bioconductor: sva | Projects | Ecosyste.ms: Papers

10.1186/s13148-016-0234-1

Amnion as a surrogate tissue reporter of the effects of maternal preeclampsia on the fetus
Cited by: 8
Author(s): Masako Suzuki, Ryo Maekawa, Nicole E. Patterson, David M. Reynolds, Brent Calder, Sandra E. Reznik, Hye Heo, Francine Einstein, John M. Greally
Software Mentions: 5
Published: over 8 years ago

10.3389/fgene.2020.00333

Transcription Factor Profiling to Predict Recurrence-Free Survival in Breast Cancer: Development and Validation of a Nomogram to Optimize Clinical Management
Cited by: 8
Author(s): Hengyu Chen, Xianxiong Ma, Ming Yang, Mengyi Wang, Lei Li, Tao Huang
Software Mentions: 5
Published: over 4 years ago

10.1186/s12920-020-0670-9

Comparison of DNA methylation profiles from saliva in Coeliac disease and non-coeliac disease individuals
Cited by: 9
Author(s): Nerissa L. Hearn, Christine L Chiu, Joanne M. Lind
Software Mentions: 5
Published: almost 5 years ago

10.3389/fgene.2021.622683

Bioinformatics Analysis Identifies Molecular Markers Regulating Development and Progression of Endometriosis and Potential Therapeutic Drugs
Cited by: 7
Author(s): Ying Peng, Cheng Peng, Fang Zheng, Gang Chen
Software Mentions: 5
Published: over 3 years ago

10.1186/s13059-021-02397-w

A trans locus causes a ribosomopathy in hypertrophic hearts that affects mRNA translation in a protein length-dependent fashion
Cited by: 4
Author(s): Franziska Witte, Jorge Ruiz-Orera, Camilla Ciolli Mattioli, Susanne Blachut, Eleonora Adami, Jana Felicitas Schulz, Valentin Schneider-Lunitz, Oliver Hummel, Giannino Patone, Michael Mücke, Jan Šilhavý, Matthias Heinig, Leonardo Bottolo, Daniel Sanchı́s, Martin Vingron, Marina Chekulaeva, Michal Pravenec, Norbert Hübner, Sebastiaan van Heesch
Software Mentions: 5
Published: over 3 years ago

10.1186/s41016-021-00235-3

The increasing expression of GPX7 related to the malignant clinical features leading to poor prognosis of glioma patients
Cited by: 5
Author(s): Jiawei Yao, Xin Chen, Zhendong Liu, Ruotian Zhang, Cheng Zhang, Quan Yang, Penglei Yao, Qiuyi Jiang, Jianing Wu, Shen Zhao
Software Mentions: 5
Published: over 3 years ago

10.7150/jca.42736

TOP2A Promotes Tumorigenesis of High-grade Serous Ovarian Cancer by Regulating the TGF-β/Smad Pathway
Cited by: 23
Author(s): Yan Gao, Hongyu Zhao, Meng Ren, Qi Chen, Jie Li, Zhefeng Li, Chenghong Yin, Wentao Yue
Software Mentions: 5
Published: almost 5 years ago

10.1186/1868-7083-6-4

Differences in smoking associated DNA methylation patterns in South Asians and Europeans
Cited by: 227
Author(s): Hannah R Elliott, Therese Tillin, Wendy L. McArdle, Karen Ho, Aparna Duggirala, Tim Frayling, George Davey Smith, Alun D. Hughes, Nish Chaturvedi, Caroline L Relton
Software Mentions: 5
Published: almost 11 years ago

10.3390/jcm9092930

Proteomic Profiles of Exosomes of Septic Patients Presenting to the Emergency Department Compared to Healthy Controls
Cited by: 8
Author(s): Daniel C. Morris, Anja Kathrin Jaehne, Michael Chopp, Zhanggang Zhang, Laila Poisson, Yalei Chen, Indrani Datta, Emanuel P. Rivers
Software Mentions: 5
Published: about 4 years ago

10.1007/s00442-019-04499-6

Resistance is futile: RNA-sequencing reveals differing responses to bat fungal pathogen in Nearctic Myotis lucifugus and Palearctic Myotis myotis
Cited by: 20
Author(s): Thomas M. Lilley, Jenni M. Prokkola, Anna Blomberg, Steve Paterson, Joseph S. Johnson, Gregory G. Turner, Tomáš Bartonička, Erik Bachorec, DeeAnn M. Reeder, Kenneth A. Field
Software Mentions: 5
Published: about 5 years ago

10.7717/peerj.12125

Identification of immune related cells and crucial genes in the peripheral blood of ankylosing spondylitis by integrated bioinformatics analysis
Cited by: 12
Author(s): Yang Zheng, Bingbing Cai, Conglin Ren, Haipeng Xu, Weibin Du, Yinglong Wu, Fei-Jan Lin, Helou Zhang, Renfu Quan
Software Mentions: 5
Published: about 3 years ago

10.1371/journal.pone.0203672

Integrating the skin and blood transcriptomes and serum proteome in hidradenitis suppurativa reveals complement dysregulation and a plasma cell signature
Cited by: 65
Author(s): Lauren Hoffman, Lewis Tomalin, Gregory S. Schultz, Michael D. Howell, Niroshana Anandasabapathy, Afsáneh Alavi, Mayte Suárez‐Fariñas, Michelle A. Lowes
Software Mentions: 5
Published: about 6 years ago

10.1186/s13029-019-0071-7

eUTOPIA: solUTion for Omics data PreprocessIng and Analysis
Cited by: 34
Author(s): Veer Singh Marwah, Giovanni Scala, Pia Anneli Sofia Kinaret, Angela Serra, Harri Alenius, Vittorio Fortino, Dario Greco
Software Mentions: 5
Published: almost 6 years ago

10.3389/fgene.2021.561254

Development and Validation of a Novel Metabolic-Related Signature Predicting Overall Survival for Pancreatic Cancer
Cited by: 5
Author(s): Junyu Huo, Liqun Wu, Yunjin Zang
Software Mentions: 5
Published: over 3 years ago

10.1186/1751-0473-8-8

SVAw - a web-based application tool for automated surrogate variable analysis of gene expression studies
Cited by: 5
Author(s): Mehdi Pirooznia, Fayaz Seifuddin, Fernando S. Goes, Jeffrey T. Leek, Peter P. Zandi
Software Mentions: 5
Published: over 11 years ago

10.3390/cancers11010041

Epilepsy Associates with Decreased HIF-1α/STAT5b Signaling in Glioblastoma
Cited by: 11
Author(s): Sharon Berendsen, Wim G.M. Spliet, Marjolein Geurts, Wim Van Hecke, Tatjana Seute, Tom J. Snijders, Vincent Bours, Erica H. Bell, Arnab Chakravarti, Pierre A. Robe
Software Mentions: 5
Published: almost 6 years ago

10.1186/s12859-019-2728-2

UTAP: User-friendly Transcriptome Analysis Pipeline
Cited by: 88
Author(s): Refael Kohen, Jonathan Barlev, Gil Hornung, Gil Stelzer, Ester Feldmesser, Kiril Kogan, Marilyn Safran, Dena Leshkowitz
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-021-82951-5

Machine intelligence identifies soluble TNFa as a therapeutic target for spinal cord injury
Cited by: 10
Author(s): J. Russell Huie, Adam R. Ferguson, Nikos Kyritsis, Jonathan Z. Pan, Karen Irvine, Jessica L. Nielson, Patrick G. Schupp, Michael C. Oldham, John C. Gensel, Amity Lin, Mark R. Segal, Rajiv R. Ratan, Jacqueline C. Bresnahan, Michael S. Beattie
Software Mentions: 5
Published: almost 4 years ago

10.1038/s41598-021-81538-4

Clinical implications of intrinsic molecular subtypes of breast cancer for sentinel node status
Cited by: 12
Author(s): Maria Rossing, Christina Bligaard Pedersen, Tove Filtenborg Tvedskov, Ilse Vejborg, Maj Lis Møller Talman, Lars Rønn Olsen, Niels Kroman, Finn Cilius Nielsen, Maj Britt Jensen, Bent Ejlertsen
Software Mentions: 5
Published: almost 4 years ago

10.1186/s13073-020-00779-6

Epigenomics and transcriptomics of systemic sclerosis CD4+ T cells reveal long-range dysregulation of key inflammatory pathways mediated by disease-associated susceptibility loci
Cited by: 24
Author(s): Tianlu Li, Lourdes Ortiz-Fernández, Eduardo Andrés-León, Laura Ciudad, Biola M. Javierre, Elena López‐Isac, Alfredo Guillén‐Del‐Castillo, Carmen Pilar Simeón-Aznar, Esteban Ballestar, Javier Martín
Software Mentions: 5
Published: about 4 years ago

10.18632/aging.103935

Increased expression of myelin-associated genes in frontal cortex of <i>SNCA</i> overexpressing rats and Parkinson&#x2019;s disease patients
Cited by: 7
Author(s): Thomas Hentrich, Zinah Wassouf, Christine Ehrhardt, Eva Haas, James D. Mills, Eleonora Aronica, Tiago F. Outeiro, Jeannette Hübener‐Schmid, Olaf Rieß, Nicolas Casadei, Julia M. Schulze‐Hentrich
Software Mentions: 5
Published: about 4 years ago

10.1186/s12864-018-4652-7

Impact on birth weight of maternal smoking throughout pregnancy mediated by DNA methylation
Cited by: 41
Author(s): Stephanie H. Witt, Josef Frank, Maria Gilles, Maren Lang, Jens Treutlein, Fabian Streit, Isabella Wolf, Verena Peus, Barbara Scharnholz, Tabea Send, Stefanie Heilmann‐Heimbach, Sugirthan Sivalingam, Helene Dukal, Jana Strohmaier, Marc Sütterlin, Janine Arloth, Manfred Laucht, Markus M. Nöthen, Michael Deuschle, Marcella Rietschel
Software Mentions: 5
Published: over 6 years ago

10.1186/s13148-019-0637-x

Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study
Cited by: 20
Author(s): Flavie Perrier, Vivian Viallon, Srikant Ambatipudi, Akram Ghantous, Cyrille Cuenin, Héctor Hernández-Vargas, Véronique Chajès, Laura Baglietto, Marco Matejcic, Hortensia Moreno-Macías, Tilman Kühn, Heiner Boeing, Anna Karakatsani, Αναστασία Κοτανίδου, Antonia Trichopoulou, Sabina Sieri, Salvatore Panico, Francesca Fasanelli, Martijn E.T. Dollé, N. Charlotte Onland‐Moret, Ivonne Sluijs, Elisabete Weiderpass, J. Ramón Quiŕos, Antonio Agudo, José María Huerta, Eva Ardanaz, Miren Dorronsoro, Tammy Y.N. Tong, Konstantinos K. Tsilidis, Elio Riboli, Marc J. Gunter, Zdenko Herceg, Pietro Ferrari, Isabelle Romieu
Software Mentions: 5
Published: over 5 years ago

10.18632/aging.202635

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

10.1080/15592294.2019.1656157

Hypermethylation-associated downregulation of microRNA-4456 in hypersexual disorder with putative influence on oxytocin signalling: A DNA methylation analysis of miRNA genes
Cited by: 16
Author(s): Adrian Boström, Andreas Chatzittofis, Diana‐Maria Ciuculete, John N. Flanagan, Regina Krattinger, Marcus Bandstein, Jessica Mwinyi, Gerd A. Kullak‐Ublick, Katarina Görts Öberg, Stefan Arver, Helgi B. Schiöth, Jussi Jokinen
Software Mentions: 5
Published: about 5 years ago

10.3389/fimmu.2021.695865

Prognosis and Characterization of Immune Microenvironment in Acute Myeloid Leukemia Through Identification of an Autophagy-Related Signature
Cited by: 19
Author(s): Denggang Fu, Biyu Zhang, Shiyong Wu, Yinghua Zhang, Jingwu Xie, Wangbin Ning, Hua Jiang
Software Mentions: 5
Published: over 3 years ago

10.1186/s41065-021-00181-1

Prognostic biomarkers and therapeutic targets in oral squamous cell carcinoma: a study based on cross-database analysis
Cited by: 10
Author(s): Wanli Yang, Wei Zhou, Xinhui Zhao, Xiaoqian Wang, Lili Duan, Yiding Li, Liaoran Niu, Junfeng Chen, Yujie Zhang, Yu Han, Daiming Fan, Liu Hong
Software Mentions: 5
Published: over 3 years ago

10.1016/j.immuni.2019.05.002

Polychromic Reporter Mice Reveal Unappreciated Innate Lymphoid Cell Progenitor Heterogeneity and Elusive ILC3 Progenitors in Bone Marrow
Cited by: 85
Author(s): Jennifer Walker, Paula A. Clark, Alastair Crisp, Jillian L. Barlow, Aydan C H Szeto, Ana Carolina Franco Ferreira, Batika M. J. Rana, Helen E. Jolin, Noé Rodríguez-Rodríguez, Meera Sivasubramaniam, Richard Pannell, James Cruickshank, Maria Daly, Liora Haim-Vilmovsky, Sarah A. Teichmann, Andrew N. J. McKenzie
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-020-72988-3

Machine learning approach to integrated endometrial transcriptomic datasets reveals biomarkers predicting uterine receptivity in cattle at seven days after estrous
Cited by: 10
Author(s): María Belén Rabaglino, Haja N. Kadarmideen
Software Mentions: 5
Published: about 4 years ago

10.3389/fphar.2020.577150

Screening and Identification of Key Biomarkers in Acquired Lapatinib-Resistant Breast Cancer
Cited by: 4
Author(s): Shengnan Bao, Yi Chen, Fan Yang, Chunxiao Sun, Mingli Yang, Li Wei, Xiang Huang, Jun Li, Hao Wu, Yongmei Yin
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pone.0156594

Removing Batch Effects from Longitudinal Gene Expression - Quantile Normalization Plus ComBat as Best Approach for Microarray Transcriptome Data
Cited by: 94
Author(s): Christian Müller, Arne Schillert, Caroline Röthemeier, David‐Alexandre Trégouët, Carole Proust, Harald Binder, Norbert Pfeiffer, Manfred E. Beutel, Karl J. Lackner, Renate B. Schnabel, Laurence Tiret, Philipp S. Wild, Stefan Blankenberg, Tanja Zeller, Andreas Ziegler
Software Mentions: 5
Published: over 8 years ago

10.1186/s12859-021-04095-7

Six genes involved in prognosis of hepatocellular carcinoma identified by Cox hazard regression
Cited by: 5
Author(s): Qinghong Dai, Tao Liu, Yongchao Gao, Honghao Zhou, Xiong Li, Wei Zhang
Software Mentions: 5
Published: over 3 years ago

10.18632/oncotarget.25218

Comprehensive identification of long noncoding RNAs in colorectal cancer
Cited by: 15
Author(s): Eric James de Bony, Martin Bizet, Olivier Van Grembergen, Bouchra Hassabi, Emilie Calonne, Pascale Putmans, Gianluca Bontempi, François Fuks
Software Mentions: 5
Published: over 6 years ago

10.3390/cancers12061487

Only Hematopoietic Stem and Progenitor Cells from Cord Blood Are Susceptible to Malignant Transformation by MLL-AF4 Translocations
Cited by: 12
Author(s): Kathy-Ann Secker, Lukas Bruns, Hildegard Keppeler, Johan Jeong, Thomas Hentrich, Julia M. Schulze‐Hentrich, Barbara Mankel, Falko Fend, Dominik Schneidawind, Corina Schneidawind
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0171689

Transcriptomic meta-analysis reveals up-regulation of gene expression functional in osteoclast differentiation in human septic shock
Cited by: 10
Author(s): Samanwoy Mukhopadhyay, Pravat Kumar Thatoi, AK Pandey, B. K. Das, Balachandran Ravindran, Samsiddhi Bhattacharjee, Saroj Kant Mohapatra
Software Mentions: 5
Published: almost 8 years ago

10.1038/s41598-018-23195-8

Personalised drug repositioning for Clear Cell Renal Cell Carcinoma using gene expression
Cited by: 13
Author(s): Karel K.M. Koudijs, Anton G.T. Terwisscha van Scheltinga, Stefan Böhringer, Kirsten J. M. Schimmel, Henk‐Jan Guchelaar
Software Mentions: 5
Published: over 6 years ago

10.3389/fimmu.2018.02406

Molecular Signature of Aluminum Hydroxide Adjuvant in Ovine PBMCs by Integrated mRNA and microRNA Transcriptome Sequencing
Cited by: 15
Author(s): Endika Varela-Martínez, Naiara Abendaño, Javier Asín, Maialen Sistiaga-Poveda, Marta Pérez, Ramsés Reina, D. de Andrés, Lluís Luján, Begoña M. Jugo
Software Mentions: 5
Published: about 6 years ago

10.1111/jcmm.15851

Prognostic and predictive value of a mRNA signature in peripheral T‐cell lymphomas: A mRNA expression analysis
Cited by: 6
Author(s): Jiannan Tu, Zhixing Kuang, Xiaoxiao Xie, Shizhen Wu, Ting Wu, Shengchi Chen
Software Mentions: 5
Published: almost 4 years ago

10.7554/eLife.23253

Analogous mechanism regulating formation of neocortical basal radial glia and cerebellar Bergmann glia
Cited by: 32
Author(s): Xin Heng, Qiu Guo, Alan W. Leung, Kairong Li
Software Mentions: 5
Published: over 7 years ago

10.1371/journal.pone.0248650

Elucidating the immune infiltration in acne and its comparison with rosacea by integrated bioinformatics analysis
Cited by: 14
Author(s): Lu Yang, Yanhong Shou, Yue Yang, Jianhua Xu
Software Mentions: 5
Published: over 3 years ago

10.3389/fcell.2021.665265

TP53 Mutational Status-Based Genomic Signature for Prognosis and Predicting Therapeutic Response in Pancreatic Cancer
Cited by: 4
Author(s): Feng Zhang, Wenhui Zhong, Honghao Li, Kaijun Huang, Min Yu, Yu-bin Liu
Software Mentions: 5
Published: over 3 years ago

10.1186/s12920-020-00740-x

Integrative analyses of gene expression profile reveal potential crucial roles of mitotic cell cycle and microtubule cytoskeleton in pulmonary artery hypertension
Cited by: 15
Author(s): Jing Luo, Haiyan Li, Zhenwei Liu, Chenlu Li, Ruochen Wang, Jinxia Fang, Saisai Lu, Jing Guo, Xiongzhao Zhu, Xiaobing Wang
Software Mentions: 5
Published: over 4 years ago

10.3389/fnins.2021.620899

Integrated miRNA-Seq and mRNA-Seq Study to Identify miRNAs Associated With Alzheimer’s Disease Using Post-mortem Brain Tissue Samples
Cited by: 21
Author(s): Qingqin Li, Diana Cai
Software Mentions: 5
Published: over 3 years ago

10.3389/fnins.2020.607215

Unraveling Targetable Systemic and Cell-Type-Specific Molecular Phenotypes of Alzheimer’s and Parkinson’s Brains With Digital Cytometry
Cited by: 5
Author(s): Marie Catherine Bordone, Nuno L. Barbosa‐Morais
Software Mentions: 5
Published: almost 4 years ago

10.1016/j.cmet.2021.01.004

Polycystic ovary syndrome is transmitted via a transgenerational epigenetic process
Cited by: 100
Author(s): Nour El Houda Mimouni, Isabel Paiva, Anne‐Laure Barbotin, Fatima Ezzahra Timzoura, Damien Plassard, Stéphanie Le Gras, Gaëtan Ternier, Pascal Pigny, Sophie Catteau-Jonard, Virginie Simon, Vincent Prévot, Anne‐Laurence Boutillier, Paolo Giacobini
Software Mentions: 5
Published: over 3 years ago

10.1038/s41398-021-01481-w

Toll-like receptor 4 methylation grade is linked to depressive symptom severity
Cited by: 10
Author(s): Annica J. Rasmusson, Maike Gallwitz, Bardia Soltanabadi, Diana M. Ciuculete, Jonas Mengel‐From, Kaare Christensen, Marianne Nygaard, Mette Soerensen, Adrian Boström, Robert Fredriksson, Eva Freyhult, Jessica Mwinyi, Darina Czamara, Elisabeth B. Binder, Helgi B. Schiöth, Janet L. Cunningham
Software Mentions: 5
Published: over 3 years ago

10.1038/s41398-021-01358-y

Zbtb16 regulates social cognitive behaviors and neocortical development
Cited by: 23
Author(s): Noriyoshi Usui, Stefano Berto, Ami Konishi, Makoto Kondo, Genevieve Konopka, Hideo Matsuzaki, Shoichi Shimada
Software Mentions: 5
Published: over 3 years ago

10.1038/s41598-019-53298-9

A pilot study of peripheral blood DNA methylation models as predictors of knee osteoarthritis radiographic progression: data from the Osteoarthritis Initiative (OAI)
Cited by: 10
Author(s): Christopher M. Dunn, Michael C. Nevitt, J.A. Lynch, Matlock A. Jeffries
Software Mentions: 5
Published: about 5 years ago

10.1007/s00401-020-02228-5

Mosaic trisomy of chromosome 1q in human brain tissue associates with unilateral polymicrogyria, very early-onset focal epilepsy, and severe developmental delay
Cited by: 27
Author(s): Katja Kobow, Samir Jabari, Tom Pieper, Manfred Kudernatsch, Tilman Polster, Friedrich G. Woermann, Thilo Kalbhenn, Hajo M. Hamer, Karl Rössler, Angelika Mühlebner, Wim G.M. Spliet, Martha Feucht, Yanghao Hou, Damian Stichel, Andrey Korshunov, Felix Sahm, Roland Coras, Ingmar Blümcke, Andreas von Deimling
Software Mentions: 5
Published: about 4 years ago

10.3389/fcell.2021.727935

Uncovering the Association Between m5C Regulator-Mediated Methylation Modification Patterns and Tumour Microenvironment Infiltration Characteristics in Hepatocellular Carcinoma
Cited by: 13
Author(s): Xinyu Gu, Haibo Zhou, Qingfei Chu, Qiuxian Zheng, Jing Wang, Haihong Zhu
Software Mentions: 5
Published: about 3 years ago

10.1038/tp.2017.177

Genome-wide expression and response to exposure-based psychological therapy for anxiety disorders
Cited by: 15
Author(s): Stephen K. Roberts, Chloe Wong, Gerome Breen, Jonathan R. I. Coleman, Simone de Jong, Peter Jöhren, Robert Keers, Charles Curtis, Sang Hyuck Lee, Jürgen Margraf, Silvia Schneider, Tobias Teismann, André Wannemüller, Kathryn J. Lester, Thalia C. Eley
Software Mentions: 5
Published: about 7 years ago

10.1155/2021/5574150

Identifying Prognostic Significance of RCL1 and Four-Gene Signature as Novel Potential Biomarkers in HCC Patients
Cited by: 5
Author(s): Jun Liu, Shan-Qiang Zhang, Jing Chen, Zhibin Li, Qingming Lu, Yu-Shuai Han, Wenjie Dai, Chengyu Xie, Jicheng Li
Software Mentions: 5
Published: over 3 years ago

10.1155/2021/7922594

Identification of the Molecular Subgroups in Idiopathic Pulmonary Fibrosis by Gene Expression Profiles
Cited by: 4
Author(s): Ning Zhang, Yubiao Guo, Cong Wu, Bohan Jiang, Yuguang Wang
Software Mentions: 5
Published: about 3 years ago

10.1016/j.celrep.2019.07.039

Activation and In Vivo Evolution of the MAIT Cell Transcriptome in Mice and Humans Reveals Tissue Repair Functionality
Cited by: 130
Author(s): Timothy S C Hinks, Emanuele Marchi, Maisha Jabeen, Moshe Olshansky, Ayako Kurioka, Troi Pediongco, Bronwyn S. Meehan, Lyudmila Kostenko, Stephen J. Turner, Alexandra J. Corbett, Zhenjun Chen, Paul Klenerman, James McCluskey
Software Mentions: 5
Published: about 5 years ago

10.3389/fonc.2020.00769

Dysregulated m6A-Related Regulators Are Associated With Tumor Metastasis and Poor Prognosis in Osteosarcoma
Cited by: 54
Author(s): Jianhao Li, Benchen Rao, Jie Yang, Liwen Liu, Mengling Huang, Xin Liu, Guangying Cui, Chao Li, Qicai Han, Hao Yang, Xichun Cui, Ranran Sun
Software Mentions: 5
Published: over 4 years ago

10.7717/peerj.8390

Identification of key biomarkers and immune infiltration in the synovial tissue of osteoarthritis by bioinformatics analysis
Cited by: 46
Author(s): Weisong Cai, Haohuan Li, Yubiao Zhang, Guoge Han
Software Mentions: 5
Published: almost 5 years ago

10.7150/jca.53827

Prognostic Prediction Model for Glioblastoma: A Metabolic Gene Signature and Independent External Validation
Cited by: 6
Author(s): Chuxiang Lei, Wenlin Chen, Yuekun Wang, Binghao Zhao, Penghao Liu, Ziren Kong, Delin Liu, Congxin Dai, Yaning Wang, Yu Wang, Wenbin Ma
Software Mentions: 5
Published: almost 4 years ago

10.1038/s41598-018-34160-w

Transcriptomic and functional network features of lung squamous cell carcinoma through integrative analysis of GEO and TCGA data
Cited by: 72
Author(s): Yin Li, Jie Gu, Fan Xu, Qinqing Zhu, Di Ge
Software Mentions: 5
Published: about 6 years ago

10.1038/s41598-018-29472-w

RNA-seq and flow-cytometry of conventional, scalp, and palmoplantar psoriasis reveal shared and distinct molecular pathways
Cited by: 28
Author(s): Richard Ahn, Di Yan, Hsin-Wen Chang, Kristina Lee, Shrishti Bhattarai, Zhiming Huang, Mio Nakamura, Rasnik Singh, Ladan Afifi, Keyon Taravati, Priscila Muñoz-Sandoval, Mariela Pauli, Michael D. Rosenblum, Wilson Liao
Software Mentions: 5
Published: over 6 years ago

10.1186/s12920-019-0519-2

A systematic analysis of genomics-based modeling approaches for prediction of drug response to cytotoxic chemotherapies
Cited by: 7
Author(s): Joshua Mannheimer, Dawn L. Duval, Ashok Prasad, Daniel L. Gustafson
Software Mentions: 5
Published: over 5 years ago

10.1186/s13148-018-0439-6

DNA methylation as a predictor of fetal alcohol spectrum disorder
Cited by: 76
Author(s): Alexandre A. Lussier, Alexander M. Morin, Julia L. MacIsaac, Jenny Salmon, Joanne Weinberg, James N. Reynolds, Paul Pavlidis, Albert E. Chudley, Michæl S. Kobor
Software Mentions: 4
Published: almost 7 years ago

10.1038/s41598-019-50217-w

Microbiome-Transcriptome Interactions Related to Severity of Respiratory Syncytial Virus Infection
Cited by: 28
Author(s): Abhijeet R. Sonawane, Tian Liang, Chin Yi Chu, Xing Qiu, Lu Wang, Jeanne Holden‐Wiltse, Alex Grier, Steven R. Gill, Mary T. Caserta, Ann R. Falsey, David J. Topham, Edward E. Walsh, Thomas J. Mariani, Scott T. Weiss, Edwin K. Silverman, Kimberly Glass, Yang Yu Liu
Software Mentions: 4
Published: about 5 years ago

10.3389/fonc.2021.665276

Identification of Prognostic Signature and Gliclazide as Candidate Drugs in Lung Adenocarcinoma
Cited by: 15
Author(s): Cheng Yang, Kezuo Hou, Yizhe Wang, Chen Yang, Xueying Zheng, Jianfei Qi, Bowen Yang, Shiying Tang, Xu Han, Dongyao Shi, Ximing Wang, Yunpeng Liu, Xuejun Hu, Xiaofang Che
Software Mentions: 4
Published: over 3 years ago

10.3389/fonc.2020.01211

Exploration the Significance of a Novel Immune-Related Gene Signature in Prognosis and Immune Microenvironment of Breast Cancer
Cited by: 15
Author(s): Yajie Zhao, Chunrui Pu, Zhenzhen Liu
Software Mentions: 4
Published: over 4 years ago

10.1155/2020/4251761

Identification of Potential Hub Genes Related to Diagnosis and Prognosis of Hepatitis B Virus-Related Hepatocellular Carcinoma via Integrated Bioinformatics Analysis
Cited by: 28
Author(s): Yuqin Tang, Yongqiang Zhang, Xun Hu
Software Mentions: 4
Published: almost 4 years ago

10.1038/s41598-019-48916-5

An epigenome-wide analysis of cord blood DNA methylation reveals sex-specific effect of exposure to bisphenol A
Cited by: 25
Author(s): Ryuichi Miura, Atsuko Araki, Machiko Minatoya, Kunio Miyake, Mei Lien Chen, Sumitaka Kobayashi, Chihiro Miyashita, Jun Yamamoto, Tomohiro Matsumura, Mayumi Ishizuka, Takeo Kubota, Reiko Kishi
Software Mentions: 4
Published: about 5 years ago

10.18632/aging.101691

SNCA overexpression disturbs hippocampal gene expression trajectories in midlife
Cited by: 6
Author(s): Thomas Hentrich, Zinah Wassouf, Olaf Rieß, Julia M. Schulze‐Hentrich
Software Mentions: 4
Published: almost 6 years ago

10.7554/eLife.41770

The novel lncRNA lnc-NR2F1 is pro-neurogenic and mutated in human neurodevelopmental disorders
Cited by: 51
Author(s): Cheen Euong Ang, Qing Ma, Orly L. Wapinski, Sheng Hua Fan, Ryan A. Flynn, Qian Yi Lee, Bradley P. Coe, Masahiro Onoguchi, Victor Hipolito Olmos, T. Brian, Lynn Dukes-Rimsky, Jin Xu, Koji Tanabe, Liang Jiang Wang, Ulrich Elling, Josef Penninger, Yang Zhao, Kun Qu, Evan E. Eichler, Anand Srivastava, Marius Wernig, Howard Y. Chang
Software Mentions: 4
Published: almost 6 years ago

10.3389/fonc.2020.00627

High Levels of HIST1H2BK in Low-Grade Glioma Predicts Poor Prognosis: A Study Using CGGA and TCGA Data
Cited by: 20
Author(s): Weidong Liu, Zhentao Xu, Jie Zhou, Shuang Xing, Zhiqiang Li, Xu Gao, Shiyu Feng, Yi Xiao
Software Mentions: 4
Published: over 4 years ago

10.3390/nu12113309

Association between Breastfeeding and DNA Methylation over the Life Course: Findings from the Avon Longitudinal Study of Parents and Children (ALSPAC)
Cited by: 9
Author(s): Fernando Pires Hartwig, George Davey Smith, Andrew Simpkin, César G. Victora, Caroline L Relton, Doretta Caramaschi
Software Mentions: 4
Published: about 4 years ago

10.1038/s41598-018-24243-z

Environment-dependent striatal gene expression in the BACHD rat model for Huntington disease
Cited by: 9
Author(s): Arianna Novati, Thomas Hentrich, Zinah Wassouf, Jonasz Jeremiasz Weber, Libo Yu-Taeger, Nicole Déglon, Huu Phuc Nguyen, Julia M. Schulze‐Hentrich
Software Mentions: 4
Published: over 6 years ago

10.1038/srep43315

An inflammatory gene signature distinguishes neurofibroma Schwann cells and macrophages from cells in the normal peripheral nervous system
Cited by: 35
Author(s): Kwangmin Choi, Kakajan Komurov, Jonathan S. Fletcher, Edwin Jousma, José A. Cancelas, Jianqiang Wu, Nancy Ratner
Software Mentions: 4
Published: over 7 years ago

10.1038/s41597-019-0051-4

Characterization of CA-MRSA TCH1516 exposed to nafcillin in bacteriological and physiological media
Cited by: 14
Author(s): Saugat Poudel, Hannah Tsunemoto, Michael J. Meehan, Richard Szubin, Connor A. Olson, Anne Lamsa, Yara Seif, Nicholas Dillon, Alison Vrbanac, Joseph Sugie, Samira Dahesh, Jonathan M. Monk, Pieter C. Dorrestein, Joseph Pogliano, Rob Knight, Victor Nizet, Bernhard Ø. Palsson, Adam M. Feist
Software Mentions: 4
Published: over 5 years ago

10.1186/s12885-016-2948-z

Conservation of immune gene signatures in solid tumors and prognostic implications
Cited by: 62
Author(s): Julia Chifman, Ashok Pullikuth, Jeff W. Chou, Davide Bedognetti, Lance D. Miller
Software Mentions: 4
Published: about 8 years ago

10.7150/ijms.49576

Prognosis Prediction for Colorectal Cancer Patients: A Risk Score Based on The Metabolic-Related Genes
Cited by: 1
Author(s): Yongqu Lu, Xin Zhou, Zhenzhen Liu, Wendong Wang, Siyi Lu, Wei Fu
Software Mentions: 4
Published: almost 4 years ago

10.1186/s12920-018-0466-3

Comparison of DNA methylation profiles associated with spontaneous preterm birth in placenta and cord blood
Cited by: 27
Author(s): Xi-Meng Wang, Fei Tian, Lijun Fan, Chuanbo Xie, Zhongzheng Niu, Weiqing Chen
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12872-020-01653-4

Identification of key genes in atrial fibrillation using bioinformatics analysis
Cited by: 4
Author(s): Yueheng Liu, Rui Tang, Ye Zhao, Xuan Jiang, Yuchao Wang, Tingting Gu
Software Mentions: 4
Published: over 4 years ago

10.1155/2020/4581954

Comprehensive Analysis of Differentially Expressed miRNAs and mRNAs Reveals That miR-181a-5p Plays a Key Role in Diabetic Dermal Fibroblasts
Cited by: 4
Author(s): Peng Liu, Yi Zhu, Qin Li, Biao Cheng
Software Mentions: 4
Published: about 4 years ago

10.3389/fphys.2021.601952

Weighted Gene Co-expression Network Analysis Identifies Crucial Genes Mediating Progression of Carotid Plaque
Cited by: 9
Author(s): Mengyin Chen, Siliang Chen, Dan Yang, Jiawei Zhou, Bao Liu, Yuexin Chen, Wei Ye, Hui Zhang, Lei Ji, Yuehong Zheng
Software Mentions: 4
Published: almost 4 years ago

10.3389/fphys.2018.00399

Identification of Biomarkers Associated With Pathological Stage and Prognosis of Clear Cell Renal Cell Carcinoma by Co-expression Network Analysis
Cited by: 55
Author(s): Chen Liang, Lushun Yuan, Kaiyu Qian, Guofeng Qian, Yuan Zhu, Chin‐Lee Wu, Dong Han, Yu Xiao, Xinghuan Wang
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0118808

Prediction of Chemical Respiratory Sensitizers Using GARD, a Novel In Vitro Assay Based on a Genomic Biomarker Signature
Cited by: 31
Author(s): Andy Forreryd, Henrik Johansson, Ann-Sofie Albrekt, Carl Borrebaeck, Malin Lindstedt
Software Mentions: 4
Published: over 9 years ago

10.1111/jcmm.16553

Construction of a SUMOylation regulator‐based prognostic model in low‐grade glioma
Cited by: 3
Author(s): Xiaozhi Li, Yutong Meng
Software Mentions: 4
Published: over 3 years ago

10.1186/s12872-020-01819-0

Integrative transcriptomic, proteomic, and machine learning approach to identifying feature genes of atrial fibrillation using atrial samples from patients with valvular heart disease
Cited by: 14
Author(s): Yaozhong Liu, Fan Bai, Zhenwei Tang, Na Liu, Qiming Liu
Software Mentions: 4
Published: almost 4 years ago

10.3389/fsurg.2021.717084

Identification of a Novel Signature Predicting Overall Survival in Head and Neck Squamous Cell Carcinoma
Cited by: 4
Author(s): Haige Zheng, Huixian Liu, Yumin Lu, Li Hengguo
Software Mentions: 4
Published: about 3 years ago

10.1111/jcmm.16221

Expression and prognostic characteristics of m <sup>5</sup> C regulators in low‐grade glioma
Cited by: 11
Author(s): Xiaozhi Li, Yutong Meng
Software Mentions: 4
Published: almost 4 years ago

10.18632/genesandcancer.133

Genetically transforming human osteoblasts to sarcoma: development of an osteosarcoma model
Cited by: 21
Author(s): Yi Yuan Yang, Rui Yang, Michael Roth, Sajida Piperdi, Wendong Zhang, Howard D. Dorfman, Pulivarthi H. Rao, Amy Park, Sandeep Tripathi, Carrie Freeman, Yunjia Zhang, Rebecca Sowers, Jeremy Rosenblum, David S. Geller, Bang H. Hoang, Jonathan Gill, Richard Görlick
Software Mentions: 4
Published: over 7 years ago

10.1186/s12864-017-4186-4

The gene SMART study: method, study design, and preliminary findings
Cited by: 45
Author(s): Xu Yan, Nir Eynon, Ioannis Papadimitriou, Jujiao Kuang, Fiona Munson, Oren Tirosh, Lannie O’Keefe, Lyn R. Griffiths, Kevin J. Ashton, Nuala M. Byrne, Yannis Pitsiladis, David Bishop
Software Mentions: 4
Published: about 7 years ago

10.1186/s12967-021-03057-0

Establishment of a novel glycolysis-related prognostic gene signature for ovarian cancer and its relationships with immune infiltration of the tumor microenvironment
Cited by: 18
Author(s): Jianlei Bi, Fangfang Bi, Xue Pan, Qing Yang
Software Mentions: 4
Published: about 3 years ago

10.7150/jca.57225

Integrating 13 Microarrays to Construct a 6 RNA-binding proteins Prognostic Signature for Gastric Cancer patients
Cited by: 0
Author(s): Liqun Zhou, Qi Zhou, You Wu, Lin Xin
Software Mentions: 4
Published: almost 4 years ago

10.7150/jca.49392

Identifying Key Genes for Nasopharyngeal Carcinoma by Prioritized Consensus Differentially Expressed Genes Caused by Aberrant Methylation
Cited by: 9
Author(s): Yunqin Chen, Chun Zhou, Hua-Bin Li, Hong Li, Yixue Li
Software Mentions: 4
Published: almost 4 years ago

10.3389/fcvm.2021.627873

Essential Genes and MiRNA–mRNA Network Contributing to the Pathogenesis of Idiopathic Pulmonary Arterial Hypertension
Cited by: 7
Author(s): Shengyu Hao, Pan Jiang, Liang Xie, Guiling Xiang, Zilong Liu, Weiping Hu, Qiao Wu, Liyan Jiang, Yi Xiao, Shanqun Li
Software Mentions: 4
Published: over 3 years ago

10.1186/s13041-020-00623-3

Differentiation and localization of interneurons in the developing spinal cord depends on DOT1L expression
Cited by: 6
Author(s): Angelica Gray de Cristoforis, Francesco Ferrari, Frédéric Clotman, Tanja Vogel
Software Mentions: 4
Published: over 4 years ago

10.1186/s12864-017-3745-z

The dynamics of early-state transcriptional changes and aggregate formation in a Huntington’s disease cell model
Cited by: 20
Author(s): Martijn van Hagen, Diewertje G. E. Piebes, Wim C. de Leeuw, Ilona M. Vuist, Willeke M. C. van Roon‐Mom, Perry D. Moerland, Pernette J. Verschure
Software Mentions: 4
Published: over 7 years ago

10.1155/2020/4535820

A Novel Four-Gene Prognostic Signature as a Risk Biomarker in Cervical Cancer
Cited by: 6
Author(s): Jun Wang, Hua Zheng, Yatian Han, Geng Wang, Yanbin Li
Software Mentions: 4
Published: almost 4 years ago

10.18632/aging.103753

Eight immune-related genes predict survival outcomes and immune characteristics in breast cancer
Cited by: 2
Author(s): Xu Han, Gangjian Wang, Lili Zhu, Liu Hong, Bingjie Li
Software Mentions: 4
Published: over 4 years ago

10.1038/s42003-019-0430-6

Genetic analyses of human fetal retinal pigment epithelium gene expression suggest ocular disease mechanisms
Cited by: 18
Author(s): Boxiang Liu, Melissa A. Calton, Nathan S. Abell, Gillie Benchorin, Michael J. Gloudemans, Ming Chen, Jane Hu, Xin Li, Brunilda Balliu, Dean Bok, Stephen B. Montgomery, Douglas Vollrath
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0227193

Transcriptome analysis of early pregnancy vitamin D status and spontaneous preterm birth
Cited by: 22
Author(s): Aishwarya P. Yadama, Hooman Mirzakhani, Thomas F. McElrath, Augusto A. Litonjua, Scott T. Weiss
Software Mentions: 4
Published: almost 5 years ago

10.3389/fcell.2020.572281

The Endometrial Transcription Landscape of MRKH Syndrome
Cited by: 13
Author(s): Thomas Hentrich, André Koch, Nico Weber, Alexander Kilzheimer, Ana Luiza Silva Maia, Simone Burkhardt, Katharina Rall, Nicolas Casadei, Oliver Kohlbacher, Olaf Rieß, Julia M. Schulze‐Hentrich, Sara Brucker
Software Mentions: 4
Published: about 4 years ago

10.1016/j.ajhg.2016.05.030

BCL11A Haploinsufficiency Causes an Intellectual Disability Syndrome and Dysregulates Transcription
Cited by: 116
Author(s): Cristina Dias, Sara Busquets Estruch, Sarah A. Graham, Jeremy F. McRae, Stephen J. Sawiak, Jane A. Hurst, Shelagh Joss, Susan Holder, Jenny Morton, Claire Turner, Julien Thévenon, Kelly Mellul, Gabriela Sánchez-Andrade, Ximena Ibarra-Soria, Pelagia Derizioti, Rui F. Santos, Song-Choon Lee, Laurence Faivre, Tjitske Kleefstra, Pentao Liu, Mathew E. Hurles, Simon E. Fisher, Darren W. Logan
Software Mentions: 4
Published: over 8 years ago

10.1038/s42003-020-01469-0

DNA methylation patterns identify subgroups of pancreatic neuroendocrine tumors with clinical association
Cited by: 27
Author(s): Vanessa Lakis, Rita T. Lawlor, Felicity Newell, Ann‐Marie Patch, Andrea Mafficini, Anguraj Sadanandam, Lambros T. Koufariotis, Rebecca L. Johnston, Conrad Leonard, Scott Wood, Borislav Rusev, Vincenzo Corbo, Claudio Luchini, Sara Cingarlini, Luca Landoni, Roberto Salvia, Michèle Milella, David K. Chang, Peter J. Bailey, Nigel B. Jamieson, Fraser Duthie, Marie‐Claude Gingras, Donna M. Muzny, David A. Wheeler, Richard A. Gibbs, Massimo Milione, Apgi, ARC-Net, Paolo Pederzoli, Jaswinder S. Samra, Anthony J. Gill, Amber Johns, John V. Pearson, Andrew V. Biankin, Sean M. Grimmond, Nicola Waddell, Kátia Nones, Aldo Scarpa
Software Mentions: 4
Published: almost 4 years ago

Projects: bioconductor: sva

Papers Mentioning sva 511