bioconductor: ArrayExpress | Projects

10.1186/s13148-018-0542-8

Epigenetic regulation of ID4 in breast cancer: tumor suppressor or oncogene?
Cited by: 20
Author(s): Daniela Nasif, Emanuel Campoy, Sergio Laurito, Richard L. Branham, Guillermo Urrutia, María Roqué, Marı́a Teresita Branham
Software Mentions: 1
Published: about 6 years ago

10.1186/2041-1480-5-37

CLO: The cell line ontology
Cited by: 84
Author(s): Sirarat Sarntivijai, Yuling Lin, Zuoshuang Xiang, Terrence F. Meehan, Alexander D. Diehl, Uma D. Vempati, Stephan C. Schürer, Chao Pang, James Malone, Helen Parkinson, Yue Liu, Terue Takatsuki, Kaoru Saijo, Hiroshi Masuya, Yukio Nakamura, Matthew Brush, Melissa Haendel, Jie Zheng, Christian J. Stoeckert, Bjoern Peters, Christopher J. Mungall, Thomas E. Carey, David J. States, Brian D. Athey, Yongqun He
Software Mentions: 1
Published: almost 11 years ago

10.1098/rsob.120091

Systems analysis of transcription factor activities in environments with stable and dynamic oxygen concentrations
Cited by: 27
Author(s): Matthew D. Rolfe, Andrea Ocone, Melanie R. Stapleton, Simon T.E. Hall, Eleanor W. Trotter, Robert K. Poole, Guido Sanguinetti, Jeffrey Green
Software Mentions: 1
Published: over 12 years ago

10.1093/database/bax101

CellExpress: a comprehensive microarray-based cancer cell line and clinical sample gene expression analysis online system
Cited by: 21
Author(s): Yi-Fang Lee, Chien‐Yueh Lee, Liang‐Chuan Lai, Mong‐Hsun Tsai, Tzu-Pin Lu, Eric Y. Chuang
Software Mentions: 1
Published: almost 7 years ago

10.7150/jca.29293

Clinical Significance of microRNA-196b-5p in Hepatocellular Carcinoma and its Potential Molecular Mechanism
Cited by: 11
Author(s): Lu Zhang, Bin Luo, Yi‐Wu Dang, Rong‐Quan He, Zhigang Peng, Gang Chen, Zhaoyong Feng
Software Mentions: 1
Published: almost 6 years ago

10.7150/jca.34693

Distinct Roles of VEGFA and ANGPT2 in Lung Adenocarcinoma and Squamous Cell Carcinoma
Cited by: 20
Author(s): Shuang Qin, Ming Yi, Dechao Jiao, An‐Ping Li, Zeyu Wu
Software Mentions: 1
Published: almost 5 years ago

10.1016/j.dib.2018.11.135

Gene ontology analysis of transcriptome data from DMBA-induced mammary tumors of rats fed a high-corn oil and a high-extra virgin olive oil diet
Cited by: 1
Author(s): Raquel Escrich, Marta Cubedo, Eduard Escrich, Raquel Moral
Software Mentions: 1
Published: almost 6 years ago

10.1016/j.dib.2016.11.049

Microarray dataset on the genome-wide expression profile of an M. smegmatis amtR mutant (JR258) compared to M. smegmatis mc 2 155
Cited by: 2
Author(s): Michael Petridis, Gregory M. Cook
Software Mentions: 1
Published: almost 8 years ago

10.3390/ijms21103480

The GOLIATH Project: Towards an Internationally Harmonised Approach for Testing Metabolism Disrupting Compounds
Cited by: 33
Author(s): Juliette Legler, Daniel Zalko, Fabien Jourdan, Miriam N. Jacobs, Bernard Fromenty, Patrick Balaguer, William Bourguet, Vesna Munić Kos, Ángel Nadal, Claire Beausoleil, Susana Cristóbal, Sylvie Remy, Sibylle Ermler, Luigi Margiotta-Casaluci, Julian L. Griffin, Bruce Blumberg, Christophe Chesné, Sebastian Hoffmann, Patrik L. Andersson, Jorke H. Kamstra
Software Mentions: 1
Published: over 4 years ago

10.3390/ijms21113749

17-Aminogeldanamycin Inhibits Constitutive Nuclear Factor-Kappa B (NF-κB) Activity in Patient-Derived Melanoma Cell Lines
Cited by: 7
Author(s): Mariusz L. Hartman, Magdalena Rogut, Aleksandra Mielczarek-Lewandowska, Michal Wozniak, Małgorzata Czyż
Software Mentions: 1
Published: over 4 years ago

10.2174/138920208786847935

Meta Analysis of Gene Expression Data within and Across Species
Cited by: 34
Author(s): Ana Carolina Fierro, Filip Vandenbussche, Kristof Engelen, Yves Van de Peer, Kathleen Marchal
Software Mentions: 1
Published: almost 16 years ago

10.3390/ijms21124442

Functional Heterogeneity of Protein Kinase A Activation in Multipotent Stromal Cells
Cited by: 11
Author(s): Pyotr A. Tyurin‐Kuzmin, Maxim Karagyaur, Konstantin Kulebyakin, Daniyar T. Dyikanov, Vadim Chechekhin, Anastasiya M Ivanova, Mariya Skryabina, Mikhail Arbatskiy, Veronika Sysoeva, Kalinina Ni, В. А. Ткачук
Software Mentions: 1
Published: over 4 years ago

10.3390/cells8121554

Transcriptional Characterization of Stage I Epithelial Ovarian Cancer: A Multicentric Study
Cited by: 9
Author(s): Enrica Calura, Matteo Ciciani, Andrea Sambugaro, Lara Paracchini, Giuseppe Benvenuto, Salvatore Milite, Paolo Martini, Luca Beltrame, Flaminia Zane, Robert Fruscio, Martina Delle Marchette, Fulvio Borella, Germana Tognon, Antonella Ravaggi, Dionyssios Katsaros, Eliana Bignotti, Franco Odicino, Maurizio D’Incalci, Sergio Marchini, Chiara Romualdi
Software Mentions: 1
Published: almost 5 years ago

10.3390/ijms21207437

Targeting SRC Kinase Signaling in Pancreatic Cancer Stem Cells
Cited by: 17
Author(s): Sonia Alcalá, Víctor Mayoral-Varo, Laura Ruiz-Cañas, Juan Carlos López-Gil, Christopher Heeschen, Jorge Martı́n-Pérez, Bruno Sáinz
Software Mentions: 1
Published: about 4 years ago

10.3390/ijms21218069

Intra-Individual Behavioural Variability: A Trait under Genetic Control
Cited by: 12
Author(s): Rie Henriksen, Andrey Höglund, Jesper Fogelholm, Robin N. Abbey-Lee, Martin Johnsson, Niels Jeroen Dingemanse, Dominic Wright
Software Mentions: 1
Published: about 4 years ago

10.1186/s13023-014-0160-2

Molecular characterization of subcutaneous panniculitis-like T-cell lymphoma reveals upregulation of immunosuppression- and autoimmunity-associated genes
Cited by: 15
Author(s): Pilvi Maliniemi, Sonja Hahtola, Kristian Ovaska, Leila Jeskanen, Liisa Väkevä, Kirsi Jäntti, Rudolf Stadler, David Michonneau, Sylvie Fraïtag, Sampsa Hautaniemi, Annamari Ranki
Software Mentions: 1
Published: about 10 years ago

10.1186/cc12893

Induced expression and functional effects of aquaporin-1 in human leukocytes in sepsis
Cited by: 31
Author(s): Alice G. Vassiliou, Nikolaos A. Maniatis, Stylianos E. Orfanos, Zafeiria Mastora, Edison Jahaj, Triantafyllos Paparountas, Apostolos Armaganidis, Charis Roussos, Vassilis Aidinis, Αναστασία Κοτανίδου
Software Mentions: 1
Published: almost 12 years ago

10.3390/ijms22126505

Screen Key Genes Associated with Distraction-Induced Osteogenesis of Stem Cells Using Bioinformatics Methods
Cited by: 2
Author(s): Jishizhan Chen, Jia Hua, Wenhui Song
Software Mentions: 1
Published: over 3 years ago

10.3390/cells10030674

Acyl–Acyl Carrier Protein Desaturases and Plant Biotic Interactions
Cited by: 11
Author(s): Sami Kazaz, Romane Miray, Sébastien Baud
Software Mentions: 1
Published: over 3 years ago

10.1155/2019/1697913

Plasticity of Drug-Naïve and Vemurafenib- or Trametinib-Resistant Melanoma Cells in Execution of Differentiation/Pigmentation Program
Cited by: 24
Author(s): Małgorzata Czyż, Małgorzata Sztiller-Sikorska, Anna Gajos-Michniewicz, Marta Osrodek, Mariusz L. Hartman
Software Mentions: 1
Published: over 5 years ago

10.1016/j.csbj.2018.02.001

An Artificial Neural Network Integrated Pipeline for Biomarker Discovery Using Alzheimer's Disease as a Case Study
Cited by: 42
Author(s): Dimitrios Zafeiris, Sergio Rutella, Graham Ball
Software Mentions: 1
Published: almost 7 years ago

10.1016/j.csbj.2016.10.003

Determining the Molecular Pathways Underlying the Protective Effect of Non-Steroidal Anti-Inflammatory Drugs for Alzheimer's Disease: A Bioinformatics Approach
Cited by: 12
Author(s): Alejo J. Nevado‐Holgado, Simon Lovestone
Software Mentions: 1
Published: almost 8 years ago

10.18632/oncotarget.6768

Inhibiting the anaphase promoting complex/cyclosome induces a metaphase arrest and cell death in multiple myeloma cells
Cited by: 33
Author(s): Susanne Lub, Anke Maes, Ken Maes, Kim De Veirman, Elke De Bruyne, Eline Menu, Karel Fostier, Alboukadel Kassambara, Jérôme Moreaux, Dirk Hose, Xavier Leleu, Randall W. King, Karin Vanderkerken, Els Van Valckenborgh
Software Mentions: 1
Published: almost 9 years ago

10.1016/j.csbj.2017.10.001

Challenges in the Setup of Large-scale Next-Generation Sequencing Analysis Workflows
Cited by: 41
Author(s): Pranav Kulkarni, Peter Frommolt
Software Mentions: 1
Published: almost 8 years ago

10.1155/2021/8020067

Identification of Immune-Related Genes in Sepsis due to Community-Acquired Pneumonia
Cited by: 1
Author(s): Yanyan Li, Jiqin Wang, Yuzhen Li, Chunyan Liu, Xia Gong, Yijie Zhuang, Liang Chen, Kai Sun
Software Mentions: 1
Published: about 3 years ago

10.1186/gb-2006-7-10-r99

Cited by: 78
Author(s): Anders F. Andersson, Magnus Lundgren, Stefan Eriksson, Magnus Rosenlund, Rolf Bernander, Peter Nilsson
Software Mentions: 1
Published: almost 19 years ago

10.1186/gb-2006-7-10-r89

Cited by: 25
Author(s): Shiri Freilich, Tim Massingham, Eric Blanc, Leon Goldovsky, Janet M. Thornton
Software Mentions: 1
Published: almost 19 years ago

10.1186/gb-2006-7-11-r107

Cited by: 211
Author(s): Birgitte Regenberg, Thomas Grotkjær, Ole Winther, Anders Fausbøll, Mats Åkesson, Christoffer Bro, Lars Kai Hansen, Søren Brunak, Jens Nielsen
Software Mentions: 1
Published: almost 19 years ago

10.1186/gb-2007-8-5-r74

Threshold-free high-power methods for the ontological analysis of genome-wide gene-expression studies
Cited by: 23
Author(s): Björn Nilsson, Petra Håkansson, Mikael Johansson, Sven Nelander, Thoas Fioretos
Software Mentions: 1
Published: almost 18 years ago

10.1186/gb-2007-8-10-r229

Simplified ontologies allowing comparison of developmental mammalian gene expression
Cited by: 13
Author(s): Adéle Kruger, Oliver Hofmann, Piero Carninci, Yoshihide Hayashizaki, Winston Hide
Software Mentions: 1
Published: almost 18 years ago

10.18632/oncotarget.9379

GFOD1 and peejar are promising markers for clear-cell renal cell carcinoma disease progression
Cited by: 3
Author(s): Xiaorong Wu, Yonghui Chen, Wei Chen, Wen Kong, Jiwei Huang, Zhendong Jin, Wei Xue, Dongming Liu, Yiran Huang
Software Mentions: 1
Published: over 8 years ago

10.18632/oncotarget.9578

Functional/activity network (FAN) analysis of gene-phenotype connectivity liaised by grape polyphenol resveratrol
Cited by: 15
Author(s): Tze Chen Hsieh, Sing-Yung Wu, Dylan John Bennett, Barbara B. Doonan, Erxi Wu, Joseph M. Wu
Software Mentions: 1
Published: over 8 years ago

10.1186/1479-5876-9-72

SULFs in human neoplasia: implication as progression and prognosis factors
Cited by: 68
Author(s): Caroline Bret, Jérôme Moreaux, Jean‐François Schved, Dirk Hose, Bernard Klein
Software Mentions: 1
Published: over 13 years ago

10.1186/gb-2007-8-7-r148

Co-localization of CENP-C and CENP-H to discontinuous domains of CENP-A chromatin at human neocentromeres
Cited by: 74
Author(s): Alicia Alonso, Björn Fritz, Dan Hasson, György Abrusán, Fanny Cheung, Kinya Yoda, Bernhard Radlwimmer, Andreas G. Ladurner, Peter E. Warburton
Software Mentions: 1
Published: almost 18 years ago

10.1186/gb-2008-9-2-r32

Temporal regulation of expression of immediate early and second phase transcripts by endothelin-1 in cardiomyocytes
Cited by: 47
Author(s): Timothy E. Cullingford, Thomais Markou, Stephen J. Fuller, Alejandro Giraldo, Sampsa Pikkarainen, Georgia Zoumpoulidou, Ali Alsafi, Collins Ekere, Timothy J. Kemp, Jayne L. Dennis, Laurence Gamé, Peter H. Sugden, Angela Clerk
Software Mentions: 1
Published: almost 17 years ago

10.1186/gb-2007-8-9-r179

Genomic analysis reveals the major driving forces of bacterial life in the rhizosphere
Cited by: 190
Author(s): Miguel A. Matilla, Manuel Espinosa‐Urgel, José J. Rodríguez‐Herva, Juan L. Ramos, Marı́a Isabel Ramos-González
Software Mentions: 1
Published: almost 18 years ago

10.1186/gb-2007-8-9-r200

Atherosclerosis and liver inflammation induced by increased dietary cholesterol intake: a combined transcriptomics and metabolomics analysis
Cited by: 212
Author(s): Robert Kleemann, Lars Verschuren, Marjan J. van Erk, Yuri Nikolsky, N.H.P. Cnubben, Elwin Verheij, Age K. Smilde, H. Hendriks, Susanne Zadelaar, Graham J. Smith, Valery Kaznacheev, Tatiana Nikolskaya, А. С. Мельников, Eva Hurt-Camejo, J. van der Greef, Ben van Ommen, Teake Kooistra
Software Mentions: 1
Published: almost 18 years ago

10.1186/gb-2008-9-1-r19

Translational control plays a prominent role in the hepatocytic differentiation of HepaRG liver progenitor cells
Cited by: 33
Author(s): Romain Parent, Laura Beretta
Software Mentions: 1
Published: almost 17 years ago

10.1186/gb-2008-9-5-r82

Individual mRNA expression profiles reveal the effects of specific microRNAs
Cited by: 47
Author(s): Amit Arora, David Simpson
Software Mentions: 1
Published: almost 17 years ago

10.18632/oncotarget.13989

Endometrial cancer cells exhibit high expression of p110β and its selective inhibition induces variable responses on PI3K signaling, cell survival and proliferation
Cited by: 14
Author(s): Thomas Karlsson, Camilla Krakstad, Ingvild L. Tangen, Erling A. Høivik, Pamela M. Pollock, Helga B. Salvesen, Aurélia E. Lewis
Software Mentions: 1
Published: almost 8 years ago

10.1186/gb-2009-10-8-r87

Depletion of T-cell intracellular antigen proteins promotes cell proliferation
Cited by: 47
Author(s): Raquel Ruz Reyes, José Alcalde, José M. Izquierdo
Software Mentions: 1
Published: almost 16 years ago

10.1186/gb-2006-7-9-r84

Cited by: 140
Author(s): Katleen De Preter, Jo Vandesompele, Pierre Heimann, Nurten Yigit, Siv Beckman, Alexander Schramm, Angelika Eggert, Raymond L. Stallings, Yves Benoît, Marleen Renard, Anne De Paepe, Geneviève Laureys, Sven Påhlman, Franki Speleman
Software Mentions: 1
Published: almost 19 years ago

10.18632/oncotarget.13414

E-cadherin downregulation sensitizes PTEN-mutant tumors to PI3Kβ silencing
Cited by: 10
Author(s): África Millán-Uclés, Susana Zuluaga, Miriam Marqués, Jesús Vallejo-Díaz, Luis Sanz, Ariel Cariaga-Martínez, Francisco X. Real, Ana C. Carrera
Software Mentions: 1
Published: about 8 years ago

10.1186/gb-2009-10-12-r139

Mining for coexpression across hundreds of datasets using novel rank aggregation and visualization methods
Cited by: 136
Author(s): Priit Adler, Raivo Kolde, Meelis Kull, Александр Георгиевич Ткаченко, Hedi Peterson, Jüri Reimand, Jaak Vilo
Software Mentions: 1
Published: almost 16 years ago

10.1186/gb-2006-7-12-r114

Cited by: 56
Author(s): Hanni Willenbrock, Carsten Friis, Agnieszka Sierakowska Juncker, David W. Ussery
Software Mentions: 1
Published: almost 19 years ago

10.1186/1743-7075-7-56

Identification of the Eph receptor pathway as a novel target for eicosapentaenoic acid (EPA) modification of gene expression in human colon adenocarcinoma cells (HT-29)
Cited by: 5
Author(s): Joanne F. Doleman, John J. Eady, Ruan Elliott, Robert J. Foxall, John Seers, Ian T. Johnson, Elizabeth K. Lund
Software Mentions: 1
Published: almost 15 years ago

10.18632/oncotarget.16064

Integrated analysis of genes associated with poor prognosis of patients with colorectal cancer liver metastasis
Cited by: 30
Author(s): Zhenyuan Qian, Guobing Zhang, Guangyuan Song, Jing Shi, Lijie Gong, Yiping Mou, Yong Han
Software Mentions: 1
Published: over 7 years ago

10.1186/gb-2009-10-11-r125

High resolution discovery and confirmation of copy number variants in 90 Yoruba Nigerians
Cited by: 55
Author(s): Hajime Matsuzaki, Peihua Wang, Jing Hu, Rich Rava, Glenn K. Fu
Software Mentions: 1
Published: almost 16 years ago

10.1186/gb-2011-12-6-r53

Deep sequencing on genome-wide scale reveals the unique composition and expression patterns of microRNAs in developing pollen of Oryza sativa
Cited by: 141
Author(s): Wei Li, Long Yan, Tai Wang
Software Mentions: 1
Published: over 13 years ago

10.1186/gb-2006-7-6-r46

Cited by: 39
Author(s): Emma Laing, Vassilis Mersinias, Colin P. Smith, Simon J. Hubbard
Software Mentions: 1
Published: almost 19 years ago

10.1186/gb-2011-12-8-r82

Differential patterns of intronic and exonic DNA regions with respect to RNA polymerase II occupancy, nucleosome density and H3K36me3 marking in fission yeast
Cited by: 39
Author(s): Brian T. Wilhelm, Samuel Marguerat, Sofia Aligianni, Sandra Codlin, Stephen Watt, Jürg Bähler
Software Mentions: 1
Published: almost 14 years ago

10.1186/gb-2011-12-12-r127

Interrogation of global mutagenesis data with a genome scale model of Neisseria meningitidis to assess gene fitness in vitro and in sera
Cited by: 31
Author(s): Tom A. Mendum, Jane Newcombe, Ahmad A. Mannan, Andrzej M. Kierzek, Johnjoe McFadden
Software Mentions: 1
Published: almost 14 years ago

10.1186/gb-2006-7-3-r26

Cited by: 40
Author(s): Colin C. Pritchard, David A. Coil, Sarah Hawley, Li Hsu, Peter S. Nelson
Software Mentions: 1
Published: almost 19 years ago

10.1186/gb-2005-6-7-r56

Cited by: 41
Author(s): Shiri Freilich, Tim Massingham, Sumit Bhattacharyya, Hannes Ponstingl, Paul Lyons, Tom C. Freeman, Janet M. Thornton
Software Mentions: 1
Published: almost 20 years ago

10.1186/gb-2005-6-11-r94

Cited by: 155
Author(s): Bregje Wertheim, Alex R. Kraaijeveld, Eugene F. Schuster, Eric Blanc, Meirion Hopkins, Scott D. Pletcher, Michael R. Strand, Linda Partridge, H. C. J. Godfray
Software Mentions: 1
Published: almost 20 years ago

10.18632/oncotarget.20284

Downregulation of microRNA-31 inhibits proliferation and induces apoptosis by targeting HIF1AN in human keloid
Cited by: 21
Author(s): Juan Zhang, Dan Xu, Na Li, Yan Li, Yongjing He, Xingbo Hu, Lechun Lyu, Li He
Software Mentions: 1
Published: over 7 years ago

10.1186/gb-2013-14-12-r132

Genome-wide analyses implicate 33 loci in heritable dog osteosarcoma, including regulatory variants near CDKN2A/B
Cited by: 133
Author(s): Elinor K. Karlsson, Snaevar Sigurðsson, Emma Ivansson, Rachael Thomas, Ingegerd Elvers, Jason Wright, Cédric Howald, Noriko Tonomura, Michele Perloski, Ross Swofford, Tara Biagi, Sarah Fryc, Nathan Anderson, Céline Courtay-Cahen, Lisa Youell, Sally L. Ricketts, Sarah Mandlebaum, Patricio Rivera, Henrik von Euler, William C. Kisseberth, Cheryl A. London, Eric S. Lander, Guillermo Couto, Kenine E. Comstock, Mike Starkey, Jaime F. Modiano, Matthew Breen, Kerstin Lindblad‐Toh
Software Mentions: 1
Published: almost 12 years ago

10.18632/oncotarget.11215

Frequency of expression and generation of T-cell responses against antigens on multiple myeloma cells in patients included in the GMMG-MM5 trial
Cited by: 5
Author(s): Michael Schmitt, Angela Hückelhoven, Michael Hundemer, Anita Schmitt, Susanne Lipp, Martina Emde, Hans Salwender, Mathias Hänel, Katja Weisel, Uta Bertsch, Jan Dürig, Anthony D. Ho, Igor Wolfgang Blau, Hartmut Goldschmidt, Anja Seckinger, Dirk Hose
Software Mentions: 1
Published: over 8 years ago

10.1016/j.gdata.2014.10.016

Transcriptional ontogeny of first trimester human fetal and placental mesenchymal stem cells: Gestational age versus niche
Cited by: 5
Author(s): Jennifer Ryan, Nicholas Matigian, Rebecca A. Pelekanos, Samuel Jesuadian, Christine A. Wells, Nicholas M. Fisk
Software Mentions: 1
Published: almost 10 years ago

10.18632/oncotarget.17926

Increased transcriptional and metabolic capacity for lipid metabolism in the peripheral zone of the prostate may underpin its increased susceptibility to cancer
Cited by: 11
Author(s): Omar Al Kadhi, Μαρία Τράκα, Antonietta Melchini, Perla Troncoso‐Rey, Wiktor Jurkowski, Marianne Defernez, Purnima Pachori, Robert Mills, Richard Y. Ball, Richard Mithen
Software Mentions: 1
Published: over 7 years ago

10.1534/genetics.119.302493

Drift and Directional Selection Are the Evolutionary Forces Driving Gene Expression Divergence in Eye and Brain Tissue of Heliconius Butterflies
Cited by: 28
Author(s): Ana Catalán, Adriana D. Briscoe, Sebastian Höhna
Software Mentions: 1
Published: about 5 years ago

Projects: bioconductor: ArrayExpress

Papers Mentioning ArrayExpress 1,962