10.3389/fonc.2020.01142

Identification of 9-Core Immune-Related Genes in Bladder Urothelial Carcinoma Prognosis
Cited by: 14
Author(s): Na Lei, Yu Bai, Yu Sun, Zhuo Wang, Wei Wang, Yuan Lin, Chenghai Zhao
Software Mentions: 2
Published: about 6 years ago

10.3389/fonc.2021.697949

N6-Methylandenosine-Related lncRNAs in Tumor Microenvironment Are Potential Prognostic Biomarkers in Colon Cancer
Cited by: 13
Author(s): Hongliang Zhang, Lei Zhao, Songyan Li, Jing Wang, Cong Feng, Tanshi Li, Xiaohui Du
Software Mentions: 2
Published: over 5 years ago

10.3389/fonc.2020.01225

Denatonium as a Bitter Taste Receptor Agonist Modifies Transcriptomic Profile and Functions of Acute Myeloid Leukemia Cells
Cited by: 12
Author(s): Valentina Salvestrini, Marilena Ciciarello, Valentina Pensato, Giorgia Simonetti, Maria Antonella Laginestra, Samantha Bruno, Massimiliano Pazzaglia, Elena De Marchi, Dorian Forte, Stefania Orecchioni, Giovanni Martinelli, Francesco Bertolini, Simón Méndez-Ferrer, Elena Adinolfi, Francesco Di Virgilio, Michèle Cavo, Antonio Curti
Software Mentions: 2
Published: about 6 years ago

10.3389/fonc.2021.691115

Transcription Factors and Methylation Drive Prognostic miRNA Dysregulation in Hepatocellular Carcinoma
Cited by: 6
Author(s): Si Qin, Jieyun Xu, Yunmeng Yi, Sizhu Jiang, Jin Park, Xinyi Xia, Fei Ma
Software Mentions: 2
Published: about 5 years ago

10.3389/fonc.2019.01011

Integrated Network Analysis Reveals FOXM1 and MYBL2 as Key Regulators of Cell Proliferation in Non-small Cell Lung Cancer
Cited by: 32
Author(s): Firoz Ahmed
Software Mentions: 2
Published: almost 7 years ago

10.3389/fonc.2020.541410

LINC00494 Promotes Ovarian Cancer Development and Progression by Modulating NFκB1 and FBXO32
Cited by: 6
Author(s): Shu Yang, He Zhang, Jinqiu Li, Yanhong Shan
Software Mentions: 2
Published: over 5 years ago

10.3389/fonc.2021.681579

Competing Endogenous RNA in Colorectal Cancer: An Analysis for Colon, Rectum, and Rectosigmoid Junction
Cited by: 8
Author(s): Lucieth Cruz Vieira, Natasha Andressa Nogueira Jorge, João Batista de Sousa, João Carlos Setúbal, Peter F. Stadler, Maria Tereza Machado Teles Walter
Software Mentions: 2
Published: over 5 years ago

10.3389/fonc.2020.00115

METTL3 Promotes the Progression of Gastric Cancer via Targeting the MYC Pathway
Cited by: 65
Author(s): Dong Yang, Zhan Hong Chen, Kai Yu, Jia Liu, Qi Wu, Yun Wang, Huai-Qiang Ju, Rui‐Hua Xu, Zexian Liu, Zhao Lei Zeng
Software Mentions: 2
Published: over 6 years ago

10.1186/s13059-018-1451-z

Post-translational buffering leads to convergent protein expression levels between primates
Cited by: 32
Author(s): Sidney H. Wang, Chiaowen Joyce Hsiao, Zia Khan, Jonathan K. Pritchard
Software Mentions: 2
Published: about 8 years ago

10.1186/s13059-020-02258-y

Alternative splicing landscapes in Arabidopsis thaliana across tissues and stress conditions highlight major functional differences with animals
Cited by: 84
Author(s): Guiomar Martín, Yamile Márquez, Federica Mantica, Paula Duque, Manuel Irimia
Software Mentions: 2
Published: over 5 years ago

10.1186/s13059-021-02436-6

Systematic assessment of gene co-regulation within chromatin domains determines differentially active domains across human cancers
Cited by: 3
Author(s): Marie Zufferey, Yuanlong Liu, Daniele Tavernari, Marco Mina, Giovanni Ciriello
Software Mentions: 2
Published: about 5 years ago

10.1186/gm519

miR-638 regulates gene expression networks associated with emphysematous lung destruction
Cited by: 63
Author(s): Stephanie A. Christenson, Corry‐Anke Brandsma, Joshua D. Campbell, Darryl A. Knight, Dmitri V. Pechkovsky, James C. Hogg, Wim Timens, Dirkje S. Postma, Marc E. Lenburg, Avrum Spira
Software Mentions: 2
Published: over 13 years ago

10.1186/gm550

Predicting targeted drug combinations based on Pareto optimal patterns of coexpression network connectivity
Cited by: 10
Author(s): Nadia M. Penrod, Casey S. Greene, Jason H. Moore
Software Mentions: 2
Published: over 12 years ago

10.1186/s13073-014-0075-5

Alteration in basal and depolarization induced transcriptional network in iPSC derived neurons from Timothy syndrome
Cited by: 72
Author(s): Yuan Tian, Irina Voineagu, Sergiu P. Pașca, Hyejung Won, Vijayendran Chandran, Steve Horvath, Ricardo E. Dolmetsch, Daniel H. Geschwind
Software Mentions: 2
Published: almost 12 years ago

10.1186/s13073-014-0097-z

Linking hypothetical knowledge patterns to disease molecular signatures for biomarker discovery in Alzheimer’s disease
Cited by: 7
Author(s): Ashutosh Malhotra, Erfan Younesi, Shweta Bagewadi, Martin Hofmann‐Apitius
Software Mentions: 2
Published: almost 12 years ago

10.1186/s13073-016-0345-5

Characterisation of the global transcriptional response to heat shock and the impact of individual genetic variation
Cited by: 3
Author(s): Peter Humburg, Narelle J. Maugeri, Wanseon Lee, Bert Mohr, Julian C. Knight
Software Mentions: 2
Published: about 10 years ago

10.1186/s13073-016-0347-3

Genomic analysis of the molecular neuropathology of tuberous sclerosis using a human stem cell model
Cited by: 34
Author(s): Nils Grabole, Jitao David Zhang, Stefan Aigner, Nadine Ruderisch, Veronica Costa, Felix Weber, Michel Theron, Nikolaos Berntenis, Olivia Spleiss, Martin Ebeling, G Yeo, Ravi Jagasia, Anna Kiialainen
Software Mentions: 2
Published: almost 10 years ago

10.1186/s13073-016-0381-1

Allele-specific expression in the human heart and its application to postoperative atrial fibrillation and myocardial ischemia
Cited by: 6
Author(s): Martin I. Sigurdsson, Louis A. Saddic, Mahyar Heydarpour, Tzuu-Wang Chang, Prem Shekar, Sary F. Aranki, Gregory S. Couper, Stanton K. Shernan, J. G. Seidman, Simon C. Body, Jochen D. Muehlschlegel
Software Mentions: 2
Published: almost 10 years ago

10.1186/s13073-017-0443-z

DNA methylation-based chromatin compartments and ChIP-seq profiles reveal transcriptional drivers of prostate carcinogenesis
Cited by: 15
Author(s): Poppy Simmonds, Erick Loomis, Ed Curry
Software Mentions: 2
Published: over 9 years ago

10.1186/s13073-020-00759-w

Cytokine-induced molecular responses in airway smooth muscle cells inform genome-wide association studies of asthma
Cited by: 14
Author(s): Emma E. Thompson, Quynh Dang, Blair Mitchell-Handley, Kavitha Rajendran, Sumati Ram-Mohan, Julian Solway, Carole Ober, Ramaswamy Krishnan
Software Mentions: 2
Published: about 6 years ago

10.1186/s13073-020-00808-4

Identification of epigenome-wide DNA methylation differences between carriers of APOE ε4 and APOE ε2 alleles
Cited by: 18
Author(s): Richard M Martin, Kadi Vaher, Mairead Lesley Bermingham, Stewart W. Morris, Andrew D. Bretherick, Yanni Zeng, Konrad Rawlik, Carmen Amador, Archie Campbell, Chris Haley, Caroline Hayward, David J. Porteous, Andrew M. McIntosh, Riccardo E. Marioni, Kathryn Evans
Software Mentions: 2
Published: over 5 years ago

10.1016/j.gpb.2020.02.002

CRISPR Screens Identify Essential Cell Growth Mediators in BRAF Inhibitor-resistant Melanoma
Cited by: 14
Author(s): Ziyi Li, Binbin Wang, Shengqing Gu, Peng Jiang, Avinash Sahu, Chen-Hao Chen, Tong Han, Sailing Shi, Xiaoqing Wang, Nicole Traugh, Hailing Liu, Yin Liu, Qiu Liang Wu, Myles Brown, Tengfei Xiao, Genevieve M. Boland, X. Shirley Liu
Software Mentions: 2
Published: over 6 years ago

10.1080/19490976.2019.1651596

Mucosal IgG in inflammatory bowel disease – a question of (sub)class?
Cited by: 10
Author(s): Tomas Castro‐Dopico, Menna R. Clatworthy
Software Mentions: 2
Published: about 7 years ago

10.1002/hsr2.202

A prognostic risk model based on immune‐related genes predicts overall survival of patients with hepatocellular carcinoma
Cited by: 2
Author(s): Banglun Pan, Lin Liu, Wei Li
Software Mentions: 2
Published: almost 6 years ago

10.1002/hep.29877

Impact of Interferon Lambda 4 Genotype on Interferon‐Stimulated Gene Expression During Direct‐Acting Antiviral Therapy for Hepatitis C
Cited by: 17
Author(s): Narayan Ramamurthy, Emanuele Marchi, Azim Ansari, Vincent Pedergnana, Angela R. McLean, Emma Hudson, Rory Bowden, Chris C. A. Spencer, Eleanor Barnes, Paul Klenerman
Software Mentions: 2
Published: about 8 years ago

10.1038/s41438-019-0119-5

What makes turnips: anatomy, physiology and transcriptome during early stages of its hypocotyl-tuber development
Cited by: 23
Author(s): Mengyang Li, Niccolò Bassetti, Stefan Petrasch, Ningwen Zhang, Johan Bucher, Shuxing Shen, Zhao Jian-jun, Guusje Bonnema
Software Mentions: 2
Published: over 7 years ago

10.1038/s41438-019-0212-9

Genome-wide transcriptome analysis reveals molecular pathways involved in leafy head formation of Chinese cabbage (Brassica rapa)
Cited by: 10
Author(s): Xiaoxue Sun, Ram Kumar Basnet, Zhichun Yan, Johan Bucher, Chengcheng Cai, Jianjun Zhao, Guusje Bonnema
Software Mentions: 2
Published: almost 7 years ago

10.1002/iid3.375

Data mining combined with experiments to validate CEP55 as a prognostic biomarker in colorectal cancer
Cited by: 8
Author(s): Lin Kang, Xiaojian Zhu, Chen Luo, Fanqin Bu, Jinfeng Zhu, Zhengming Zhu
Software Mentions: 2
Published: almost 6 years ago

10.1111/imcb.12399

GPR43 regulates marginal zone B‐cell responses to foreign and endogenous antigens
Cited by: 9
Author(s): Leona Rohrbeck, Mónika Ádori, Shan Wang, Chenfei He, Christopher Andrew Tibbitt, Mark Chernyshev, Madle Sirel, Ulf Ribacke, Ben Murrell, Mohammad Bohlooly‐Y, Mikael C. I. Karlsson, Gunilla B. Karlsson Hedestam, Jonathan M. Coquet
Software Mentions: 2
Published: almost 6 years ago

10.1172/jci.insight.93739

Neonatal and adult recent thymic emigrants produce IL-8 and express complement receptors CR1 and CR2
Cited by: 43
Author(s): Marcin Ł. Pękalski, Arcadio Rubio Garćıa, Ricardo C. Ferreira, Daniel B. Rainbow, Deborah J. Smyth, Meghavi Mashar, Jane Brady, Natalia Savinykh, Xaquín Castro Dopico, Sumiyya Mahmood, Simon Duley, Helen Stevens, Neil Walker, Antony J. Cutler, Frank Waldron‐Lynch, David B. Dunger, Claire Shannon-Lowe, Alasdair Coles, Joanne L. Jones, Chris Wallace, John A. Todd, Linda S. Wicker
Software Mentions: 2
Published: about 9 years ago

10.1038/srep23002

Effects of Systemically Administered Hydrocortisone on the Human Immunome
Cited by: 113
Author(s): Matthew J. Olnes, Yuri Kotliarov, Angélique Biancotto, Foo Cheung, Jinguo Chen, Rongye Shi, Huizhi Zhou, Ena Wang, John S. Tsang, Robert B. Nussenblatt
Software Mentions: 2
Published: over 10 years ago

10.1038/srep24141

Implication of Long noncoding RNAs in the endothelial cell response to hypoxia revealed by RNA-sequencing
Cited by: 113
Author(s): Christine Voellenkle, José Manuel García-Manteiga, Simona Pedrotti, Alessandra Perfetti, Ilario De Toma, D. Da Silva, Biagina Maimone, Simona Greco, Pasquale Fasanaro, Pasquale Creo, Germana Zaccagnini, Carlo Gaetano, Fabio Martelli
Software Mentions: 2
Published: over 10 years ago

10.1038/srep26822

Analysis of the dynamic co-expression network of heart regeneration in the zebrafish
Cited by: 27
Author(s): Sophie Rodius, Ganna Androsova, Lou Götz, Robin Liechti, Isaac Crespo, Susanne Merz, Petr V. Nazarov, Nigel Klein, Céline Jeanty, Juan Manuel González‐Rosa, Arnaud Muller, François Bernardin, Simone P. Niclou, Laurent Vallar, Nadia Mercader, Mark Ibberson, Ioannis Xénarios, Francisco Azuaje
Software Mentions: 2
Published: over 10 years ago

10.1038/srep28261

Fibroblasts profiling in scarring trachoma identifies IL-6 as a functional component of a fibroblast-macrophage pro-fibrotic and pro-inflammatory feedback loop
Cited by: 28
Author(s): Jenny Z. Kechagia, Daniel G. Ezra, Matthew J. Burton, Maryse Bailly
Software Mentions: 2
Published: about 10 years ago

10.1038/srep28415

The space of enzyme regulation in HeLa cells can be inferred from its intracellular metabolome
Cited by: 13
Author(s): Christian Diener, Felipe Muñoz-Gonzalez, Sergio Encarnación, Osbaldo Resendis‐Antonio
Software Mentions: 2
Published: about 10 years ago

10.1038/srep29604

Decreased expression of Calpain-9 predicts unfavorable prognosis in patients with gastric cancer
Cited by: 24
Author(s): Peike Peng, Weicheng Wu, Junjie Zhao, Shushu Song, Xuefei Wang, Dongwei Jia, Miaomiao Shao, Mingming Zhang, Lili Li, Lan Wang, Fangfang Duan, Ran Zhao, Caiting Yang, Hao Wu, Jie Zhang, Zhongliang Shen, Yuanyuan Ruan, Jianxin Gu
Software Mentions: 2
Published: about 10 years ago

10.1038/srep30484

Fibroblast growth factor 21 reflects liver fat accumulation and dysregulation of signalling pathways in the liver of C57BL/6J mice
Cited by: 68
Author(s): Fenni Rusli, Joris Deelen, Evi Andriyani, Mark V. Boekschoten, Carolien Lute, Erik B. van den Akker, Michael Müller, Marian Beekman, Wilma T. Steegenga
Software Mentions: 2
Published: about 10 years ago

10.1038/srep31291

Transcriptomic evidence for modulation of host inflammatory responses during febrile Plasmodium falciparum malaria
Cited by: 73
Author(s): Tuan M. Tran, Marcus B. Jones, Aissata Ongoïba, Else M. Bijker, Remko Schats, Pratap Venepally, Jeff Skinner, Safiatou Doumbo, Edwin Quinten, Leo G. Visser, Elizabeth Whalen, Scott Presnell, Elise M. O’Connell, Kassoum Kayentao, Ogobara K. Doumbo, Damien Chaussabel, Hernán Lorenzi, Thomas B. Nutman, Tom H. M. Ottenhoff, Mariëlle C. Haks, Boubacar Traoré, Ewen F. Kirkness, Robert W. Sauerwein, Peter D. Crompton
Software Mentions: 2
Published: about 10 years ago

10.1038/srep31742

COX7AR is a Stress-inducible Mitochondrial COX Subunit that Promotes Breast Cancer Malignancy
Cited by: 28
Author(s): Kezhong Zhang, Guohui Wang, Xuebao Zhang, Philipp P. Hüttemann, Yining Qiu, Jenney Liu, Allison V. Mitchell, Icksoo Lee, Chao Zhang, Jin Sook Lee, Petr Pecina, Guojun Wu, Zunhua Yang, Maik Hüttemann, Lawrence I. Grossman
Software Mentions: 2
Published: about 10 years ago

10.1038/srep33935

A novel affinity-based method for the isolation of highly purified extracellular vesicles
Cited by: 318
Author(s): Wataru Nakai, Takeshi Yoshida, Diego Díez, Yuji Miyatake, Takahiro Nishibu, Naoko Imawaka, Ken Naruse, Yoshifusa Sadamura, Rikinari Hanayama
Software Mentions: 2
Published: almost 10 years ago

10.1038/srep38531

FOXA1, GATA3 and PPARɣ Cooperate to Drive Luminal Subtype in Bladder Cancer: A Molecular Analysis of Established Human Cell Lines
Cited by: 105
Author(s): Joshua I. Warrick, Vonn Walter, Haruo Yamashita, Eunah Chung, Lauren Shuman, Vasty Osei Amponsa, Zongyu Zheng, Wilson Chan, Tiffany Whitcomb, Feng Yue, Tejaswi Iyyanki, Yuka Imamura Kawasawa, Matthew Kaag, Wansong Guo, Jay D. Raman, Joo Seop Park, David J. DeGraff
Software Mentions: 2
Published: almost 10 years ago

10.1038/srep38758

HOPX functions as a tumour suppressor in head and neck cancer
Cited by: 21
Author(s): Lee Fah Yap, Sook Ling Lai, Sathya Narayanan Patmanathan, Ravindran Caspa Gokulan, Max Robinson, Joe B. White, San Jiun Chai, Pathmanathan Rajadurai, Narayanan Prepageran, Yew Toong Liew, Victor Lopes, Wenbin Wei, Robert Hollows, Paul G. Murray, D Lambert, Keith Hunter, Ian C. Paterson
Software Mentions: 2
Published: almost 10 years ago

10.1038/srep39097

Comparative Systems Analyses Reveal Molecular Signatures of Clinically tested Vaccine Adjuvants
Cited by: 41
Author(s): Thorunn A. Olafsdottir, Madelene Lindqvist, Intawat Nookaew, Peter Andersen, Jeroen Maertzdorf, Josefine Persson, Dennis Christensen, Yuan Zhang, Jenna Anderson, Sakda Khoomrung, Partho Sen, Else Marie Agger, Rhea N. Coler, Darrick Carter, Andreas Meinke, Rino Rappuoli, Stefan H. E. Kaufmann, Steven G. Reed, Ali M. Harandi
Software Mentions: 2
Published: almost 10 years ago

10.1038/srep39297

Unraveling gene expression profiles in peripheral motor nerve from amyotrophic lateral sclerosis patients: insights into pathogenesis
Cited by: 21
Author(s): Nilo Riva, Ferdinando Clarelli, Teuta Domi, Federica Cerri, Francesca Gallia, Amelia Trimarco, Paola Brambilla, Christian Lunetta, A. Lazzerini, Giuseppe Lauria, Carla Taveggia, Sandro Iannaccone, Eduardo Nobile‐Orazio, Giancarlo Comi, Maurizio D’Antonio, Filippo Martinelli Boneschi, Angelo Quattrini
Software Mentions: 2
Published: almost 10 years ago

10.1038/srep39709

The pan-cancer pathological regulatory landscape
Cited by: 28
Author(s): Matías M. Falco, Marta Bleda, José Carbonell-Caballero, Joaquín Dopazo
Software Mentions: 2
Published: over 9 years ago

10.1038/srep40508

Inference of immune cell composition on the expression profiles of mouse tissue
Cited by: 110
Author(s): Ziyi Chen, Anfei Huang, Jiya Sun, Taijiao Jiang, F. Xiao-Feng Qin, Aiping Wu
Software Mentions: 2
Published: over 9 years ago

10.1038/srep41597

Modulated DISP3/PTCHD2 expression influences neural stem cell fate decisions
Cited by: 16
Author(s): Jana Konířová, Jana Oltová, Alicia Corlett, Justyna Kopycińska, Michal Kolář, Petr Bartůněk, Martina Zı́ková
Software Mentions: 2
Published: over 9 years ago

10.1038/srep42809

Identification of miRNA-mRNA Modules in Colorectal Cancer Using Rough Hypercuboid Based Supervised Clustering
Cited by: 12
Author(s): Sushmita Paul, Petra Lakatos, Arndt Hartmann, Regine Schneider‐Stock, Julio Vera
Software Mentions: 2
Published: over 9 years ago

10.1038/srep43345

ELF-MF exposure affects the robustness of epigenetic programming during granulopoiesis
Cited by: 13
Author(s): Melissa Manser, Mohamad Sater, Christoph D. Schmid, Faiza Noreen, Manuel Murbach, Niels Kuster, David Schuermann, Primo Schär
Software Mentions: 2
Published: over 9 years ago

10.1038/srep42460

Variation-preserving normalization unveils blind spots in gene expression profiling
Cited by: 18
Author(s): Carlos P. Roca, Susana I. L. Gomes, Mónica J.B. Amorim, Janeck J. Scott-Fordsmand
Software Mentions: 2
Published: over 9 years ago

10.1038/srep44547

Sex differences in DNA methylation of the cord blood are related to sex-bias psychiatric diseases
Cited by: 61
Author(s): Mariana Maschietto, Laura Caroline Bastos, Ana Carolina Tahira, Elen Pereira Bastos, Veronica Luiza Vale Euclydes, Alexandra Brentani, Günther Fink, Angelica de Baumont, Aloísio Felipe-Silva, Rossana Pulcineli Vieira Francisco, Gisele Rodrigues Gouveia, Sandra Grisi, Ana Maria de Ulhôa Escobar, Carlos Alberto Moreira-Filho, Guilherme Polanczyk, Eurı́pedes Constantino Miguel, Helena Brentani
Software Mentions: 2
Published: over 9 years ago

10.1038/s41598-017-00384-5

Persistent DNA methylation changes associated with prenatal mercury exposure and cognitive performance during childhood
Cited by: 92
Author(s): Andrés Cárdenas, Sheryl L. Rifas‐Shiman, Golareh Agha, Marie‐France Hivert, Augusto A. Litonjua, Dawn L. DeMeo, Xihong Lin, Chitra Amarasiriwardena, Emily Oken, Matthew W. Gillman, Andrea A. Baccarelli
Software Mentions: 2
Published: over 9 years ago

10.1038/s41598-017-03354-z

Splice variants as novel targets in pancreatic ductal adenocarcinoma
Cited by: 25
Author(s): Jun Wang, Laurent Dumartin, Andrea Mafficini, Pinar Ulug, Ajanthah Sangaralingam, Namaa Audi Alamiry, Tomasz P. Radon, Roberto Salvia, Rita T. Lawlor, Nick R. Lemoine, Aldo Scarpa, Claude Chelala, Tatjana Crnogorac‐Jurčević
Software Mentions: 2
Published: over 9 years ago

10.1038/s41598-017-02969-6

Cerebrospinal fluid microRNAs are potential biomarkers of temporal lobe epilepsy and status epilepticus
Cited by: 83
Author(s): Rana Raoof, Eva M. Jiménez-Mateos, Sebastian Bauer, Björn Tackenberg, Felix Rosenow, Johannes Lang, Müjgan Dogan Onugoren, Hajo M. Hamer, Tessa Huchtemann, Peter Körtvélyessy, Niamh M. C. Connolly, Shona Pfeiffer, Jochen H M Prehn, Michael Farrell, Donncha F. O’Brien, David C. Henshall, Catherine Mooney
Software Mentions: 2
Published: over 9 years ago

10.1038/s41598-017-05878-w

Predicting susceptibility to tuberculosis based on gene expression profiling in dendritic cells
Cited by: 8
Author(s): John Blischak, Ludovic Tailleux, Marsha Myrthil, Cécile Charlois, Emmanuel Bergot, Aurélien Dinh, Gloria Morizot, Olivia Chény, Cassandre Von Platen, Jean-Louis Herrmann, Roland Brosch, Luis B. Barreiro, Yoav Gilad
Software Mentions: 2
Published: about 9 years ago

10.1038/s41598-017-05538-z

Heterogeneity of tumor-infiltrating lymphocytes ascribed to local immune status rather than neoantigens by multi-omics analysis of glioblastoma multiforme
Cited by: 25
Author(s): Lin Feng, Hai-Peng Qian, Xuexin Yu, Kan Liu, Ting Xiao, Chengli Zhang, Manchao Kuang, Shujun Cheng, Xueji Li, Jinghai Wan, Kaitai Zhang
Software Mentions: 2
Published: about 9 years ago

10.1038/s41598-017-06145-8

Coding and small non-coding transcriptional landscape of tuberous sclerosis complex cortical tubers: implications for pathophysiology and treatment
Cited by: 42
Author(s): James D. Mills, Anand M. Iyer, Jackelien van Scheppingen, Anika Bongaarts, Jasper J. Anink, Bart Janssen, Till S. Zimmer, Wim G.M. Spliet, Peter C. van Rijen, Floor E. Jansen, Martha Feucht, Johannes A. Hainfellner, Pavel Kršek, Josef Zámečnı́k, Katarzyna Kotulska, Sergiusz Jóźwiak, Anna Jansen, Lieven Lagae, Paolo Curatolo, David J. Kwiatkowski, R. Jeroen Pasterkamp, Ketharini Senthilkumar, Lars von Oerthel, Marco F.M. Hoekman, Jan A. Gorter, Peter B. Crino, Angelika Mühlebner, Brendon P. Scicluna, Eleonora Aronica
Software Mentions: 2
Published: about 9 years ago

10.1038/s41598-017-05451-5

Loss of Usp9x disrupts cell adhesion, and components of the Wnt and Notch signaling pathways in neural progenitors
Cited by: 26
Author(s): Susitha Premarathne, Mariyam Murtaza, Nicholas Matigian, Lachlan A. Jolly, Stephen A. Wood
Software Mentions: 2
Published: about 9 years ago

10.1038/s41598-017-08125-4

Determining causal miRNAs and their signaling cascade in diseases using an influence diffusion model
Cited by: 11
Author(s): Joseph J. Nalluri, Pratip Rana, Debmalya Barh, Vasco Azevedo, Thang N. Dinh, Vladimir I. Vladimirov, Preetam Ghosh
Software Mentions: 2
Published: about 9 years ago

10.1038/s41598-017-06300-1

Treating the placenta to prevent adverse effects of gestational hypoxia on fetal brain development
Cited by: 72
Author(s): Tom J. Phillips, Hannah Scott, David A. Menassa, Ashleigh L. Bignell, Anubhuti Sood, Jude S. Morton, Takami Akagi, K Azuma, Mark F. Rogers, Catherine E. Gilmore, Gareth J. Inman, Simon Grant, Yealin Chung, Mais M. Aljunaidy, Christy Lynn M. Cooke, Bruno R. Steinkraus, Andrew Pocklington, Angela Logan, Gavin Collett, Helena Kemp, Peter Holmans, Michael P. Murphy, Tudor A. Fulga, Andrew M. Coney, Mitsuru Akashi, Sandra T. Davidge, C. P. Case
Software Mentions: 2
Published: about 9 years ago

10.1038/s41598-017-14440-7

Dysregulated gene expressions of MEX3D, FOS and BCL2 in human induced-neuronal (iN) cells from NF1 patients: a pilot study
Cited by: 12
Author(s): Noriyuki Sagata, Takahiro A. Kato, Shin-ichi Kano, Masahiro Ohgidani, Norihiro Shimokawa, Mina Sato-Kasai, Kohei Hayakawa, Nobuki Kuwano, Ana Wilson, Koko Ishizuka, Shiori Kato, Takeshi Nakahara, Makiko Nakahara-Kido, Daiki Setoyama, Yasunari Sakai, Shouichi Ohga, Masutaka Furue, Akira Sawa, Shigenobu Kanba
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-017-14314-y

Promoter DNA methylation analysis reveals a novel diagnostic CpG-based biomarker and RAB25 hypermethylation in clear cell renel cell carcinoma
Cited by: 12
Author(s): Yinmin Gu, Yi Ming Zou, Danqing Lei, Yuanjie Huang, Weidong Li, Zengnan Mo, Yanling Hu
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-021-91951-4

Photoperiodically driven transcriptome-wide changes in the hypothalamus reveal transcriptional differences between physiologically contrasting seasonal life-history states in migratory songbirds
Cited by: 5
Author(s): Aakansha Sharma, Subhajit Das, Sayantan Sur, Jyoti Tiwari, Khushboo Chaturvedi, Neha Agarwal, Shalie Malik, Sangeeta Rani, Vinod Kumar
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-92772-1

MCT4 is induced by metastasis-enhancing pathogenic mitochondrial NADH dehydrogenase gene mutations and can be a therapeutic target
Cited by: 8
Author(s): Keizo Takenaga, Nobuko Koshikawa, Masumi Akimoto, Yasutoshi Tatsumi, Jason Lin, Makiko Itami, Hiroki Nagase
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-93246-0

Exosomal hsa_circRNA_104484 and hsa_circRNA_104670 may serve as potential novel biomarkers and therapeutic targets for sepsis
Cited by: 21
Author(s): Chang Tian, Jiaying Liu, Xin Di, Shan Cong, Min Zhao, Ke Wang
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-93498-w

New candidate blood biomarkers potentially associated with white matter hyperintensities progression
Cited by: 2
Author(s): Joan Jiménez-Baladó, Jesús Pizarro, Iolanda Riba‐Llena, Anna Peñalba, Júlia Faura, Elena Palà, Joan Montaner, Mar Hernández-Guillamón, Pilar Delgado
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-94314-1

Extracellular NLRP3 inflammasome particles are internalized by human coronary artery smooth muscle cells and induce pro-atherogenic effects
Cited by: 7
Author(s): Susanne Gaul, Karen Marie Schaeffer, Lena Opitz, Christina Maeder, Alexander Kögel, Luisa Uhlmann, Hermann Kalwa, Ulf Wagner, Jan Haas, Amirhossein Behzadi, Pablo Pelegrı́n, Jes‐Niels Boeckel, Ulrich Laufs
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-95289-9

Intratumour heterogeneity in microRNAs expression regulates glioblastoma metabolism
Cited by: 6
Author(s): Huda Alfardus, Maria Estevez-Cebrero, Jonathan Rowlinson, Amna Aboalmaaly, Anbarasu Lourdusamy, Salah Abdelrazig, Catharine A. Ortori, Richard G. Grundy, Dong-Hyun Kim, Alan McIntyre, Stuart Smith
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-96003-5

Ketogenesis controls mitochondrial gene expression and rescues mitochondrial bioenergetics after cervical spinal cord injury in rats
Cited by: 16
Author(s): Oscar Seira, Kathleen L. Kolehmainen, Jie Liu, Femke Streijger, Anne Haegert, Stéphane LeBihan, Robert Boushel, Wolfram Tetzlaff
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-95313-y

k-core genes underpin structural features of breast cancer
Cited by: 13
Author(s): Rodrigo Dorantes-Gilardi, Diana García-Cortés, Enrique Hernández‐Lemus, Jesús Espinal-Enríquez
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-96642-8

Impact of severe hypoglycemia on the heat shock and related protein response
Cited by: 8
Author(s): Alexander S. Atkin, Abu Saleh Md Moin, Manjula Nandakumar, Ahmed Al‐Qaissi, Thozhukat Sathyapalan, Stephen L. Atkin, Alexandra E. Butler
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-96778-7

Raspberry ketone diet supplement reduces attraction of sterile male Queensland fruit fly to cuelure by altering expression of chemoreceptor genes
Cited by: 2
Author(s): Mohammed Abul Monjur Khan, Nandan P. Deshpande, Lucas A. Shuttleworth, Terry Osborne, Damian Collins, Marc R. Wilkins, Geoff M. Gurr, Olivia L. Reynolds
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-98536-1

Dissection of the bone marrow microenvironment in hairy cell leukaemia identifies prognostic tumour and immune related biomarkers
Cited by: 6
Author(s): Rachel Koldej, Ashvind Prabahran, Chin Wee Tan, Ashley P Ng, Melissa J. Davis, David Ritchie
Software Mentions: 2
Published: almost 5 years ago

10.1126/science.aau4732

Effects of microbiota-directed foods in gnotobiotic animals and undernourished children
Cited by: 263
Author(s): Jeanette L. Gehrig, Siddarth Venkatesh, Hung-Sheng Chang, Matthew C. Hibberd, Vanderlene L. Kung, Jiye Cheng, Robert Y. Chen, Sathish Subramanian, Carrie A. Cowardin, Martin Meier, David O’Donnell, Michael Talcott, Larry D. Spears, Clay F. Semenkovich, Bernard Henrissat, Richard J. Giannone, Robert L. Hettich, Olga Ilkayeva, Michael J. Muehlbauer, Christopher B. Newgard, Christopher Sawyer, Richard D. Head, Dmitry A. Rodionov, Aleksandr A. Arzamasov, Semen A. Leyn, Andrei L. Osterman, Iqbal Hossain, M Munirul Islam, Nuzhat Choudhury, Shafiqul Alam Sarker, Sayeeda Huq, Imteaz Mahmud, Ishita Mostafa, Mustafa Mahfuz, Michael J. Barratt, Tahmeed Ahmed, Jeffrey I. Gordon
Software Mentions: 2
Published: about 7 years ago

10.1186/s13287-017-0602-6

Global gene expression profiling and senescence biomarker analysis of hESC exposed to H2O2 induced non-cytotoxic oxidative stress
Cited by: 7
Author(s): M. Barandalla, Hui Shi, Hui Xiao, Silvia Colleoni, Cesare Galli, Píetro Lió, Matthew Trotter, Giovanna Lazzari
Software Mentions: 2
Published: about 9 years ago

10.1186/s13287-019-1235-8

microRNA-301b-3p downregulation underlies a novel inhibitory role of long non-coding RNA MBNL1-AS1 in non-small cell lung cancer
Cited by: 34
Author(s): Peng Li, Wei Xing, Jinliang Xu, Dandan Yuan, Guanghui Liang, Baoxing Liu, MA Hollywood
Software Mentions: 2
Published: over 7 years ago

10.1186/s13287-019-1475-7

Acute myeloid leukemia cells secrete microRNA-4532-containing exosomes to mediate normal hematopoiesis in hematopoietic stem cells by activating the LDOC1-dependent STAT3 signaling pathway
Cited by: 25
Author(s): Chen Zhao, Feng Du, Yang Zhao, Shanshan Wang, Ling Qi
Software Mentions: 2
Published: almost 7 years ago

10.1186/s13287-020-1580-7

Exosomal microRNA-144 from bone marrow-derived mesenchymal stem cells inhibits the progression of non-small cell lung cancer by targeting CCNE1 and CCNE2
Cited by: 41
Author(s): Yuan Liu, Dalin Zhang, Linlin Li, Xin Tian, Yuwei Zhao, Rui Ma, Jie Du
Software Mentions: 2
Published: over 6 years ago

10.1186/s13287-020-01980-5

Investigation of de novo mutations in a schizophrenia case-parent trio by induced pluripotent stem cell-based in vitro disease modeling: convergence of schizophrenia- and autism-related cellular phenotypes
Cited by: 11
Author(s): Edit Hathy, Eszter Szabó, Nóra Varga, Zsuzsa Erdei, Csongor Tordai, Boróka Czehlár, Máté Baradits, Bálint Jezsó, Júlia Koller, László Nagy, Mária Judit Molnár, László Homolya, Zsófia Nemoda, Ágota Apáti, János Réthelyi
Software Mentions: 2
Published: almost 6 years ago

10.1007/s12015-017-9790-9

Gene Network Analysis of Interstitial Macrophages After Treatment with Induced Pluripotent Stem Cells Secretome (iPSC-cm) in the Bleomycin Injured Rat Lung
Cited by: 13
Author(s): Luca Tamò, Cédric Simillion, Youssef Hibaoui, Anis Féki, Mathias Gugger, Antje Prasse, B Jäger, Torsten Goldmann, Thomas Geiser, Amiq Gazdhar
Software Mentions: 2
Published: almost 9 years ago

10.1089/scd.2017.0294

Modulation of Differentiation Processes in Murine Embryonic Stem Cells Exposed to Parabolic Flight-Induced Acute Hypergravity and Microgravity
Cited by: 12
Author(s): Aviseka Acharya, Sonja Brungs, Margit Henry, Tamara Rotshteyn, Nirmala Singh Yaduvanshi, Lucia Wegener, Simon Jentzsch, Juergen Hescheler, Ruth Hemmersbach, Hélène Bœuf, Agapios Sachinidis
Software Mentions: 2
Published: over 8 years ago

10.1155/2017/2362630

Molecular Genetic Analysis of Human Endometrial Mesenchymal Stem Cells That Survived Sublethal Heat Shock
Cited by: 10
Author(s): Alexander E. Vinogradov, М. А. Шилина, Olga V. Anatskaya, Л. Л. Алексеенко, Irina Fridlyanskaya, А. Ю. Красненко, A Kim, Dmitriy Korostin, V Ilynsky, Artem Elmuratov, O Tsyganov, Т. М. Гринчук, Nikolay Nikolsky
Software Mentions: 2
Published: over 9 years ago

10.7150/thno.48247

MED13L integrates Mediator-regulated epigenetic control into lung cancer radiosensitivity
Cited by: 17
Author(s): Nasha Zhang, Ying Song, Yeyang Xu, Jiandong Liu, Yue Shen, Lixin Zhou, Jinming Yu, Ming Yang
Software Mentions: 2
Published: over 6 years ago

10.1111/1759-7714.13411

Exosome miR‐27a‐3p secreted from adipocytes targets ICOS to promote antitumor immunity in lung adenocarcinoma
Cited by: 13
Author(s): Xuehan Fan, Jingya Wang, Tingting Qin, Yujia Zhang, Wenting Liu, Kaiting Jiang, Dingzhi Huang
Software Mentions: 2
Published: over 6 years ago

10.1089/ten.tec.2016.0329

Spheroid Coculture of Hematopoietic Stem/Progenitor Cells and Monolayer Expanded Mesenchymal Stem/Stromal Cells in Polydimethylsiloxane Microwells Modestly Improves<i>In Vitro</i>Hematopoietic Stem/Progenitor Cell Expansion
Cited by: 42
Author(s): Kathryn Futrega, Kerry Atkinson, William B. Lott, Michael Doran
Software Mentions: 2
Published: over 9 years ago

10.1039/c7tx00152e

Comparative effects of a candidate modified-risk tobacco product Aerosol and cigarette smoke on human organotypic small airway cultures: a systems toxicology approach
Cited by: 18
Author(s): Anita Iskandar, Yannick Martinez, Florian Martin, Walter K. Schlage, Patrice Leroy, Alain Sewer, Laura Ortega Torres, Shoaib Majeed, Céline Merg, Keyur Trivedi, Emmanuel Guedj, Stefan Frentzel, Carole Mathis, Nikolai V. Ivanov, Manuel C. Peitsch, Julia Hoeng
Software Mentions: 2
Published: over 9 years ago

10.3390/toxins9040124

Patterns of Gene Expression in Western Corn Rootworm (Diabrotica virgifera virgifera) Neonates, Challenged with Cry34Ab1, Cry35Ab1 and Cry34/35Ab1, Based on Next-Generation Sequencing
Cited by: 14
Author(s): Haichuan Wang, Seong‐il Eyun, Kanika Arora, Sek Yee Tan, Premchand Gandra, Etsuko N. Moriyama, Chitvan Khajuria, Jessica Jurzenski, Huarong Li, Maia Donahue, Kenneth E. Narva, Blair D. Siegfried
Software Mentions: 2
Published: over 9 years ago

10.3390/toxins12030203

Molecular Mechanism of Aflatoxin-Induced Hepatocellular Carcinoma Derived from a Bioinformatics Analysis
Cited by: 14
Author(s): Peirong Cai, Hao Zheng, Jinjin She, Na Feng, Hui Zou, Jianhong Gu, Yan Yuan, Zongping Liu, Zongping Liu, Jianchun Bian
Software Mentions: 2
Published: over 6 years ago

10.3390/toxins13020097

A Transcriptomic Approach to the Recruitment of Venom Proteins in a Marine Annelid
Cited by: 6
Author(s): Ana P. Rodrigo, Ana Rita Grosso, Pedro V. Baptista, Alexandra R. Fernandes, Pedro M. Costa
Software Mentions: 2
Published: over 5 years ago

10.1038/tp.2013.54

CD4+ but not CD8+ T cells revert the impaired emotional behavior of immunocompromised RAG-1-deficient mice
Cited by: 73
Author(s): Lorenza Rattazzi, Giuseppa Piras, M. Ono, Robert M. J. Deacon, Carmine Pariante, Fulvio D’Acquisto
Software Mentions: 2
Published: about 13 years ago

10.1038/tp.2013.111

Genome-wide DNA methylation analysis of human brain tissue from schizophrenia patients
Cited by: 261
Author(s): Leesa Wockner, Ernest P. Noble, Bruce R. Lawford, Ross McD. Young, C. Phillip Morris, Vicki Whitehall, Joanne Voisey
Software Mentions: 2
Published: over 12 years ago

10.1038/tp.2015.158

Transcriptomic and genetic studies identify NFAT5 as a candidate gene for cocaine dependence
Cited by: 16
Author(s): Noèlia Fernàndez‐Castillo, Judit Cabana‐Domínguez, Jordi Soriano, Cristina Sánchez-Mora, Carlos Roncero, Lara Grau-López, Elena Ros-Cucurull, Constanza Daigre, Marjolein M. J. Van Donkelaar, Barbara Franke, Miguel Casas, Marta Ribasés, Bru Cormand
Software Mentions: 2
Published: almost 11 years ago

10.1038/s41398-018-0136-4

Analysis of 182 cerebral palsy transcriptomes points to dysregulation of trophic signalling pathways and overlap with autism
Cited by: 21
Author(s): Clare L. van Eyk, Mark Corbett, Alison Gardner, Bregje W.M. van Bon, J. L. Broadbent, Kelly Harper, Alastair H. MacLennan, Jozef Gécz
Software Mentions: 2
Published: over 8 years ago

10.7150/ijms.39261

Epigenome-wide analysis of common warts reveals aberrant promoter methylation
Cited by: 5
Author(s): Laith N. AL-Eitan, Mansour A. Alghamdi, Amneh H. Tarkhan, Firas Al‐Qarqaz
Software Mentions: 2
Published: over 6 years ago

10.7150/ijms.47301

Development and validation of a novel immune-related prognostic model in lung squamous cell carcinoma
Cited by: 7
Author(s): Zeyu Liu, Yuxiang Wan, Yuqin Qiu, Xuewei Qi, Ming Yang, Jinchang Huang, Qiao‐Li Zhang
Software Mentions: 2
Published: over 6 years ago

10.7150/ijms.60261

The underlying molecular mechanism and drugs for treatment in adrenal cortical carcinoma
Cited by: 4
Author(s): Chengquan Ma, Jian Xiong, Hao Su, Hongjun Li
Software Mentions: 2
Published: over 5 years ago

10.1186/s13045-014-0056-6

Mutated in colorectal cancer (MCC) is a novel oncogene in B lymphocytes
Cited by: 18
Author(s): Shanique Edwards, Jacqueline Baron, Cynthia Moore, Yan Liu, David H. Perlman, Ronald P. Hart, Ping Xie
Software Mentions: 2
Published: about 12 years ago

10.1155/2008/892927

Bayesian Mixture Model Analysis for Detecting Differentially Expressed Genes
Cited by: 4
Author(s): Zhenyu Jia, Shizhong Xu
Software Mentions: 2
Published: over 18 years ago

10.1167/iovs.61.4.24

The Molecular Processes in the Trabecular Meshwork After Exposure to Corticosteroids and in Corticosteroid-Induced Ocular Hypertension
Cited by: 13
Author(s): Ilona Liesenborghs, Lars Eijssen, Martina Kutmon, Theo G. M. F. Gorgels, Chris T. Evelo, Henny J. M. Beckers, Carroll A.B. Webers, Jan S.A.G. Schouten
Software Mentions: 2
Published: over 6 years ago

10.3390/ijerph17186775

Neonatal Lead (Pb) Exposure and DNA Methylation Profiles in Dried Bloodspots
Cited by: 23
Author(s): Luke Montrose, Jaclyn M. Goodrich, Masako Morishita, Joseph Kochmanski, Zachary Klaver, Raymond G. Cavalcante, Julie C. Lumeng, Karen E. Peterson, Dana C. Dolinoy
Software Mentions: 2
Published: about 6 years ago