10.1002/path.4212

Gene expression patterns unveil a new level of molecular heterogeneity in colorectal cancer
Cited by: 331
Author(s): Eva Budinska, Vlad Popovici, Sabine Tejpar, Dario Giorgini, Nicolas Lapique, Katarzyna Sikora, Antonio Fabio Di Narzo, Ping Yan, J. Graeme Hodgson, Scott L. Weinrich, Fred T. Bosman, Arnaud Roth, Mauro Delorenzi
Software Mentions: 2
Published: about 13 years ago

10.1093/bioinformatics/bty754

Understanding and predicting disease relationships through similarity fusion
Cited by: 14
Author(s): Erin Oerton, Ian N. Roberts, Patrick Lewis, Tim Guilliams
Software Mentions: 2
Published: about 8 years ago

10.1093/bioinformatics/btu029

Reference-free cell mixture adjustments in analysis of DNA methylation data
Cited by: 393
Author(s): E. Andrés Houseman, John Molitor, Carmen J. Marsit
Software Mentions: 2
Published: over 12 years ago

10.3390/ijms20235847

Cellular Processes Involved in Jurkat Cells Exposed to Nanosecond Pulsed Electric Field
Cited by: 8
Author(s): Huijuan Li, Shibin Liu, Xue Yang, Yongqian Du, Jiayi Luo, Jie Tan, Yu Sun
Software Mentions: 2
Published: almost 7 years ago

10.1002/path.4864

Derivation of marker gene signatures from human skin and their use in the interpretation of the transcriptional changes associated with dermatological disorders
Cited by: 22
Author(s): Barbara Shih, Ajit J. Nirmal, Denis J. Headon, Arne N. Akbar, Neil A. Mabbott, Tom C. Freeman
Software Mentions: 2
Published: over 9 years ago

10.3390/ijms21010350

Molecular Mechanisms of Bortezomib Action: Novel Evidence for the miRNA–mRNA Interaction Involvement
Cited by: 18
Author(s): Karolina Łuczkowska, Dorota Rogińska, Zofia Ulańczyk, Edyta Paczkowska, Christian A. Schmidt, Bogusław Machaliński
Software Mentions: 2
Published: over 6 years ago

10.1002/cjp2.195

Chromosome 2q gain and epigenetic silencing of <scp>GATA3</scp> in microglandular adenosis of the breast
Cited by: 3
Author(s): Martin Radner, Jana Lisa van Luttikhuizen, Stephan Bartels, Janin Bublitz, Isabel Grote, Luisa Rieger, Henriette Christgen, Helge Stark, Christopher Werlein, Marcel Lafos, Doris Steinemann, Ulrich Lehmann, Matthias Christgen, Hans Kreipe
Software Mentions: 2
Published: over 5 years ago

10.1093/bioinformatics/btw676

Network-based analysis of omics data: the LEAN method
Cited by: 17
Author(s): Frederik Gwinner, Gwénola Boulday, Claire Vandiedonck, Minh Arnould, Cécile Cardoso, Iryna Nikolayeva, Oriol Guitart-Pla, Cécile V. Denis, Christophe Olivier, Johann Beghain, Elisabeth Tournier‐Lasserve, Benno Schwikowski
Software Mentions: 2
Published: almost 10 years ago

10.1093/bioinformatics/btab290

‘Single-subject studies’-derived analyses unveil altered biomechanisms between very small cohorts: implications for rare diseases
Cited by: 2
Author(s): Dillon Aberasturi, Nima Pouladi, Samir Rachid Zaim, Colleen Kenost, Joanne Berghout, Walter W. Piegorsch, Yves A. Lussier
Software Mentions: 2
Published: about 5 years ago

10.1186/s13040-018-0163-y

A novel joint analysis framework improves identification of differentially expressed genes in cross disease transcriptomic analysis
Cited by: 6
Author(s): Wenyi Qin, Hui Liu
Software Mentions: 2
Published: over 8 years ago

10.3390/ijms21051865

Homoarginine- and Creatine-Dependent Gene Regulation in Murine Brains with l-Arginine:Glycine Amidinotransferase Deficiency
Cited by: 2
Author(s): Märit Jensen, Christian Müller, Edzard Schwedhelm, Priyadharshini Arunachalam, Mathias Gelderblom, Tim Magnus, Christian Gerloff, Tanja Zeller, Chi‐un Choe
Software Mentions: 2
Published: over 6 years ago

10.3390/ijms21051729

Tuberous Sclerosis Complex Axis Controls Renal Extracellular Vesicle Production and Protein Content
Cited by: 16
Author(s): Fahad Zadjali, Prashant Kumar, Ying Yao, Daniel L. Johnson, Aristotelis Astrinidis, Peter Vogel, Kenneth W. Gross, John J. Bissler
Software Mentions: 2
Published: over 6 years ago

10.1186/1756-0381-7-27

Combining functional genomics strategies identifies modular heterogeneity of breast cancer intrinsic subtypes
Cited by: 2
Author(s): Nima Pouladi, Richard Cowper-Sal·lari, Jason H. Moore
Software Mentions: 2
Published: almost 12 years ago

10.3390/ijms21072420

DNA Methylation Profiles in a Group of Workers Occupationally Exposed to Nanoparticles
Cited by: 23
Author(s): Andrea Rössnerová, K. Hoňková, Daniela Pelclová, Vladimı́r Ždı́mal, Jaroslav A. Hubacek, Irena Chvojková, Kristýna Vrbová, Pavel Rössner, Jan Topinka, Štěpánka Vlčková, Zdeňka Fenclová, Lucie Lischková, Pavlína Klusáčková, Jaroslav Schwarz, Jakub Ondráček, Lucie Ondráčková, Martin Koštejn, Jǐŕı Kléma, Štěpánka Dvořáčková
Software Mentions: 2
Published: over 6 years ago

10.3390/ijms21072619

The Significance of MicroRNAs Expression in Regulation of Extracellular Matrix and Other Drug Resistant Genes in Drug Resistant Ovarian Cancer Cell Lines
Cited by: 20
Author(s): Dominika Kaźmierczak, Karol Jopek, Karolina Sterzyńska, Barbara Ginter-Matuszewska, Michał Nowicki, Marcin Ruciński, Radosław Januchowski
Software Mentions: 2
Published: over 6 years ago

10.3390/ijms21072573

Sublethal Radiation Affects Antigen Processing and Presentation Genes to Enhance Immunogenicity of Cancer Cells
Cited by: 8
Author(s): Achamaporn Punnanitinont, Eric Kannisto, Junko Matsuzaki, Kunle Odunsi, Sai Yendamuri, Anurag Singh, Santosh K. Patnaik
Software Mentions: 2
Published: over 6 years ago

10.3390/ijms21114059

Long Non-Coding RNA HAND2-AS1 Acts as a Tumor Suppressor in High-Grade Serous Ovarian Carcinoma
Cited by: 16
Author(s): Priyanka Gokulnath, Tiziana de Cristofaro, Ichcha Manipur, Tina Di Palma, Amata Amy Soriano, Mario Rosario Guarracino, Mariastella Zannini
Software Mentions: 2
Published: over 6 years ago

10.1136/bmjpo-2017-000092

Peripheral blood RNA gene expression in children with pneumococcal meningitis: a prospective case–control study
Cited by: 18
Author(s): Benard W. Kulohoma, Fiona Marriage, Olga Vasieva, Limangeni Mankhambo, Kha Minh Nguyen, Malcolm E. Molyneux, Elizabeth Molyneux, Philip J. Day, Enitan D. Carrol
Software Mentions: 2
Published: about 9 years ago

10.1136/bmjdrc-2020-001441

Metabolic recovery after weight loss surgery is reflected in serum microRNAs
Cited by: 15
Author(s): Susana Sangiao‐Alvarellos, Konstantinos Theofilatos, Temo Barwari, Clemens Gutmann, Kaloyan Takov, Bhawana Singh, Paula Juiz-Valiña, Bárbara María Varela-Rodriguez, Elena Outeiriño-Blanco, Elisa Duregotti, Anna Zampetaki, Lukas Lunger, Christoph Ebenbichler, Herbert Tilg, María Jesús García-Brao, Peter Willeit, Enrique Mena, Stefan Kiechl, Fernando Cordido, Manuel Mayr
Software Mentions: 2
Published: almost 6 years ago

10.3390/ijms21165745

Integrated Framework of the Immune-Defense Transcriptional Signatures in the Arabidopsis Shoot Apical Meristem
Cited by: 0
Author(s): Muhammad Naseem, Özge Osmanoğlu, Martin Kaltdorf, Afnan Ali M A Alblooshi, Jibran Iqbal, Fares M. Howari, Mugdha Srivastava, Thomas Dandekar
Software Mentions: 2
Published: about 6 years ago

10.3390/ijms21165762

Decreased Expression of ZNF554 in Gliomas is Associated with the Activation of Tumor Pathways and Shorter Patient Survival
Cited by: 5
Author(s): Andrea Balogh, Lilla Reiniger, Szabolcs Hetey, Péter Király, Eszter Tóth, Katalin Karászi, Kata Juhász, Zsolt Gelencser, Ágnes Zvara, András Szilágyi, László G. Puskás, János Matkó, Z. Papp, Ilona Kovalszky, Csaba Juhász, Nándor Gábor Than
Software Mentions: 2
Published: about 6 years ago

10.1186/1471-2164-10-314

In silico identification of a core regulatory network of OCT4 in human embryonic stem cells using an integrated approach
Cited by: 42
Author(s): Lukas Chávez, Abha Bais, Martin Vingron, Hans Lehrach, James Adjaye, Ralf Herwig
Software Mentions: 2
Published: over 17 years ago

10.3390/ijms21197199

Transcriptional and Metabolic Profiling of Potato Plants Expressing a Plastid-Targeted Electron Shuttle Reveal Modulation of Genes Associated to Drought Tolerance by Chloroplast Redox Poise
Cited by: 11
Author(s): Juan José Pierella Karlusich, Rocío C. Arce, Fahimeh Shahinnia, Sophia Sonnewald, Uwe Sonnewald, Matías D. Zurbriggen, Mohammad‐Reza Hajirezaei, Néstor Carrillo
Software Mentions: 2
Published: almost 6 years ago

10.1186/1471-2164-11-388

Expression of a retinoic acid signature in circulating CD34 cells from coronary artery disease patients
Cited by: 8
Author(s): Tineke C. T. M. van der Pouw Kraan, Stephan H. Schirmer, Joost O. Fledderus, Perry D. Moerland, Josefien M. Baggen, Thomas A. Leyen, A.M. van der Laan, Jan J. Piek, Niels van Royen, Anton J.G. Horrevoets
Software Mentions: 2
Published: over 16 years ago

10.3390/ijms21197065

Identification of Acute Myeloid Leukemia Bone Marrow Circulating MicroRNAs
Cited by: 11
Author(s): Douâa Moussa Agha, Rédouane Rouas, Mehdi Najar, Fatima Bouhtit, Najib Naamane, Hussein Fayyad‐Kazan, Dominique Bron, Nathalie Meuleman, Philippe Lewalle, Makram Merimi
Software Mentions: 2
Published: almost 6 years ago

10.3390/ijms21207585

Integrative Analysis of Regulatory Module Reveals Associations of Microgravity with Dysfunctions of Multi-body Systems and Tumorigenesis
Cited by: 5
Author(s): Mengqin Yuan, Haizhou Liu, Shunheng Zhou, Zhou Xu, Yue Huang, Fei Hou, Wei Jiang
Software Mentions: 2
Published: almost 6 years ago

10.3390/ijms21217858

Meta-Analysis of Transcriptome Data Detected New Potential Players in Response to Dioxin Exposure in Humans
Cited by: 3
Author(s): Е. А. Ощепкова, Yana Sizentsova, Daniil S. Wiebe, В. В. Миронова, Nikolay А. Kolchanov
Software Mentions: 2
Published: almost 6 years ago

10.3390/ijms21239029

An Automated Functional Annotation Pipeline That Rapidly Prioritizes Clinically Relevant Genes for Autism Spectrum Disorder
Cited by: 1
Author(s): Olivia J. Veatch, Merlin G. Butler, Sarah H. Elsea, Beth A. Malow, James S. Sutcliffe, Jason H. Moore
Software Mentions: 2
Published: almost 6 years ago

10.3390/ijms21249706

Distinct Preflowering Drought Tolerance Strategies of Sorghum bicolor Genotype RTx430 Revealed by Subcellular Protein Profiling
Cited by: 9
Author(s): Aaron J. Ogden, Shadan Abdali, Kristin Engbrecht, Mowei Zhou, Pubudu Handakumbura
Software Mentions: 2
Published: over 5 years ago

10.1038/s42003-021-02279-8

Deletion of the diabetes candidate gene Slc16a13 in mice attenuates diet-induced ectopic lipid accumulation and insulin resistance
Cited by: 6
Author(s): Tina Schumann, Jörg König, Christian von Loeffelholz, Daniel F. Vatner, Rachel J. Perry, Michel Bernier, Jason Chami, Christine Henke, Anica Kurzbach, Nermeen N. El-Agroudy, Diana M. Willmes, Dominik Pesta, Rafael de Cabo, John Sullivan, Eric J. Simon, Gerald I. Shulman, Bradford S. Hamilton, Andreas L. Birkenfeld
Software Mentions: 2
Published: about 5 years ago

10.1038/s42003-020-01274-9

The genetic framework of shoot regeneration in Arabidopsis comprises master regulators and conditional fine-tuning factors
Cited by: 28
Author(s): Robin Lardon, Erik Wijnker, Joost J. B. Keurentjes, Danny Geelen
Software Mentions: 2
Published: almost 6 years ago

10.1038/s42003-020-0795-6

An isothermal shift assay for proteome scale drug-target identification
Cited by: 38
Author(s): Kerri A. Ball, Kristofor Webb, S. J. Coleman, Kira A. Cozzolino, Jeremy Jacobsen, Kevin R. Jones, Michael H. B. Stowell, William M. Old
Software Mentions: 2
Published: over 6 years ago

10.1155/2020/4737969

RNA-Seq-Based Breast Cancer Subtypes Classification Using Machine Learning Approaches
Cited by: 12
Author(s): Zhezhou Yu, Zhuo Wang, Xiangchun Yu, Zhe Zhang
Software Mentions: 2
Published: almost 6 years ago

10.3390/ijms22020517

Identifying the miRNA Signature Association with Aging-Related Senescence in Glioblastoma
Cited by: 4
Author(s): Mutharasu Gnanavel, Akshaya Murugesan, Saravanan Konda Mani, Olli Yli‐Harja, Meenakshisundaram Kandhavelu
Software Mentions: 2
Published: over 5 years ago

10.1186/1471-2164-8-370

The functional genome of CA1 and CA3 neurons under native conditions and in response to ischemia
Cited by: 41
Author(s): Dieter Newrzella, Payam S. Pahlavan, Carola Krüger, C.L. Boehm, Oliver Sorgenfrei, Helmut Schröck, Gisela Eisenhardt, Nadine Bischoff, Gerhard Vogt, Oliver Wafzig, Moritz J. Rossner, Martin H. Maurer, Holger Hiemisch, A. Bach, Wolfgang Kuschinsky, Armin Schneider
Software Mentions: 2
Published: almost 19 years ago

10.1002/ctm2.520

Blood small extracellular vesicles derived miRNAs to differentiate pancreatic ductal adenocarcinoma from chronic pancreatitis
Cited by: 7
Author(s): Shiwei Guo, Hao Qin, Ke Liu, Huan Wang, Songling Bai, Shiyi Liu, Zhuo Shao, Yanan Zhang, Bin Song, Xiang Xu, Jing Shen, Peng Zeng, Xiaohan Shi, Hao Chen, Suizhi Gao, Jiajia Xu, Yaqi Pan, Lei Xiong, Fugen Li, Dadong Zhang, Xiao‐Dong Jiao, Gang Jin
Software Mentions: 2
Published: about 5 years ago

10.1002/ctm2.479

Long noncoding RNA IL6‐AS1 is highly expressed in chronic obstructive pulmonary disease and is associated with interleukin 6 by targeting miR‐149‐5p and early B‐cell factor 1
Cited by: 19
Author(s): Erkang Yi, Jiahuan Zhang, Mengning Zheng, Yi Zhang, Chunxiao Liang, Bin Hao, Hong Wang, Biting Lin, Jinding Pu, Zhiwei Lin, Peiyu Huang, Bing Li, Yumin Zhou, Pixin Ran
Software Mentions: 2
Published: about 5 years ago

10.3390/ijms22020801

DNA Methylation Levels in Mononuclear Leukocytes from the Mother and Her Child Are Associated with IgE Sensitization to Allergens in Early Life
Cited by: 17
Author(s): Nathalie Acevedo, Giovanni Scala, Simon Kebede Merid, Paolo Frumento, Sören Bruhn, Ann‐Catrin Andersson, Christoph Ogris, Matteo Bottai, Göran Pershagen, Gerard H. Koppelman, Erik Melén, Erik L. L. Sonnhammer, Johan Alm, Cilla Söderhäll, Juha Kere, Dario Greco, Annika Scheynius
Software Mentions: 2
Published: over 5 years ago

10.1002/cti2.1131

Comparison of two human organoid models of lung and intestinal inflammation reveals Toll‐like receptor signalling activation and monocyte recruitment
Cited by: 24
Author(s): Shyam Sushama Jose, Marco De Zuani, Federico Tidu, Marcela Hortová-Kohoutková, Lucia Pazzagli, Giancarlo Forte, Roberta Spaccapelo, Teresa Zelante, Jan Frič
Software Mentions: 2
Published: over 6 years ago

10.1016/j.csbj.2018.06.002

In Silico Prediction of Large-Scale Microbial Production Performance: Constraints for Getting Proper Data-Driven Models
Cited by: 13
Author(s): Julia Zieringer, Ralf Takors
Software Mentions: 2
Published: over 8 years ago

10.1186/s13054-019-2401-1

PO2 oscillations induce lung injury and inflammation
Cited by: 6
Author(s): Stefan Boehme, Erik K. Hartmann, Thomas Tripp, Serge C. Thal, Matthias David, Dietmar Abraham, James E. Baumgardner, Klaus Markstaller, Klaus Ulrich Klein
Software Mentions: 2
Published: over 7 years ago

10.3390/ijms22031033

Unravelling the Complex Interplay of Transcription Factors Orchestrating Seed Oil Content in Brassica napus L.
Cited by: 8
Author(s): Abirami Rajavel, Selina Klees, Johanna-Sophie Schlüter, Hendrik Bertram, Kun Lu, Armin O. Schmitt, Mehmet Gültaş
Software Mentions: 2
Published: over 5 years ago

10.1016/j.dib.2020.106064

Tandem mass tagged dataset used to characterize muscle-specific proteome changes in beef during early postmortem period
Cited by: 2
Author(s): Chaoyu Zhai, B. A. Djimsa, Kitty Brown, Jessica E. Prenni, D. R. Woerner, K. E. Belk, Mahesh N. Nair
Software Mentions: 2
Published: almost 6 years ago

10.1016/j.dib.2015.08.024

Gene regulation by long purine tracks in brain related diseases
Cited by: 3
Author(s): Himanshu Narayan Singh, Moganty R. Rajeswari
Software Mentions: 2
Published: almost 11 years ago

10.1016/j.dib.2020.106570

RNA sequencing data from osteochondroprogenitor populations in synovial joints of mice during murine model of rheumatoid arthritis
Cited by: 2
Author(s): Nina Batorek-Lukač, Vedran Katavić, Alan Šućur, Maša Filipović, Danka Grčević, Nataša Kovačić
Software Mentions: 2
Published: almost 6 years ago

10.1016/j.dib.2016.10.026

Data on quantification of signaling pathways activated by KIT and PDGFRA mutants
Cited by: 2
Author(s): Christelle Bahlawane, Martine Schmitz, Elisabeth Letellier, Karthik Arumugam, Nathalie Nicot, Petr V. Nazarov, Serge Haan
Software Mentions: 2
Published: almost 10 years ago

10.1186/s13148-015-0064-6

Age-associated DNA methylation changes in immune genes, histone modifiers and chromatin remodeling factors within 5 years after birth in human blood leukocytes
Cited by: 66
Author(s): Nathalie Acevedo, Lovisa E. Reinius, Morana Vitezic, Vittorio Fortino, Cilla Söderhäll, Hanna Honkanen, Riitta Veijola, Olli Simell, Jorma Toppari, Jorma Ilonen, Mikael Knip, Annika Scheynius, Heikki Hyöty, Dario Greco, Juha Kere
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pone.0091077

Pathway Based Analysis of Genes and Interactions Influencing Porcine Testis Samples from Boars with Divergent Androstenone Content in Back Fat
Cited by: 10
Author(s): Sudeep Sahadevan, Asep Gunawan, Ernst Tholen, Christine Große‐Brinkhaus, Dawit Tesfaye, K. Schellander, Martin Hofmann‐Apitius, Mehmet Ulaş Çınar, Muhammad Jasim Uddin
Software Mentions: 2
Published: over 12 years ago

10.1016/j.devcel.2018.08.011

Stem Cell Intrinsic Hexosamine Metabolism Regulates Intestinal Adaptation to Nutrient Content
Cited by: 32
Author(s): Jaakko Mattila, Krista Kokki, Ville Hietakangas, Michael Boutros
Software Mentions: 2
Published: almost 8 years ago

10.1016/j.devcel.2019.05.032

Id1 Stabilizes Epiblast Identity by Sensing Delays in Nodal Activation and Adjusting the Timing of Differentiation
Cited by: 11
Author(s): Mattias Malaguti, Rosa Portero Migueles, Guillaume Blin, Chia–Yi Lin, Sally Lowell
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pone.0030308

Post-Therapeutic Relapse of Psoriasis after CD11a Blockade Is Associated with T Cells and Inflammatory Myeloid DCs
Cited by: 30
Author(s): Leanne M. Johnson-Huang, Cara A. Pensabene, Kejal R. Shah, Katherine C. Pierson, Toyoko Kikuchi, Tim Lentini, Patricia Gilleaudeau, Mary Sullivan‐Whalen, Inna Cueto, Artemis Khatcherian, Luke A. Hyder, Mayte Suárez‐Fariñas, James G. Krueger, Michelle A. Lowes
Software Mentions: 2
Published: over 14 years ago

10.1242/dev.163808

Regulation and function of H3K36 di-methylation by the trithorax-group protein complex AMC
Cited by: 34
Author(s): Sigrun Schmähling, Arno Meiler, Yoonjung Lee, Arif Mohammed, Katja Finkl, Katharina Tauscher, Lars Israel, Marc Wirth, Julia Philippou‐Massier, Helmut Blum, Bianca Habermann, Axel Imhof, Ji-Joon Song, Jürg Müller
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0071691

Differential DNA Methylation Regions in Cytokine and Transcription Factor Genomic Loci Associate with Childhood Physical Aggression
Cited by: 61
Author(s): Nadine Provençal, Matthew Suderman, Doretta Caramaschi, Dongsha Wang, Michael Hallett, Frank Vitaro, Richard E. Tremblay, Moshe Szyf
Software Mentions: 2
Published: about 13 years ago

10.1186/1471-2164-15-154

Improving reliability and absolute quantification of human brain microarray data by filtering and scaling probes using RNA-Seq
Cited by: 45
Author(s): Jeremy A. Miller, Vilas Menon, Jeff Goldy, Ajamete Kaykas, Chang Kyu Lee, Kimberly A. Smith, Elaine Shen, John W. Phillips, Ed Lein, Mike Hawrylycz
Software Mentions: 2
Published: over 12 years ago

10.1007/s00125-018-4699-7

Human fetoplacental arterial and venous endothelial cells are differentially programmed by gestational diabetes mellitus, resulting in cell-specific barrier function changes
Cited by: 31
Author(s): Silvija Cvitic, Boris Novakovic, Lavinia Gordon, Christine M Ulz, Magdalena Mühlberger, Francisca Díaz-Pérez, Jihoon E. Joo, Vendula Švendová, Michael G. Schimek, Slave Trajanoski, Richard Saffery, Gernot Desoyé, Ursula Hiden
Software Mentions: 2
Published: about 8 years ago

10.1007/s00125-017-4497-7

DNA methylation markers associated with type 2 diabetes, fasting glucose and HbA1c levels: a systematic review and replication in a case–control sample of the Lifelines study
Cited by: 99
Author(s): Eliza Walaszczyk, Mirjam Luijten, Annemieke M.W. Spijkerman, Marc Jan Bonder, Helen L. Lutgers, Harold Snieder, Bruce H. R. Wolffenbuttel, Jana V. van Vliet-Ostaptchouk
Software Mentions: 2
Published: almost 9 years ago

10.1007/s00125-021-05558-5

Sitting less elicits metabolic responses similar to exercise and enhances insulin sensitivity in postmenopausal women
Cited by: 8
Author(s): Carlijn M. E. Remie, Georges E. Janssens, Lena Bilet, Michel van Weeghel, Bernard M. F. M. Duvivier, Vera H. W. de Wit, Niels J. Connell, Johanna A. Jörgensen, Bauke V. Schomakers, Vera B. Schrauwen‐Hinderling, Joris Hoeks, Matthijs K. C. Hesselink, Esther Phielix, Riekelt H. Houtkooper, Patrick Schrauwen
Software Mentions: 2
Published: about 5 years ago

10.3390/ijms22031423

Diabetes Induces a Transcriptional Signature in Bone Marrow–Derived CD34+ Hematopoietic Stem Cells Predictive of Their Progeny Dysfunction
Cited by: 4
Author(s): Yuri D’Alessandra, Mattia Chiesa, Vera Vigorelli, Veronica Ricci, Erica Rurali, Angela Raucci, Gualtiero I. Colombo, Giulio Pompilio, Maria Vinci
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0244394

Identification of biomarkers and construction of a microRNA‑mRNA regulatory network for clear cell renal cell carcinoma using integrated bioinformatics analysis
Cited by: 7
Author(s): Miaoru Han, Haifeng Yan, Kang Yang, Boya Fan, Panying Liu, Hongtao Yang
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0142081

A Randomized, Placebo-Controlled Study of SRT2104, a SIRT1 Activator, in Patients with Moderate to Severe Psoriasis
Cited by: 62
Author(s): James G. Krueger, Mayte Suárez‐Fariñas, Inna Cueto, Artemis Khacherian, Robert Matheson, Lawrence Charles Parish, Craig L. Leonardi, Denise Shortino, Akanksha Gupta, Jonathan Haddad, George P. Vlasuk, Eric Jacobson
Software Mentions: 2
Published: almost 11 years ago

10.1155/2020/8847986

eRNAs and Superenhancer lncRNAs Are Functional in Human Prostate Cancer
Cited by: 11
Author(s): Xiaona Zhang, Panpan Pang, Min Jiang, Qunfa Cao, Huili Li, Yi Xu, Yao Li, Xue Chen, Jianyong Han
Software Mentions: 2
Published: almost 6 years ago

10.1155/2020/8852388

Identification of Key Genes of Prognostic Value in Clear Cell Renal Cell Carcinoma Microenvironment and a Risk Score Prognostic Model
Cited by: 1
Author(s): Enfa Zhao, Xiaofang Bai
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0101384

Genetic Dynamic Analysis of the Influenza A H5N1 NS1 Gene in China
Cited by: 8
Author(s): Kaifa Wei, Yanhui Chen, Yi Lin, Yutian Pan
Software Mentions: 2
Published: about 12 years ago

10.1186/1471-2164-15-327

Transcriptome profiling of liver of non-genetic low birth weight and long term health consequences
Cited by: 4
Author(s): Alberto Miranda, Angela Patricia López‐Cardona, Ricardo Laguna‐Barraza, Alexandra Calle, Irene López‐Vidriero, Belén Pintado, Alfonso Gutiérrez‐Adán
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0033844

miR-34a Repression in Proneural Malignant Gliomas Upregulates Expression of Its Target PDGFRA and Promotes Tumorigenesis
Cited by: 107
Author(s): Joachim Silber, Anders Jacobsen, Tatsuya Ozawa, Girish Harinath, Alicia Pedraza, Chris Sander, Eric C. Holland, Jason T. Huse
Software Mentions: 2
Published: over 14 years ago

10.3390/ijms22042134

Expression and Prognostic Characteristics of m6A RNA Methylation Regulators in Colon Cancer
Cited by: 7
Author(s): Liting Huang, Jie Zhu, Weikaixin Kong, Peifeng Li, Sujie Zhu
Software Mentions: 2
Published: over 5 years ago

10.1155/2021/8863799

A Risk Score Model Based on Nine Differentially Methylated mRNAs for Predicting Prognosis of Patients with Clear Cell Renal Cell Carcinoma
Cited by: 2
Author(s): Jingmin Zhou, Guanghua Liu, Xingcheng Wu, Zhien Zhou, Jialin Li, Zhigang Ji
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0106289

Antiproliferative Effects and Mechanisms of Liver X Receptor Ligands in Pancreatic Ductal Adenocarcinoma Cells
Cited by: 43
Author(s): Nicholes R. Candelaria, Sridevi Addanki, Jine Zheng, Trang Nguyen-Vu, Husna Karaboga, Prasenjit Dey, Chiara Gabbi, Lise Lotte Vedin, Liu Ka, Weiqiang Wu, Philip Jonsson, Jean Z. Lin, Fei Su, Lakshmi Reddy Bollu, Sally E. Hodges, Amy L. McElhany, Mehdi A. Issazadeh, William E. Fisher, Michael Ittmann, Knut R. Steffensen, Jan Åke Gustafsson, Chin Yo Lin
Software Mentions: 2
Published: about 12 years ago

10.1155/2020/2782101

MicroRNA-7 as a Potential Biomarker for Prognosis in Pancreatic Cancer
Cited by: 18
Author(s): Zhiqiang Ye, Changlin Zou, Hanbin Chen, Mier Jiang, Mingqing Zhu, Di Gu
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0203468

Particulate metal exposures induce plasma metabolome changes in a commuter panel study
Cited by: 34
Author(s): Chandresh N Ladva, Rachel Golan, Donghai Liang, Roby Greenwald, Douglas I. Walker, Karan Uppal, Amit U. Raysoni, ViLinh Tran, Tianwei Yu, W. Dana Flanders, Gary W. Miller, Dean P. Jones, Jeremy A. Sarnat
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pone.0181468

The prediction of late-onset preeclampsia: Results from a longitudinal proteomics study
Cited by: 72
Author(s): Offer Erez, Roberto Romero, Eli Maymon, Piya Chaemsaithong, Bogdan Done, Percy Pacora, Bogdan Panaitescu, Tinnakorn Chaiworapongsa, Sonia S. Hassan, Adi L. Tarca
Software Mentions: 2
Published: about 9 years ago

10.1371/journal.pone.0007445

Tumor Suppressor Function of Syk in Human MCF10A In Vitro and Normal Mouse Mammary Epithelium In Vivo
Cited by: 47
Author(s): You Me Sung, Xuehua Xu, Junfeng Sun, Duane Mueller, Kinza Sentissi, Peter Johnson, Elana Urbach, Françoise Seillier-Moiseiwitsch, Michael D. Johnson, Susette C. Mueller
Software Mentions: 2
Published: almost 17 years ago

10.1371/journal.pone.0074469

A New Approach for the Study of Lung Smooth Muscle Phenotypes and Its Application in a Murine Model of Allergic Airway Inflammation
Cited by: 22
Author(s): Jesus Paez-Cortez, Ramaswamy Krishnan, Anneliese Arno, Linh Aven, Sumati Ram-Mohan, Kruti Patel, Jining Lü, Oliver D. King, Xingbin Ai, Alan Fine
Software Mentions: 2
Published: about 13 years ago

10.3389/fcell.2021.631057

Identification of New miRNA-mRNA Networks in the Development of Non-syndromic Cleft Lip With or Without Cleft Palate
Cited by: 9
Author(s): Chengyi Fu, Shu Lou, Guirong Zhu, Liwen Fan, Xin Yu, Weihao Zhu, Lan Ma, Lin Wang, Yongchu Pan
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0125385

Comparative Transcriptomics of Sijung and Jumli Marshi Rice during Early Chilling Stress Imply Multiple Protective Mechanisms
Cited by: 14
Author(s): Angelica Lindlöf, Aakash Chawade, Per Sikora, Olof Olsson
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pone.0042573

CDA: Combinatorial Drug Discovery Using Transcriptional Response Modules
Cited by: 58
Author(s): Ji Hyun Lee, Dae Gyu Kim, Taejeong Bae, Kyoohyoung Rho, Ji Tae Kim, Jong Jun Lee, Yeongjun Jang, Byung Cheol Kim, Kyoung Mii Park, Sung Hoon Kim
Software Mentions: 2
Published: about 14 years ago

10.1371/journal.pone.0005242

Short-Term Calorie Restriction in Male Mice Feminizes Gene Expression and Alters Key Regulators of Conserved Aging Regulatory Pathways
Cited by: 82
Author(s): Preston W. Estep, Jason Warner, Martha L. Bulyk
Software Mentions: 2
Published: over 17 years ago

10.1371/journal.pone.0024973

A Comparison of Methods for Classifying Clinical Samples Based on Proteomics Data: A Case Study for Statistical and Machine Learning Approaches
Cited by: 29
Author(s): Dayle Sampson, Tony J. Parker, Zee Upton, Cameron Hurst
Software Mentions: 2
Published: almost 15 years ago

10.1371/journal.pone.0040521

Molecular Resistance Fingerprint of Pemetrexed and Platinum in a Long-Term Survivor of Mesothelioma
Cited by: 33
Author(s): Oluf Dimitri Røe, Adam Szulkin, Endre Anderssen, Arnar Flatberg, Helmut Sandeck, Tore Amundsen, Sten Even Erlandsen, Katalin Dobra, Stein Sundstrøm
Software Mentions: 2
Published: about 14 years ago

10.1371/journal.pone.0081702

Mycophenolic Acid Inhibits Migration and Invasion of Gastric Cancer Cells via Multiple Molecular Pathways
Cited by: 36
Author(s): Boying Dun, Ashok Sharma, Yong Teng, Haitao Liu, Sharad Purohit, Heng Xu, Lingwen Zeng, Jin Xiong She
Software Mentions: 2
Published: almost 13 years ago

10.3389/fcell.2021.615761

Genome-Wide Analysis of Differentially Expressed miRNAs and Their Associated Regulatory Networks in Lenses Deficient for the Congenital Cataract-Linked Tudor Domain Containing Protein TDRD7
Cited by: 10
Author(s): Deepti Anand, Salma Al Saai, Sanjaya Shrestha, Carrie E. Barnum, Shinichiro Chuma, Salil A. Lachke
Software Mentions: 2
Published: over 5 years ago

10.3389/fcell.2021.708819

Combined DNA Methylation and Transcriptomic Assessments to Determine a Prognostic Model for PD-1-Negative Hepatocellular Carcinoma
Cited by: 4
Author(s): Lixu Zhu, Wenzhi Guo
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0083359

Peg3 Mutational Effects on Reproduction and Placenta-Specific Gene Families
Cited by: 64
Author(s): Joomyeong Kim, Wesley D. Frey, Hui He, Hana Kim, Muhammad B. Ekram, Arundhati Bakshi, Mohammad Faisal, Bambarendage P. U. Perera, An Ye, Ryoichi Teruyama
Software Mentions: 2
Published: over 12 years ago

10.3390/ijms22073531

Differential Response of Grapevine to Infection with ‘Candidatus Phytoplasma solani’ in Early and Late Growing Season through Complex Regulation of mRNA and Small RNA Transcriptomes
Cited by: 10
Author(s): Marina Dermastia, Blaž Škrlj, Rebeka Strah, Barbara Anžič, Špela Tomaž, Maja Križnik, Christina Schönhuber, Monika Riedle‐Bauer, Živa Ramšak, Marko Petek, Aleš Kladnik, Nada Lavrač, Kristina Gruden, Thomas Roitsch, Günter Brader, Maruša Pompe-Novak
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0198079

Forced differentiation in vitro leads to stress-induced activation of DNA damage response in hiPSC-derived chondrocyte-like cells
Cited by: 6
Author(s): Ewelina Stelcer, Katarzyna Kulcenty, Marcin Ruciński, Karol Jopek, Magdalena Richter, Tomasz Trzeciak, Wiktoria Maria Suchorska
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0053243

Increased Learning and Brain Long-Term Potentiation in Aged Mice Lacking DNA Polymerase μ
Cited by: 16
Author(s): Daniel Lucas, José M. Delgado‐García, Beatriz Escudero, Carmen Albó, Ana Aza, Rebeca Acín‐Pérez, Yaima Torres, Paz Moreno, José Antonio Enríquez, Enrique Samper, Luis Blanco, Alfonso Fairén, António Bernad, Agnès Gruart
Software Mentions: 2
Published: over 13 years ago

10.1371/journal.pone.0200776

Characterization of hepatocellular adenoma and carcinoma using microRNA profiling and targeted gene sequencing
Cited by: 29
Author(s): Jianbao Zheng, Eran Sadot, Joana A. Vigidal, David S. Klimstra, Vinod P. Balachandran, T. Peter Kingham, Peter J. Allen, Michael I. D’Angelica, Ronald P. DeMatteo, William R. Jarnagin, Andrea Ventura
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.pone.0025901

Comparison of Gene Expression and Genome-Wide DNA Methylation Profiling between Phenotypically Normal Cloned Pigs and Conventionally Bred Controls
Cited by: 20
Author(s): Fei Gao, Yonglun Luo, Shengting Li, Jian Li, Lin Lin, Anders Lade Nielsen, Charlotte Brandt Sørensen, Gábor Vajta, Jun Wang, Xiuqing Zhang, Yutao Du, Huanming Yang, Lars Bolund
Software Mentions: 2
Published: almost 15 years ago

10.3389/fcell.2020.630492

Human Bile Contains Cholangiocyte Organoid-Initiating Cells Which Expand as Functional Cholangiocytes in Non-canonical Wnt Stimulating Conditions
Cited by: 9
Author(s): Floris J.M. Roos, Monique M A Verstegen, Laura Muñoz Albarinos, Henk P. Roest, Jan‐Werner Poley, G. W. M. Tetteroo, Jan N.M. IJzermans, Luc J. W. van der Laan
Software Mentions: 2
Published: over 5 years ago

10.3389/fcell.2021.691540

Multi-Omics Integrative Bioinformatics Analyses Reveal Long Non-coding RNA Modulates Genomic Integrity via Competing Endogenous RNA Mechanism and Serves as Novel Biomarkers for Overall Survival in Lung Adenocarcinoma
Cited by: 4
Author(s): Zhong Lin Wang, Ziyuan Ren, Rui Li, Junpeng Ge, Guoming Zhang, Yaodong Xin, Yi-Qing Qu
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0206689

The biological functions of target genes in pan-cancers and cell lines were predicted by miR-375 microarray data from GEO database and bioinformatics
Cited by: 4
Author(s): Jiang‐Hui Zeng, Xuzhi Liang, Huihua Lan, Xu Zhu, Xiu-Yun Liang
Software Mentions: 2
Published: almost 8 years ago

10.3389/fcell.2021.663207

CircGLIS3 Promotes High-Grade Glioma Invasion via Modulating Ezrin Phosphorylation
Cited by: 16
Author(s): Yan Li, Jiansheng Chen, Zetao Chen, Xiangdong Xu, Jun Weng, Yuxuan Zhang, Yunzhao Mo, Yang Liu, Jihui Wang, Yiquan Ke
Software Mentions: 2
Published: about 5 years ago

10.3389/fcell.2021.636291

Genome-Wide Differentially Methylated Region Analysis to Reveal Epigenetic Differences of Articular Cartilage in Kashin–Beck Disease and Osteoarthritis
Cited by: 7
Author(s): Yue Fan, Dehua Gao, Yingang Zhang, Jiaqiang Zhu, Feng Zhang, Lu Wang, Yan Wen, Xiong Guo, Shuang Sun
Software Mentions: 2
Published: over 5 years ago

10.1186/1471-2164-13-323

Brain transcriptome variation among behaviorally distinct strains of zebrafish (Danio rerio)
Cited by: 50
Author(s): Robert E. Drew, Matthew L. Settles, Erin Churchill, Shayna M Williams, Soniya Balli, Barrie D. Robison
Software Mentions: 2
Published: about 14 years ago

10.1371/journal.pone.0177664

Characterization of basal and lipopolysaccharide-induced microRNA expression in equine peripheral blood mononuclear cells using Next-Generation Sequencing
Cited by: 6
Author(s): Nick Parkinson, Virginia Buechner-Maxwell, Sharon G. Witonsky, R. Scott Pleasant, Stephen R. Werre, S. Ansar Ahmed
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0203441

An integration of phenotypic and transcriptomic data analysis reveals yield-related hub genes in Jatropha curcas inflorescence
Cited by: 4
Author(s): Nisha Govender, Siju Senan, Edison Eukun Sage, Zeti‐Azura Mohamed‐Hussein, Mukram Mohamed Mackeen, R. Wickneswari
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pone.0232411

Identification of miRNA signatures associated with radiation-induced late lung injury in mice
Cited by: 27
Author(s): Claude J. Rogers, Agnès Lukaszewicz, Jason Yamada-Hanff, Ewa D. Micewicz, Josephine A. Ratikan, Mark A. Starbird, Tim Miller, Kieu Cao Diem Nguyen, Jason T. Lee, Tove Olafsen, Keisuke S. Iwamoto, William H. McBride, Dörthe Schaue, Naresh Menon
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0256141

Genomics-guided identification of potential modulators of SARS-CoV-2 entry proteases, TMPRSS2 and Cathepsins B/L
Cited by: 12
Author(s): Kartikay Prasad, Suliman Yousef Alomar, Eman Abdullah Almuqri, Hassan Ahmed Rudayni, Vijay Kumar
Software Mentions: 2
Published: about 5 years ago

10.3389/fcell.2021.727762

Ferroptosis Driver SOCS1 and Suppressor FTH1 Independently Correlate With M1 and M2 Macrophage Infiltration in Head and Neck Squamous Cell Carcinoma
Cited by: 20
Author(s): Zhangwei Hu, Yihui Wen, Rong Ma, Lin Chen, Xue‐Lan Zeng, Wang Wen, Wei Sun
Software Mentions: 2
Published: about 5 years ago

10.3389/fcell.2020.576604

Fgf10 Signaling-Based Evidence for the Existence of an Embryonic Stage Distinct From the Pseudoglandular Stage During Mouse Lung Development
Cited by: 7
Author(s): Sara Taghizadeh, Matthew R. Jones, Ruth Olmer, Saskia Ulrich, Soula Danopoulos, Chengguo Shen, Chaolei Chen, Jochen Wilhelm, Ulrich Martin, Chengshui Chen, Denise Al Alam, Savério Bellusci
Software Mentions: 2
Published: almost 6 years ago