10.1186/1471-2105-11-18

Selecting high-dimensional mixed graphical models using minimal AIC or BIC forests
Cited by: 72
Author(s): D.J. Edwards, Gabriel C. G. de Abreu, Rodrigo Labouriau
Software Mentions: 1
Published: over 16 years ago

10.1186/s12867-017-0091-2

Microarray expression profiling in the denervated hippocampus identifies long noncoding RNAs functionally involved in neurogenesis
Cited by: 14
Author(s): Bingying Deng, Xiang Cheng, Haoming Li, Jianbing Qin, Mei Tian, Guohua Jin
Software Mentions: 1
Published: over 9 years ago

10.1186/s12866-017-1137-9

6S RNA plays a role in recovery from nitrogen depletion in Synechocystis sp. PCC 6803
Cited by: 32
Author(s): Beate Heilmann, Kaisa Hakkila, Jens Georg, Taina Tyystjärvi, Wolfgang R. Hess, Ilka M. Axmann, Dennis Dienst
Software Mentions: 1
Published: almost 9 years ago

10.1186/s12885-021-08637-3

Dysregulated paired related homeobox 1 impacts on hepatocellular carcinoma phenotypes
Cited by: 0
Author(s): Weronika Piorońska, Zeribe C. Nwosu, Mei Han, Michael Büttner, Matthias Ebert, Steven Dooley, Christoph Meyer
Software Mentions: 1
Published: about 5 years ago

10.3389/fphys.2020.572605

Long Non-coding RNA MIAT Knockdown Prevents the Formation of Intracranial Aneurysm by Downregulating ENC1 via MYC
Cited by: 6
Author(s): Xinguo Li, Hang Zhao, Jihui Liu, Jing Tong
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2164-9-421

Gene expression profiling in hepatic tissue of newly weaned pigs fed pharmacological zinc and phytase supplemented diets
Cited by: 25
Author(s): Michelle M. Martínez-Montemayor, G. M. Hill, Nancy E. Raney, V. D. Rilington, Robert J. Tempelman, Jane E. Link, Christopher Wilkinson, A. M. Ramos, Catherine W. Ernst
Software Mentions: 1
Published: almost 18 years ago

10.1371/journal.pone.0066278

Differentially Expressed Androgen-Regulated Genes in Androgen-Sensitive Tissues Reveal Potential Biomarkers of Early Prostate Cancer
Cited by: 28
Author(s): Dogus Murat Altintas, Nathalie Allioli, Myriam Decaussin, Simon Bernard, A. Ruffion, Jacques Samarut, Virginie Vlaeminck-Guillem
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0124340

Differentially Expressed MicroRNAs in Postpartum Breast Cancer in Hispanic Women
Cited by: 22
Author(s): J. Muñoz-Rodríguez, Lukáš Vrba, Bernard W. Futscher, Chengcheng Hu, Ian K. Komenaka, María Mercedes Meza-Montenegro, Luis Enrique Gutiérrez-Millán, Adrián Daneri‐Navarro, Patricia A. Thompson, Marı́a Elena Martı́nez
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0012882

Gene Expression Profiles of Colonic Mucosa in Healthy Young Adult and Senior Dogs
Cited by: 7
Author(s): Dong Yong Kil, Brittany M. Vester Boler, Carolyn J. Apanavicius, Lawrence B. Schook, Kelly S. Swanson
Software Mentions: 1
Published: almost 16 years ago

10.1371/journal.pone.0133607

Transcriptional Response of Human Neurospheres to Helper-Dependent CAV-2 Vectors Involves the Modulation of DNA Damage Response, Microtubule and Centromere Gene Groups
Cited by: 9
Author(s): Stefania Piersanti, Romina Burla, Valerio Licursi, Catarina Brito, Mattia La Torre, Paula M. Alves, Daniel Simão, Carla Mottini, Sara Salinas, Rodolfo Negri, Enrico Tagliafico, Eric J. Kremer, Isabella Saggio
Software Mentions: 1
Published: about 11 years ago

10.1007/s11357-014-9648-x

Genome-wide age-related changes in DNA methylation and gene expression in human PBMCs
Cited by: 134
Author(s): Wilma T. Steegenga, Mark V. Boekschoten, Carolien Lute, Guido Hooiveld, Philip J. de Groot, Tiffany Morris, Andrew E. Teschendorff, Lee M. Butcher, Stephan Beck, Michael Müller
Software Mentions: 1
Published: over 12 years ago

10.3389/fphys.2018.00132

Key Inflammatory Processes in Human NASH Are Reflected in Ldlr−/−.Leiden Mice: A Translational Gene Profiling Study
Cited by: 34
Author(s): Martine C. Morrison, Robert Kleemann, Arianne van Koppen, Roeland Hanemaaijer, Lars Verschuren
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0034659

Major Cellular and Physiological Impacts of Ocean Acidification on a Reef Building Coral
Cited by: 234
Author(s): Paulina Kaniewska, Paul Campbell, David I. Kline, Mauricio Rodríguez-Lanetty, David J. Miller, Sophie Dove, Ove Høegh-Guldberg
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0077627

PhysioSpace: Relating Gene Expression Experiments from Heterogeneous Sources Using Shared Physiological Processes
Cited by: 17
Author(s): Michael Lenz, Bernhard Schuldt, Franz‐Josef Müller, Andreas Schuppert
Software Mentions: 1
Published: almost 13 years ago

10.3389/fphys.2018.01635

Inflammation and Mechanical Stress Stimulate Osteogenic Differentiation of Human Aortic Valve Interstitial Cells
Cited by: 30
Author(s): Maria Bogdanova, Aleksandra Kostina, Katarina Zihlavnikova Enayati, Arsenii Zabirnyk, Anna Malashicheva, Kåre‐Olav Stensløkken, Gareth J. Sullivan, Mari-Liis Kaljusto, John‐Peder Escobar Kvitting, Anna Kostareva, Jarle Vaage, Arkady Rutkovskiy
Software Mentions: 1
Published: almost 8 years ago

10.7554/eLife.69578

Innate immune activation by checkpoint inhibition in human patient-derived lung cancer tissues
Cited by: 15
Author(s): Teresa W.‐M. Fan, Richard M. Higashi, Hai Song, Saeed Daneshmandi, Angela Mahan, Matthew S. Purdom, Thérèse Bocklage, Thomas Pittman, Daheng He, Chi Wang, Andrew N. Lane
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0161129

COPD Exacerbation Biomarkers Validated Using Multiple Reaction Monitoring Mass Spectrometry
Cited by: 17
Author(s): Janice M. Leung, Virginia Chen, Zsuzsanna Hollander, Darlene Dai, Scott J. Tebbutt, Shawn D. Aaron, Kathy L. Vandemheen, Stephen I. Rennard, J. Mark FitzGerald, Prescott G. Woodruff, Stephen C. Lazarus, John E. Connett, Harvey O. Coxson, Bruce E. Miller, Christoph H. Borchers, Bruce M. McManus, Raymond T. Ng, Don D. Sin
Software Mentions: 1
Published: about 10 years ago

10.3389/fphys.2019.01112

Circular RNA Expression Profiling and Selection of Key Circular RNAs in the Hypothalamus of Heat-Acclimated Rats
Cited by: 8
Author(s): Lijun Fan, Gaihong An, Shang Wang, Xuewei Chen, Ying Liu, Zhifeng Liu, Qiang Ma, Jing Wang
Software Mentions: 1
Published: about 7 years ago

10.3389/fphys.2020.00804

microRNA-9 Inhibits Vulnerable Plaque Formation and Vascular Remodeling via Suppression of the SDC2-Dependent FAK/ERK Signaling Pathway in Mice With Atherosclerosis
Cited by: 13
Author(s): Ruihong Zhang, Bai Song, Xiaojian Hong, Zhiyuan Shen, Li Sui, Siyu Wang
Software Mentions: 1
Published: about 6 years ago

10.7554/eLife.12102

Structural and kinetic analysis of the COP9-Signalosome activation and the cullin-RING ubiquitin ligase deneddylation cycle
Cited by: 72
Author(s): Ruzbeh Mosadeghi, Kurt M. Reichermeier, Martin Winkler, Anne Schreiber, Justin M. Reitsma, Yaru Zhang, Florian Stengel, Junyue Cao, Minsoo Kim, Michael J. Sweredoski, Sonja Hess, Alexander Leitner, Ruedi Aebersold, Matthias Peter, Raymond J. Deshaies, Radoslav I. Enchev
Software Mentions: 1
Published: over 10 years ago

10.1186/s12866-020-02059-0

The identification of co-expressed gene modules in Streptococcus pneumonia from colonization to infection to predict novel potential virulence genes
Cited by: 0
Author(s): Sadegh Azimzadeh Jamalkandi, Morteza Kouhsar, Jafar Salimian, Ali Ahmadi
Software Mentions: 1
Published: almost 6 years ago

10.3389/fphys.2020.00621

Regulatory T Cells as a Novel Candidate for Cell-Based Therapy in Kidney Disease
Cited by: 2
Author(s): Junyu Lu, Jianfeng Zhang, Menghua Chen, Chun Chen, Zhengzhao Li, Liao Pinhu
Software Mentions: 1
Published: over 6 years ago

10.7554/eLife.51620

An atypical DYRK kinase connects quorum-sensing with posttranscriptional gene regulation in Trypanosoma brucei
Cited by: 28
Author(s): Mathieu Cayla, Lindsay McDonald, Paula MacGregor, Keith R. Matthews
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0002141

Distinctive Patterns of MicroRNA Expression Associated with Karyotype in Acute Myeloid Leukaemia
Cited by: 250
Author(s): Amanda Dixon‐McIver, Philip East, Charles A. Mein, Jean‐Baptiste Cazier, Gael Molloy, Tracy Chaplin, T. Andrew Lister, Bryan D. Young, Silvana Debernardi
Software Mentions: 1
Published: over 18 years ago

10.3389/fphys.2019.00619

Comparative Expression Profiling of Wild Type Drosophila Malpighian Tubules and von Hippel-Lindau Haploinsufficient Mutant
Cited by: 2
Author(s): Marilena Ignesti, Davide Andrenacci, Bettina Fischer, Valeria Cavaliere, Giuseppe Gargiulo
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0068630

Methylation of the Claudin 1 Promoter Is Associated with Loss of Expression in Estrogen Receptor Positive Breast Cancer
Cited by: 42
Author(s): Francescopaolo Di Cello, Leslie Cope, Huili Li, Jana Jeschke, Wei Wang, Stephen B. Baylin, Cynthia A. Zahnow
Software Mentions: 1
Published: about 13 years ago

10.1186/s12859-018-2410-0

Discovering the ‘Dark matters’ in expression data of miRNA based on the miRNA-mRNA and miRNA-lncRNA networks
Cited by: 3
Author(s): Cong Pian, Guangle Zhang, Sanling Wu, Fēi Li
Software Mentions: 1
Published: almost 8 years ago

10.1186/s12866-019-1684-3

Temporal analysis of mRNA expression profiles in Orientia infected C3HeB/FeJ mouse
Cited by: 3
Author(s): Chien‐Chung Chao, Ruoting Yang, Zhiwen Zhang, Tatyana Belinskaya, Chye-Teik Chan, Stacy‐Ann Miller, Rasha Hammamieh, Marti Jett, Wei‐Mei Ching
Software Mentions: 1
Published: over 6 years ago

10.1186/1471-2180-12-9

Interleukin-8 is the single most up-regulated gene in whole genome profiling of H. pylori exposed gastric epithelial cells
Cited by: 67
Author(s): Lars Lohne Eftang, Ying Esbensen, Tone Tannæs, Ida Rashida Khan Bukholm, Geir Bukholm
Software Mentions: 1
Published: over 14 years ago

10.1186/1471-2164-12-490

Skin healing and scale regeneration in fed and unfed sea bream, Sparus auratus
Cited by: 59
Author(s): Florbela A. Vieira, Sílvia F. Gregório, Serena Ferraresso, Michael A. S. Thorne, Rita A. Costa, Massimo Milan, Luca Bargelloni, Melody S. Clark, Adelino V.M. Canário, Deborah M. Power
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0066307

Gene Expression Profiling of Gliadin Effects on Intestinal Epithelial Cells Suggests Novel Non-Enzymatic Functions of Pepsin and Trypsin
Cited by: 11
Author(s): Amarjit Parmar, Dario Greco, Jarkko I. Venäläinen, Massimiliano Gentile, Emma Dukes, Päivi Saavalainen
Software Mentions: 1
Published: about 13 years ago

10.3389/fpls.2015.00682

Analysis of global gene expression profile of rice in response to methylglyoxal indicates its possible role as a stress signal molecule
Cited by: 50
Author(s): Charanpreet Kaur, Hemant R. Kushwaha, Ananda Mustafiz, Ashwani Pareek, Sudhir K. Sopory, Sneh L. Singla‐Pareek
Software Mentions: 1
Published: about 11 years ago

10.1007/s00401-016-1550-4

Glycolytic-to-oxidative fiber-type switch and mTOR signaling activation are early-onset features of SBMA muscle modified by high-fat diet
Cited by: 67
Author(s): Anna Rocchi, Carmelo Milioto, Sara Parodi, Andrea Armirotti, Doriana Borgia, Matteo Pellegrini, Anna Urciuolo, Sibilla Molon, Valeria Morbidoni, Manuela Marabita, Vanina Romanello, Pamela Gatto, Bert Blaauw, Paolo Bonaldo, Fabio Sambataro, Diane M. Robins, Andrew P. Lieberman, Gian Domenico Sorarù, Lodovica Vergani, Marco Sandri, Maria Pennuto
Software Mentions: 1
Published: over 10 years ago

10.1186/s12885-021-08591-0

Integration of RNA-Seq and proteomics data identifies glioblastoma multiforme surfaceome signature
Cited by: 13
Author(s): Saiful Effendi Syafruddin, Wan Fahmi Wan Mohamad Nazarie, Nurshahirah Ashikin Moidu, Bee Hong Soon, M. Aiman Mohtar
Software Mentions: 1
Published: about 5 years ago

10.3389/fpls.2015.01198

From Accumulation to Degradation: Reprogramming Polyamine Metabolism Facilitates Dark-Induced Senescence in Barley Leaf Cells
Cited by: 27
Author(s): Ewa Sobieszczuk‐Nowicka, Szymon Kubala, Agnieszka Żmieńko, Arleta Małecka, Jolanta Legocka
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0156151

Targeting Serglycin Prevents Metastasis in Murine Mammary Carcinoma
Cited by: 19
Author(s): Ananya Roy, Julia Femel, Elisabeth J. M. Huijbers, Dorothe Spillmann, Erik Larsson, Maria Ringvall, Anna-Karin Olsson, Magnus Åbrink
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0127498

Englerin A Agonizes the TRPC4/C5 Cation Channels to Inhibit Tumor Cell Line Proliferation
Cited by: 80
Author(s): Cheryl Carson, Pichai Raman, Jennifer Tullai, Lei Xu, Martin Hénault, Emily Thomas, Suresh Yeola, Jianmin Lao, Mark J. McPate, J. Martin Verkuyl, George Marsh, Jason Sarber, Adam Amaral, Scott Bailey, Danuta Lubicka, Helen Trinh Pham, Nicolette Miranda, Jian Ding, Hui Tang, Haisong Ju, Pamela Tranter, Nan Ji, Philipp Krastel, Rishi K. Jain, Andrew Schumacher, Joseph Loureiro, Elizabeth George, Giuliano Berellini, Nathan T. Ross, Simon M. Bushell, Gül Erdemli, Jonathan M. Solomon
Software Mentions: 1
Published: about 11 years ago

10.1186/1755-8794-4-67

Gene expression during normal and FSHD myogenesis
Cited by: 81
Author(s): Koji Tsumagari, Shao-Chi Chang, Michelle Lacey, Carl Baribault, Sridar V. Chittur, Janet E. Sowden, Rabi Tawil, Gregory E. Crawford, Melanie Ehrlich
Software Mentions: 1
Published: almost 15 years ago

10.1155/2011/262080

A Systemic Network Triggered by Human Cytomegalovirus Entry
Cited by: 6
Author(s): Anyou Wang, Li Ren, Hong Li
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0029457

Convergent Differential Regulation of Parvalbumin in the Brains of Vocal Learners
Cited by: 42
Author(s): Erina Hara, Miriam V. Rivas, James M. Ward, Kazuo Okanoya, Erich D. Jarvis
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0020043

Differential Proteomics in Dequeened Honeybee Colonies Reveals Lower Viral Load in Hemolymph of Fertile Worker Bees
Cited by: 21
Author(s): Dries Cardoen, Ulrich Ernst, Matthias Van Vaerenbergh, Bart Boerjan, Dirk C. de Graaf, Tom Wenseleers, Liliane Schoofs, Peter Verleyen
Software Mentions: 1
Published: over 15 years ago

10.18632/oncotarget.23311

Transcriptomic analysis in pediatric spinal ependymoma reveals distinct molecular signatures
Cited by: 6
Author(s): Anbarasu Lourdusamy, Li Luo, Lisa Storer, Kenneth J. Cohen, Linda M.S. Resar, Richard G. Grundy
Software Mentions: 1
Published: almost 9 years ago

10.1186/s12906-017-1911-0

Comprehensive evaluation of gene expression signatures in response to electroacupuncture stimulation at Zusanli (ST36) acupoint by transcriptomic analysis
Cited by: 2
Author(s): Jing-Shan Wu, Hsin-Yi Lo, Chia-Cheng Li, Fengyuan Chen, Chien-Yun Hsiang, Tin-Yun Ho
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0064144

Generation and Characterization of an Nxf7 Knockout Mouse to Study NXF5 Deficiency in a Patient with Intellectual Disability
Cited by: 7
Author(s): Lieselot Vanmarsenille, Johan Verbeeck, Stefanie Belet, Anton Roebroek, Tom Van de Putte, Joke Nevelsteen, Zsuzsanna Callaerts-Végh, Rudi D’Hooge, Peter Marynen, Guy Froyen
Software Mentions: 1
Published: over 13 years ago

10.3389/fpls.2016.01793

Insights into the Role of the Berry-Specific Ethylene Responsive Factor VviERF045
Cited by: 27
Author(s): Carmen Leida, A. Dal Rì, Lorenza Dalla Costa, María Dolores Gómez, Valerio Pompili, Paolo Sonego, Kristof Engelen, Domenico Masuero, Gabino Ríos, C. Moser
Software Mentions: 1
Published: almost 10 years ago

10.3389/fpls.2016.00180

Transcriptomic Analysis of Soil-Grown Arabidopsis thaliana Roots and Shoots in Response to a Drought Stress
Cited by: 78
Author(s): Sultana Rasheed, Khurram Bashir, Atsushi Matsui, Maho Tanaka, Motoaki Seki
Software Mentions: 1
Published: over 10 years ago

10.3389/fpls.2017.02192

Salicylic Acid Perturbs sRNA-Gibberellin Regulatory Network in Immune Response of Potato to Potato virus Y Infection
Cited by: 39
Author(s): Maja Križnik, Marko Petek, David Dobnik, Živa Ramšak, Špela Baebler, Stephan Pollmann, Jan Kreuze, Jana Žel, Kristina Gruden
Software Mentions: 1
Published: over 8 years ago

10.1186/s12920-020-0690-5

Amniotic fluid cell-free transcriptome: a glimpse into fetal development and placental cellular dynamics during normal pregnancy
Cited by: 24
Author(s): Adi L. Tarca, Roberto Romero, Roger Piqué-Regi, Percy Pacora, Bogdan Done, Marian Kacerovský, Gaurav Bhatti, Sunil Jaiman, Sonia S. Hassan, Chaur‐Dong Hsu, Nardhy Gómez-López
Software Mentions: 1
Published: over 6 years ago

10.3389/fpls.2017.01158

Chloroplast Redox Status Modulates Genome-Wide Plant Responses during the Non-host Interaction of Tobacco with the Hemibiotrophic Bacterium Xanthomonas campestris pv. vesicatoria
Cited by: 17
Author(s): Juan José Pierella Karlusich, Matías D. Zurbriggen, Fahimeh Shahinnia, Sophia Sonnewald, Uwe Sonnewald, Seyed Abdollah Hosseini, Mohammad‐Reza Hajirezaei, Néstor Carrillo
Software Mentions: 1
Published: about 9 years ago

10.1186/1755-8794-7-35

A systems biology approach to understand the pathophysiological mechanisms of cardiac pathological hypertrophy associated with rosiglitazone
Cited by: 18
Author(s): Lars Verschuren, Peter Y. Wielinga, Thomas Kelder, Marijana Radonjić, Kanita Salic, Robert Kleemann, Ben van Ommen, Teake Kooistra
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0082516

Epigenetic Regulation of Depot-Specific Gene Expression in Adipose Tissue
Cited by: 33
Author(s): Sandra Gehrke, Bodo Brueckner, Andreas Schepky, Johannes Klein, Alexander Iwen, Thomas C. G. Bosch, Horst Wenck, Marc Winnefeld, Sabine Hagemann
Software Mentions: 1
Published: almost 13 years ago

10.1186/1471-2105-7-261

Empirical array quality weights in the analysis of microarray data
Cited by: 270
Author(s): Matthew E. Ritchie, Dileepa S. Diyagama, Jody Neilson, Ryan K. van Laar, Alexander Dobrovic, Andrew Holloway, Gordon K. Smyth
Software Mentions: 1
Published: over 20 years ago

10.1186/s13018-021-02464-9

Bioinformatics analysis and identification of genes and molecular pathways in steroid-induced osteonecrosis of the femoral head
Cited by: 8
Author(s): Tianye Lin, Weijian Chen, Peng Yang, Ziqi Li, Qiushi Wei, Liqing Du, Haibin Wang, Wei He, Qingwen Zhang
Software Mentions: 1
Published: over 5 years ago

10.3389/fpls.2013.00403

Arabidopsis TNL-WRKY domain receptor RRS1 contributes to temperature-conditioned RPS4 auto-immunity
Cited by: 40
Author(s): Katharina Heidrich, Kazuhiko Tsuda, Servane Blanvillain-Baufumé, Lennart Wirthmueller, Jaqueline Bautor, Jane E. Parker
Software Mentions: 1
Published: over 13 years ago

10.1186/s12943-018-0911-0

EIF4A3-induced circular RNA MMP9 (circMMP9) acts as a sponge of miR-124 and promotes glioblastoma multiforme cell tumorigenesis
Cited by: 227
Author(s): Renjie Wang, Sai Zhang, Xuyi Chen, Nan Li, Jianwei Li, Ruichao Jia, Yuanqing Pan, Haiqian Liang
Software Mentions: 1
Published: almost 8 years ago

10.1186/s13148-020-00894-6

Concentrations of persistent organic pollutants in maternal plasma and epigenome-wide placental DNA methylation
Cited by: 45
Author(s): Marion Ouidir, Pauline Mendola, Germaine M. Buck Louis, Kurunthachalam Kannan, Cuilin Zhang, Fasil Tekola‐Ayele
Software Mentions: 1
Published: about 6 years ago

10.18632/oncotarget.12130

<i>RNF43</i> and <i>ZNRF3</i> are commonly altered in serrated pathway colorectal tumorigenesis
Cited by: 77
Author(s): Catherine Bond, Diane McKeone, Murugan Kalimutho, Mark Bettington, Sally-Ann Pearson, Troy Dumenil, Leesa Wockner, Matthew Burge, Barbara A. Leggett, Vicki Whitehall
Software Mentions: 1
Published: almost 10 years ago

10.1186/s13148-020-0820-0

An epigenome-wide association study of posttraumatic stress disorder in US veterans implicates several new DNA methylation loci
Cited by: 52
Author(s): Mark W. Logue, Mark W. Miller, Erika J. Wolf, Bertrand R. Huber, Filomene G. Morrison, Zhenwei Zhou, Yuanchao Zheng, Alicia K. Smith, Nikolaos P. Daskalakis, Andrew Ratanatharathorn, Monica Uddin, Caroline M. Nievergelt, Allison Ashley‐Koch, Dewleen G. Baker, Jean C. Beckham, Melanie E. Garrett, Marco P. Boks, Elbert Geuze, Gerald A. Grant, Michael A. Hauser, Ronald C. Kessler, Nathan A. Kimbrel, Adam X. Maihofer, Christine E. Marx, Xuejun Qin, Victoria B. Risbrough, Bart P. F. Rutten, Murray B. Stein, Robert J. Ursano, Eric Vermetten, Christiaan H. Vinkers, Erin B. Ware, Annjanette Stone, Steven A. Schichman, Regina E. McGlinchey, William Milberg, Jasmeet P. Hayes, Mieke Verfaellie
Software Mentions: 1
Published: over 6 years ago

10.1080/0886022X.2016.1244083

Identification of crucial miRNAs and the targets in renal cortex of hypertensive patients by expression profiles
Cited by: 12
Author(s): Guohua Wang, Lan Wu, Zhi Chen, Jinghui Sun
Software Mentions: 1
Published: almost 10 years ago

10.1080/0886022X.2019.1669460

The <i>miR-15a-5p-XIST-CUL3</i> regulatory axis is important for sepsis-induced acute kidney injury
Cited by: 43
Author(s): Guanhua Xu, Lujiao Mo, Channi Wu, Xiaoyuan Shen, Han Dong, Lixin Yu, Ping-Ying Pan, Kanda Pan
Software Mentions: 1
Published: over 7 years ago

10.1186/s12958-015-0010-7

Global gene expression in granulosa cells of growing, plateau and atretic dominant follicles in cattle
Cited by: 49
Author(s): Annie Girard, Isabelle Dufort, Gabriel Douville, Marc‐André Sirard
Software Mentions: 1
Published: over 11 years ago

10.1186/1476-4598-13-216

Small nucleolar RNA 113–1 suppresses tumorigenesis in hepatocellular carcinoma
Cited by: 82
Author(s): Gang Xu, Fang Yang, Chen Ding, Lan‐Juan Zhao, Hao Ren, Ping Zhao, Wen Wang, Zhongtian Qi
Software Mentions: 1
Published: about 12 years ago

10.1186/s12958-019-0546-z

Analysis of key genes and their functions in placental tissue of patients with gestational diabetes mellitus
Cited by: 9
Author(s): Yuxia Wang, Haifeng Yu, Fangmei Liu, Xiue Song
Software Mentions: 1
Published: almost 7 years ago

10.1155/2020/2379280

Study of Osteoarthritis-Related Hub Genes Based on Bioinformatics Analysis
Cited by: 11
Author(s): Zhe Zhu, Lei Zhong, Ronghang Li, Yuzhe Liu, Xiangrun Chen, Zhaoyan Li, Lanfeng Huang
Software Mentions: 1
Published: about 6 years ago

10.1186/s12958-021-00760-x

TMT-based proteomic and bioinformatic analyses of human granulosa cells from obese and normal-weight female subjects
Cited by: 9
Author(s): Chenchen Si, Nan Wang, Mingjie Wang, Yue Liu, Zhihong Niu, Zhide Ding
Software Mentions: 1
Published: over 5 years ago

10.18632/oncotarget.12118

Somatic polyploidy is associated with the upregulation of c-MYC interacting genes and EMT-like signature
Cited by: 39
Author(s): Alejandro Vázquez-Martín, Olga V. Anatskaya, Alessandro Giuliani, Jekaterina Ērenpreisa, Sui Huang, Kristīne Salmiņa, Inna Inashkina, Anda Huna, Nikolay Nikolsky, Alexander E. Vinogradov
Software Mentions: 1
Published: almost 10 years ago

10.1530/REP-19-0587

Integrated analysis of mRNA and protein expression profiling in tubal endometriosis
Cited by: 5
Author(s): Hang Qi, Huiyu Zhang, Xiujuan Zhao, Ya Qin, Liang Guo, Xiaoqing He, Jian Zhang
Software Mentions: 1
Published: over 6 years ago

10.1530/REP-20-0677

CLDN1 regulates trophoblast apoptosis and proliferation in preeclampsia
Cited by: 9
Author(s): Yuchen Zhang, Xiaoli Qin, Xiaoling Ma, Hui-Qin Mo, Quan Shi, Cheng-Xi Zhang, Xiaowei Wei, Xueqing Liu, Yan Zhang, Fu‐Ju Tian, Yi Lin
Software Mentions: 1
Published: over 5 years ago

10.1186/s13148-018-0591-z

Machine learning selected smoking-associated DNA methylation signatures that predict HIV prognosis and mortality
Cited by: 33
Author(s): Xinyu Zhang, Ying Hu, Bradley E. Aouizerat, Gang Peng, Vincent C. Marconi, Michael J. Corley, Todd Hulgan, Kendall Bryant, Hongyu Zhao, John H. Krystal, Amy C. Justice, Ke Xu
Software Mentions: 1
Published: almost 8 years ago

10.1186/s13148-018-0490-3

Epigenome-wide DNA methylation profiling of periprostatic adipose tissue in prostate cancer patients with excess adiposity—a pilot study
Cited by: 19
Author(s): Yan Cheng, Cátia Monteiro, Andreia Matos, Jiaying You, Avelino Fraga, Carina Pereira, Victoria Catalán, Amaia Rodrı́guez, Javier Gómez-Ambrosi, Gema Frühbeck, Ricardo Ribeiro, Pingzhao Hu
Software Mentions: 1
Published: over 8 years ago

10.1186/s13148-018-0579-8

Loss of DNA methylation is related to increased expression of miR-21 and miR-146b in papillary thyroid carcinoma
Cited by: 24
Author(s): Isabella Maria Dias Payão Ortiz, Mateus Camargo Barros-Filho, Mariana Bisarro dos Reis, Caroline Moraes Beltrami, Fábio Albuquerque Marchi, Hellen Kuasne, Luísa Matos do Canto, Julia Bette Homem de Mello, Cecilie Abildgaard, Clóvis Antônio Lopes Pinto, Luiz Paulo Kowalski, Sílvia Regina Rogatto
Software Mentions: 1
Published: almost 8 years ago

10.1155/2021/7394344

PP2 Ameliorates Renal Fibrosis by Regulating the NF-κB/COX-2 and PPARγ/UCP2 Pathway in Diabetic Mice
Cited by: 11
Author(s): Jinying Wei, Xia Deng, Li Yang, Runmei Li, Zhaohua Yang, Xiuyuan Li, Shan Song, Yonghong Shi, Huijun Duan, Haijiang Wu
Software Mentions: 1
Published: almost 5 years ago

10.1186/1465-9921-10-2

Transcriptome profiling of primary murine monocytes, lung macrophages and lung dendritic cells reveals a distinct expression of genes involved in cell trafficking
Cited by: 29
Author(s): Zbigniew Zasłona, Jochen Wilhelm, Lidija Cakarova, Leigh M. Marsh, Werner Seeger, Jürgen Lohmeyer, Werner von Wulffen
Software Mentions: 1
Published: over 17 years ago

10.1186/s13148-018-0499-7

Epigenetic aging of human hematopoietic cells is not accelerated upon transplantation into mice
Cited by: 12
Author(s): Joana Frobel, Susann Rahmig, Julia Franzen, Claudia Waskow, Wolfgang Wagner
Software Mentions: 1
Published: over 8 years ago

10.18632/oncotarget.13284

Specific micro-RNA expression patterns distinguish the basal and luminal subtypes of muscle-invasive bladder cancer
Cited by: 30
Author(s): Andrea Ochoa, Woonyoung Choi, Xiaoping Su, Arlene Siefker-Radtke, Bogdan Czerniak, Colin P. Dinney, David J. McConkey
Software Mentions: 1
Published: almost 10 years ago

10.1186/s13148-021-01048-y

Differential methylation EPIC analysis discloses cisplatin-resistance related hypermethylation and tumor-specific heterogeneity within matched primary and metastatic testicular germ cell tumor patient tissue samples
Cited by: 12
Author(s): João Lobo, Vera Constâncio, Pedro Leite‐Silva, Rita Guimarães, Mariana Cantante, Isaac Braga, Joaquina Maurício, Leendert H. J. Looijenga, Rui Henrique, Carmen Jerónimo
Software Mentions: 1
Published: over 5 years ago

10.1186/s13148-020-00930-5

Epigenetic stratification of head and neck cancer survivors reveals differences in lycopene levels, alcohol consumption, and methylation of immune regulatory genes
Cited by: 9
Author(s): Laura Moody, Sylvia L. Crowder, Andrew D. Frugé, Julie L. Locher, Wendy Demark‐Wahnefried, Laura Q. Rogers, Ashley Delk-Licata, William R. Carroll, Sharon A. Spencer, Michael Black, John W. Erdman, Hong Chen, Yuan Pan, Anna E. Arthur
Software Mentions: 1
Published: about 6 years ago

10.1186/s12931-018-0816-x

The therapeutic effect of mesenchymal stem cells on pulmonary myeloid cells following neonatal hyperoxic lung injury in mice
Cited by: 23
Author(s): Ali Al-Rubaie, Andrea F Wise, Foula Sozo, Robert De Matteo, Chrishan S. Samuel, Richard Harding, Sharon D. Ricardo
Software Mentions: 1
Published: over 8 years ago

10.1186/s12931-019-1062-6

Arginase impairs hypoxic pulmonary vasoconstriction in murine endotoxemia
Cited by: 6
Author(s): Bodil Petersen, Cornelius Busch, Grigorij Schleifer, Dominik Schaack, Felix Lasitschka, Kenneth D. Bloch, Donald B. Bloch, Fumito Ichinose
Software Mentions: 1
Published: over 7 years ago

10.1186/s13148-019-0736-8

Random forest-based modelling to detect biomarkers for prostate cancer progression
Cited by: 66
Author(s): Réka Tóth, Heiko Schiffmann, Claudia Hube‐Magg, Franziska Büscheck, Doris Höflmayer, Sören Weidemann, Patrick Lebok, Christoph Fraune, Sarah Minner, Thorsten Schlomm, Guido Sauter, Christoph Plass, Yassen Assenov, Ronald Simon, Jan Meiners, Clarissa Gerhäuser
Software Mentions: 1
Published: almost 7 years ago

10.1186/s13148-020-00843-3

Adipose stem cells from patients with Crohn’s disease show a distinctive DNA methylation pattern
Cited by: 12
Author(s): Carolina Serena, Mónica Millán, Miriam Ejarque, Alfonso Saera-Vila, Elsa Maymó-Masip, Catalina Núñez‐Roa, Diandra Monfort-Ferré, Margarida Terrón-Puig, Michelle Bautista, Margarita Menacho, Marc Martí, Eloy Espín, Joan Vendrell, Sonia Fernández‐Veledo
Software Mentions: 1
Published: over 6 years ago

10.1186/s12931-019-1176-x

Wnt signaling regulates trans-differentiation of stem cell like type 2 alveolar epithelial cells to type 1 epithelial cells
Cited by: 34
Author(s): Elhusseiny Mohamed Mahmud Abdelwahab, Judit Rapp, D. Feller, Veronika Csöngei, Szilárd Pál, Domokos Bartis, David Thickett, Judit E. Pongrácz
Software Mentions: 1
Published: about 7 years ago

10.1186/1476-4598-9-283

Elimination of head and neck cancer initiating cells through targeting glucose regulated protein78 signaling
Cited by: 98
Author(s): Meng-Ju Wu, Chia Ing Jan, Yeou Guang Tsay, Yau Hua Yu, Chih Yang Huang, Shu Chun Lin, Chung Ji Liu, Yu Syuan Chen, Jeng‐Fan Lo, Cheng Chia Yu
Software Mentions: 1
Published: almost 16 years ago

10.1186/1476-4598-8-71

Meta-analysis of glioblastoma multiforme versus anaplastic astrocytoma identifies robust gene markers
Cited by: 56
Author(s): Jonathan M. Dreyfuss, Mark D. Johnson, Peter J. Park
Software Mentions: 1
Published: about 17 years ago

10.1186/s13148-020-00956-9

Longitudinal analysis of healthy colon establishes aspirin as a suppressor of cancer-related epigenetic aging
Cited by: 4
Author(s): Faiza Noreen, Anna Chaber-Ciopinska, Jarosław Reguła, Primo Schär, Kaspar Truninger
Software Mentions: 1
Published: almost 6 years ago

10.1186/s13148-019-0777-z

Effect of tobacco smoking on the epigenetic age of human respiratory organs
Cited by: 41
Author(s): Xiaohui Wu, Qingsheng Huang, Ruheena Javed, Jiayong Zhong, Huan Gao, Huiying Liang
Software Mentions: 1
Published: almost 7 years ago

10.1186/s13148-018-0482-3

Competing endogenous RNA expression profiling in pre-eclampsia identifies hsa_circ_0036877 as a potential novel blood biomarker for early pre-eclampsia
Cited by: 72
Author(s): Xiaopeng Hu, Junping Ao, Xinyue Li, Huijuan Zhang, Ji Wu, Weiwei Cheng
Software Mentions: 1
Published: over 8 years ago

10.1186/s13148-016-0181-x

Reciprocal changes in DNA methylation and hydroxymethylation and a broad repressive epigenetic switch characterize FMR1 transcriptional silencing in fragile X syndrome
Cited by: 17
Author(s): Sarah Brasa, Arne Mueller, Sébastien Jacquemont, Florian Hahne, Izabela Rozenberg, Thomas Peters, Yunsheng He, Christine McCormack, F. Gasparini, Salah-Dine Chibout, Olivier Grenet, Jonathan G. Moggs, Baltazar Gomez‐Mancilla, Rémi Terranova
Software Mentions: 1
Published: over 10 years ago

10.18632/oncotarget.13610

Membrane-bound ICAM-1 contributes to the onset of proinvasive tumor stroma by controlling acto-myosin contractility in carcinoma-associated fibroblasts
Cited by: 15
Author(s): Stéphanie Bonan, Jean Albrengues, Eloïse M. Grasset, Sanya-Eduarda Kužet, Nicolas Nottet, Isabelle Bourget, Thomas Bertero, Bernard Mari, Guerríno Meneguzzi, Cédric Gaggioli
Software Mentions: 1
Published: almost 10 years ago

10.1186/s12977-018-0409-2

A CRISPR screen for factors regulating SAMHD1 degradation identifies IFITMs as potent inhibitors of lentiviral particle delivery
Cited by: 20
Author(s): Ferdinand Roesch, Molly OhAinle, Michael Emerman
Software Mentions: 1
Published: over 8 years ago

10.1186/s12943-019-1072-5

Circ-AKT3 inhibits clear cell renal cell carcinoma metastasis via altering miR-296-3p/E-cadherin signals
Cited by: 112
Author(s): Dingwei Xue, Huan Wang, Yuanlei Chen, Danyang Shen, Jinmei Lu, Mingchao Wang, Abudureheman Zebibula, Liwei Xu, Haiyang Wu, Gonghui Li, Liqun Xia
Software Mentions: 1
Published: almost 7 years ago

10.1186/s13148-020-00983-6

Global hypermethylation of intestinal epithelial cells is a hallmark feature of neonatal surgical necrotizing enterocolitis
Cited by: 12
Author(s): Misty Good, Tianjiao Chu, Patricia Shaw, Lora McClain, Austin Chamberlain, Carlos Castro, Jamie M. Rimer, Belgacem Mihi, Qing Gong, Lila S. Nolan, Krista Cooksey, Laura Linneman, Pranjal Agrawal, David N. Finegold, David G. Peters
Software Mentions: 1
Published: almost 6 years ago

10.1186/s40880-017-0255-y

Systematic analyses of glutamine and glutamate metabolisms across different cancer types
Cited by: 22
Author(s): Yuan Tian, Wei Du, Sha Cao, Yue Wu, Ning Dong, Yan Wang, Ying Xu
Software Mentions: 1
Published: almost 9 years ago

10.1177/2472555220973597

CETSA MS Profiling for a Comparative Assessment of FDA-Approved Antivirals Repurposed for COVID-19 Therapy Identifies TRIP13 as a Remdesivir Off-Target
Cited by: 11
Author(s): Tomas Friman, Alexey Chernobrovkin, Daniel Martinez Molina, Laurence H. Arnold
Software Mentions: 1
Published: over 5 years ago

10.1002/cbic.201600396

Discovery of Unusual Biaryl Polyketides by Activation of a Silent<i>Streptomyces venezuelae</i>Biosynthetic Gene Cluster
Cited by: 47
Author(s): Anyarat Thanapipatsiri, Juan Pablo Gomez-Escribano, Lijiang Song, Maureen J. Bibb, Mahmoud M. Al‐Bassam, Govind Chandra, Arinthip Thamchaipenet, Gregory L. Challis, Mervyn J. Bibb
Software Mentions: 1
Published: almost 10 years ago

10.1186/1476-4598-13-159

Downregulation of deoxycytidine kinase in cytarabine-resistant mantle cell lymphoma cells confers cross-resistance to nucleoside analogs gemcitabine, fludarabine and cladribine, but not to other classes of anti-lymphoma agents
Cited by: 29
Author(s): Magdalena Klánová, Lucie Lorková, Ondřej Vít, Bokang Calvin Lenyeletse Maswabi, Jan Molinský, Jana Pospisilova, Petra Vočková, Cory Mavis, Lucie Latečková, Vojtěch Kulvait, Dana Vejmelkova, Radek Jakša, Francisco Hernandez, Marek Trněný, Martin Vokurka, Jir̆ı́ Petrák, Pavel Klener
Software Mentions: 1
Published: about 12 years ago

10.18632/oncotarget.14004

Establishment and application of a novel patient-derived KIAA1549:BRAF-driven pediatric pilocytic astrocytoma model for preclinical drug testing
Cited by: 38
Author(s): Florian Selt, Juliane Hohloch, Thomas Hielscher, Felix Sahm, David Capper, Andrey Korshunov, Diren Usta, Sebastian Brabetz, Johannes Ridinger, Jonas Ecker, Ina Oehme, Jan Gronych, Viktoria Marquardt, David Pauck, Heidi Bächli, Charles D. Stiles, Andreas von Deimling, Marc Remke, Martin U. Schuhmann, Stefan M. Pfister, Tilman Brummer, David Jones, Olaf Witt, Till Milde
Software Mentions: 1
Published: over 9 years ago

10.3390/cells10081917

Familiarity Breeds Strategy: In Silico Untangling of the Molecular Complexity on Course of Autoimmune Liver Disease-to-Hepatocellular Carcinoma Transition Predicts Novel Transcriptional Signatures
Cited by: 2
Author(s): Soumyadeep Mukherjee, Arpita Kar, Najma Khatun, Puja Datta, Avik Biswas, Subhasis Barik
Software Mentions: 1
Published: about 5 years ago

10.1155/2021/4804694

Integrative Analysis of Differently Expressed Genes Reveals a 17-Gene Prognosis Signature for Endometrial Carcinoma
Cited by: 10
Author(s): Anna Wang, Hongyan Guo, Zaiqiu Long
Software Mentions: 1
Published: about 5 years ago

10.18632/oncotarget.14856

Integrative computational analysis of transcriptional and epigenetic alterations implicates <i>DTX1</i> as a putative tumor suppressor gene in HNSCC
Cited by: 15
Author(s): Daria A. Gaykalova, Veronika Žižková, Theresa Guo, Ilse Tiscareno, Yingying Wei, Rajita Vatapalli, Patrick Hennessey, Julie Ahn, Ludmila Danilova, Zubair Khan, Justin A. Bishop, J. Silvio Gutkind, Wayne M. Koch, William H. Westra, Elana J. Fertig, Michael F. Ochs, Joseph A. Califano
Software Mentions: 1
Published: over 9 years ago