Terpenoid Indole Alkaloids in Catharanthus roseus Cambial Meristematic Cells
Cited by: 18
Author(s): Chuxin Liang, Chang Chen, Pengfei Zhou, Lv Xu, Jianhua Zhu, Jincai Liang, Jiachen Zi, Rongmin Yu
Software Mentions: 1
Published: over 7 years ago

10.18632/oncotarget.9779

Chemotherapy-related cachexia is associated with mitochondrial depletion and the activation of ERK1/2 and p38 MAPKs
Cited by: 131
Author(s): Rafael Barreto, David L. Waning, Hongyu Gao, Yunlong Liu, Teresa A. Zimmers, Andrea Bonetto
Software Mentions: 1
Published: over 10 years ago

10.1111/jcmm.16381

Theragnostic chromosomal rearrangements in treatment‐naive pancreatic ductal adenocarcinomas obtained via endoscopic ultrasound
Cited by: 0
Author(s): Stephen J. Murphy, Michael J. Levy, James B. Smadbeck, Giannoula Karagouga, Alexa McCune, Frances Harris, Julia Udell, Sarah H. Johnson, Sarah E. Kerr, John C. Cheville, Benjamin R. Kipp, George Vasmatzis, Ferga C. Gleeson
Software Mentions: 1
Published: over 5 years ago

10.18632/aging.102407

A cluster of long non-coding RNAs exhibit diagnostic and prognostic values in renal cell carcinoma
Cited by: 27
Author(s): Gong Chen, Di Liu, Huageng Liang, Hongmei Yang, Ke Chen, Xiaoping Zhang
Software Mentions: 1
Published: almost 7 years ago

10.3390/molecules26051210

Divergent and Overlapping Roles for Selected Phytochemicals in the Regulation of Pathological Cardiac Hypertrophy
Cited by: 8
Author(s): Levi Evans, Yiqui Shen, Abigail Bender, Leah Burnett, Musheng Li, Justine S. Habibian, Tong Zhou, Bradley S. Ferguson
Software Mentions: 1
Published: over 5 years ago

10.1111/jcmm.16760

The subtype‐specific molecular function of SPDEF in breast cancer and insights into prognostic significance
Cited by: 4
Author(s): Ting Ye, Jingyuan Li, June Feng, Jinglan Guo, Xue Wan, Dan Xie, Jinbo Liu
Software Mentions: 1
Published: about 5 years ago

Projects: bioconductor: edgeR

Science Score: 100/100

Bonuses:

Papers Mentioning edgeR 6,568