bioconductor: ArrayExpress | Projects

10.1186/1471-2164-11-389

Array comparative hybridisation reveals a high degree of similarity between UK and European clinical isolates of hypervirulent Clostridium difficile
Cited by: 24
Author(s): Gemma Marsden, Ian J. Davis, Victoria Wright, Mohammed Sebaihia, Ed J. Kuijper, Nigel P. Minton
Software Mentions: 1
Published: almost 16 years ago

10.1186/ar2311

SOX9 transduction of a human chondrocytic cell line identifies novel genes regulated in primary human chondrocytes and in osteoarthritis
Cited by: 61
Author(s): Simon R. Tew, Peter Clegg, Christopher J Brew, C. Redmond, Timothy E. Hardingham
Software Mentions: 1
Published: over 19 years ago

10.1371/journal.pone.0116973

A Quantitative and Dynamic Model of the Arabidopsis Flowering Time Gene Regulatory Network
Cited by: 39
Author(s): Felipe Leal Valentim, S. van Mourik, David Posé, Min C. Kim, Markus Schmid, Roeland C. H. J. van Ham, Marco Busscher, Gabino F. Sánchez-Pérez, Jaap Molenaar, Gerco C. Angenent, Richard G. H. Immink, Aalt D. J. van Dijk
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0064880

The Elongation Complex Components BRD4 and MLLT3/AF9 Are Transcriptional Coactivators of Nuclear Retinoid Receptors
Cited by: 14
Author(s): Sébastien Flajollet, Christophe Rachez, Maheul Ploton, Céline Schulz, Rozenn Gallais, Raphaël Métivier, Michał Pawlak, Aymeric Leray, Al Amine Issulahi, Laurent Héliot, Bart Staels, Gilles Salbert, Philippe Lefèbvre
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0198555

The immunosuppressive face of sepsis early on intensive care unit—A large-scale microarray meta-analysis
Cited by: 29
Author(s): Dominik Schaack, Benedikt Hermann Siegler, Sandra Tamulyte, Markus Weigand, Florian Uhle
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0045744

Transcriptome Analysis of Responses to Rhodomyrtone in Methicillin-Resistant Staphylococcus aureus
Cited by: 29
Author(s): Wipawadee Sianglum, Potjanee Srimanote, Peter W. Taylor, Helena Rosado, Supayang Piyawan Voravuthikunchai
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0004285

Rapid Changes in Transcription Profiles of the Plasmodium yoelii yir Multigene Family in Clonal Populations: Lack of Epigenetic Memory?
Cited by: 25
Author(s): Deirdre Cunningham, Jannik Fonager, William Jarra, Céline Carret, Peter R. Preiser, Jean Langhorne
Software Mentions: 1
Published: about 17 years ago

10.1371/journal.pone.0022859

Identification of Human Housekeeping Genes and Tissue-Selective Genes by Microarray Meta-Analysis
Cited by: 121
Author(s): Cheng-Wei Chang, Wei‐Chung Cheng, Chaang-Ray Chen, Wun‐Yi Shu, Min-Lung Tsai, Ching-Lung Huang, Ian C. Hsu
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pcbi.1000851

Large-Scale Analysis of Network Bistability for Human Cancers
Cited by: 75
Author(s): Tetsuya Shiraishi, Shinako Matsuyama, Hiroaki Kitano
Software Mentions: 1
Published: almost 16 years ago

10.1186/1471-2164-7-224

Development and validation of a bovine macrophage specific cDNA microarray
Cited by: 38
Author(s): Kirsty Jensen, Richard Talbot, Edith Paxton, David Waddington, Elizabeth J. Glass
Software Mentions: 1
Published: over 19 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: almost 6 years ago

10.1371/journal.pcbi.1000940

Differentially Expressed RNA from Public Microarray Data Identifies Serum Protein Biomarkers for Cross-Organ Transplant Rejection and Other Conditions
Cited by: 63
Author(s): Rong Chen, Tara K. Sigdel, Li Li, Neeraja Kambham, Joel T. Dudley, Szu Chuan Hsieh, R. Bryan Klassen, Amery Chen, Tuyen Caohuu, Alexander A. Morgan, Hannah A. Valantine, Kiran K. Khush, Minnie M. Sarwal, Atul J. Butte
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pcbi.1003597

Modelling Negative Feedback Networks for Activating Transcription Factor 3 Predicts a Dominant Role for miRNAs in Immediate Early Gene Regulation
Cited by: 10
Author(s): Marcus J. Tindall, Angela Clerk
Software Mentions: 1
Published: almost 12 years ago

10.3389/fpls.2021.640324

Identification and Characterization of Perennial Ryegrass (Lolium perenne) Vernalization Genes
Cited by: 2
Author(s): Rowan P. Herridge, * Samarth, Lynette Brownfield, Richard C. Macknight
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0190533

Elucidation of the mechanism behind the potentiating activity of baicalin against Burkholderia cenocepacia biofilms
Cited by: 17
Author(s): Lisa Slachmuylders, Heleen Van Acker, Gilles Brackman, Andrea Saß, Filip Van Nieuwerburgh, Tom Coenye
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0042228

Loss of Abdominal Muscle in Pitx2 Mutants Associated with Altered Axial Specification of Lateral Plate Mesoderm
Cited by: 14
Author(s): Diana G. Eng, Hsiao-Yen Ma, Jun Xu, Hung-Ping Shih, Michael Groß, Chrissa Kiouss
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0051129

Identification of Putative Rhamnogalacturonan-II Specific Glycosyltransferases in Arabidopsis Using a Combination of Bioinformatics Approaches
Cited by: 16
Author(s): Aline Voxeur, Aurélie André, C. Breton, Patrice Lerouge
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0080625

MicroRNA-99 Family Members Suppress Homeobox A1 Expression in Epithelial Cells
Cited by: 33
Author(s): Dan Chen, Zujian Chen, Y. Jin, Dragan Dragas, Leitao Zhang, Barima S. Adjei, Anxun Wang, Yang Dai, Xiaofeng Zhou
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pcbi.1002278

Genomics and Privacy: Implications of the New Reality of Closed Data for the Field
Cited by: 65
Author(s): Dov Greenbaum, Andrea Sboner, Xinmeng Jasmine Mu, Mark Gerstein
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0019844

Extracellular Matrix Formation Enhances the Ability of Streptococcus pneumoniae to Cause Invasive Disease
Cited by: 60
Author(s): Claudia Trappetti, Abiodun D. Ogunniyi, Marco R. Oggioni, James C. Paton
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0228408

GLIPR1 expression is reduced in multiple myeloma but is not a tumour suppressor in mice
Cited by: 2
Author(s): Natasha Friend, Jacqueline E. Noll, Khatora S. Opperman, Kimberley C. Clark, Krzysztof M. Mrozik, Kate Vandyke, Duncan R. Hewett, Andrew C.W. Zannettino
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pone.0230313

A 3-gene biomarker signature to predict response to taxane-based neoadjuvant chemotherapy in breast cancer
Cited by: 5
Author(s): Jim Kallarackal, Florian Bürger, S. Del Bianco, Alessandro Romualdi, Martina Schad
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pone.0001791

Transcriptomic Analyses Reveal Novel Genes with Sexually Dimorphic Expression in the Zebrafish Gonad and Brain
Cited by: 109
Author(s): Rajini Sreenivasan, Minnie Cai, Richárd Bártfai, Xingang Wang, Alan Christoffels, László Orbán
Software Mentions: 1
Published: about 18 years ago

10.1371/journal.pone.0087665

Genome-Wide Screening Identified That miR-134 Acts as a Metastasis Suppressor by Targeting Integrin β1 in Hepatocellular Carcinoma
Cited by: 69
Author(s): Rujing Zha, Weijie Guo, Zhenfeng Zhang, Zhaoping Qiu, Qifeng Wang, Jie Ding, Shenglin Huang, Taoyang Chen, Jianren Gu, Ming Yao, Xianghuo He
Software Mentions: 1
Published: about 12 years ago

10.3389/fpls.2020.00753

Light Regulation of Chlorophyll and Glycoalkaloid Biosynthesis During Tuber Greening of Potato S. tuberosum
Cited by: 12
Author(s): Haruko Okamoto, Laurence J. M. Ducreux, J. William Allwood, Pete E. Hedley, Alison J. Wright, Vidyanath Gururajan, Matthew J. Terry, Mark A. Taylor
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pbio.3001311

MHC class I H2-Kb negatively regulates neural progenitor cell proliferation by inhibiting FGFR signaling
Cited by: 12
Author(s): Karin Lin, Gregor Bieri, Géraldine Gontier, Sören Müller, Lucas K. Smith, Cedric E Snethlage, Charles White, Sun Y. Maybury-Lewis, Saul Villeda
Software Mentions: 1
Published: almost 5 years ago

10.3389/fpls.2016.01836

An LRR/Malectin Receptor-Like Kinase Mediates Resistance to Non-adapted and Adapted Powdery Mildew Fungi in Barley and Wheat
Cited by: 39
Author(s): Jeyaraman Rajaraman, Dimitar Douchkov, Goetz Hensel, Francesca L. Stefanato, Anna Gordon, Nelzo C. Ereful, Octav Caldararu, Andrei-José Petrescu, Jochen Kumlehn, Lesley A. Boyd, Patrick Schweizer
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0055764

Simultaneous Quantification of Multiple Bacteria by the BactoChip Microarray Designed to Target Species-Specific Marker Genes
Cited by: 17
Author(s): Annalisa Ballarini, Nicola Segata, Curtis Huttenhower, Olivier Jousson
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0177701

SiGNet: A signaling network data simulator to enable signaling network inference
Cited by: 7
Author(s): Elizabeth A. Coker, Costas Mitsopoulos, Paul Workman, Bissan Al‐Lazikani
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pbio.0030297

Bioinformatics and Data Management Support for Environmental Genomics
Cited by: 23
Author(s): Dawn Field, Bela Tiwari, Jason Snape
Software Mentions: 1
Published: over 20 years ago

10.1371/journal.pone.0114627

Altered MicroRNA Expression Profile in Exosomes during Osteogenic Differentiation of Human Bone Marrow-Derived Mesenchymal Stem Cells
Cited by: 184
Author(s): Jiajie Xu, Guangxiao Yang, Xiaohong Pan, Shuijun Zhang, Chen Zhao, Bin-Song Qiu, Haifeng Gu, Jian-fei Hong, Li Cao, Yu Chen, Bing Xia, Qinsheng Bi, Yaping Wang
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0171508

A distal intergenic region controls pancreatic endocrine differentiation by acting as a transcriptional enhancer and as a polycomb response element
Cited by: 12
Author(s): Joris van Arensbergen, Sébastien Dussaud, Corinne Pardanaud-Glavieux, Javier García-Hurtado, Claire Sauty, Aline Guerci, Jorge Ferrer, Philippe Ravassard
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0063296

Efferocytosis Promotes Suppressive Effects on Dendritic Cells through Prostaglandin E2 Production in the Context of Autoimmunity
Cited by: 23
Author(s): Irma Pujol‐Autonell, Rosa-Maria Ampudia, Raquel Planas, Sílvia Marín-Gallén, Jorge Carrascal, Álex Sánchez, Ana V. Marín, Manel Puig-Domingo, Ricardo Pujol-Borrell, Joan Verdaguer, Marta Vives-Pi
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0017359

The PI3K p110δ Regulates Expression of CD38 on Regulatory T Cells
Cited by: 71
Author(s): Daniel T. Patton, Marcus D. Wilson, Wendy C. Rowan, Dalya R. Soond, Klaus Okkenhaug
Software Mentions: 1
Published: about 15 years ago

10.3389/fpls.2017.00445

Altered Expression of Genes Implicated in Xylan Biosynthesis Affects Penetration Resistance against Powdery Mildew
Cited by: 22
Author(s): Jamil Chowdhury, Stefanie Lück, Jeyaraman Rajaraman, Dimitar Douchkov, Neil J. Shirley, Julian G. Schwerdt, Patrick Schweizer, Geoffrey B. Fincher, Rachel A. Burton, Alan Little
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pbio.0030384

Variant Histone H2A.Z Is Globally Localized to the Promoters of Inactive Yeast Genes and Regulates Nucleosome Positioning
Cited by: 394
Author(s): Benoît Guillemette, Alain R. Bataille, Nicolas Gévry, Maryse Adam, Mathieu Blanchette, François Robert, Luc Gaudreau
Software Mentions: 1
Published: over 20 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: almost 6 years ago

10.1371/journal.pone.0011066

Contrasting Transcriptional Responses of a Virulent and an Attenuated Strain of Mycobacterium tuberculosis Infecting Macrophages
Cited by: 43
Author(s): Alice H. Li, Simon J. Waddell, Jason Hinds, Chad A. Malloff, Manjeet Bains, Robert E. W. Hancock, Wan L. Lam, Philip D. Butcher, Richard W. Stokes
Software Mentions: 1
Published: almost 16 years ago

10.1371/journal.pone.0030960

Role of Position 627 of PB2 and the Multibasic Cleavage Site of the Hemagglutinin in the Virulence of H5N1 Avian Influenza Virus in Chickens and Ducks
Cited by: 61
Author(s): K. A. Schat, John Bingham, Jeff Butler, Li Mei Chen, Sue Lowther, Tamsyn M. Crowley, Robert J. Moore, Ruben O. Donis, John W. Lowenthal
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0112399

Protein Interaction Networks Reveal Novel Autism Risk Genes within GWAS Statistical Noise
Cited by: 15
Author(s): Catarina Correia, Guiomar Oliveira, Astrid M. Vicente
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0052232

Interaction of Salmonella Typhimurium with Dendritic Cells Derived from Pluripotent Embryonic Stem Cells
Cited by: 10
Author(s): Raffaella Rossi, Christine Hale, David Goulding, Robert Andrews, Zarah Abdellah, Paul J. Fairchild, Gordon Dougan
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pbio.0020317

Submission of Microarray Data to Public Repositories
Cited by: 113
Author(s): Catherine A. Ball, Alvis Brāzma, Helen C. Causton, Steve Chervitz, Ron Edgar, Pascal Hingamp, John C. Matese, Helen Parkinson, John Quackenbush, Martin Ringwald, Susanna Assunta Sansone, Gavin Sherlock, Paul T. Spellman, C. J. Stoeckert, Yoshio Tateno, Ron Taylor, Joseph A. White, Neil Winegarden
Software Mentions: 1
Published: over 21 years ago

10.1186/1471-2148-9-59

Divergence in gene regulation at young life history stages of whitefish (Coregonus sp.) and the emergence of genomic isolation
Cited by: 53
Author(s): Arne W. Nolte, Sébastien Renaut, Louis Bernatchez
Software Mentions: 1
Published: over 17 years ago

10.3389/fpls.2017.02158

Biology in the Dry Seed: Transcriptome Changes Associated with Dry Seed Dormancy and Dormancy Loss in the Arabidopsis GA-Insensitive sleepy1-2 Mutant
Cited by: 25
Author(s): Sven K. Nelson, Tohru Ariizumi, Camille M. Steber
Software Mentions: 1
Published: over 8 years ago

10.3389/fpls.2020.00098

BarleyNet: A Network-Based Functional Omics Analysis Server for Cultivated Barley, Hordeum vulgare L.
Cited by: 15
Author(s): Sungho Lee, Tak H. Lee, Sunmo Yang, Insuk Lee
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pone.0084611

TFPI1 Mediates Resistance to Doxorubicin in Breast Cancer Cells by Inducing a Hypoxic-Like Response
Cited by: 14
Author(s): Gerald F. Davies, Arnie Berg, Spike D. L. Postnikoff, Heather L. Wilson, Terra Arnason, Anthony Kusalik, Troy A. A. Harkness
Software Mentions: 1
Published: about 12 years ago

10.3389/fpls.2016.00903

Mining Functional Modules in Heterogeneous Biological Networks Using Multiplex PageRank Approach
Cited by: 11
Author(s): Jun Li, Patrick Xuechun Zhao
Software Mentions: 1
Published: almost 10 years ago

10.1186/s13007-016-0144-4

Measures for interoperability of phenotypic data: minimum information requirements and formatting
Cited by: 98
Author(s): Hanna Ćwiek‐Kupczyńska, Thomas Altmann, Daniel Arend, Elizabeth Arnaud, Dijun Chen, Guillaume Cornut, Fabio Fiorani, Wojciech Frohmberg, Astrid Junker, Christian Klukas, Matthias Lange, Cezary Mazurek, Anahita Nafissi, Pascal Neveu, Jan van Oeveren, Cyril Pommier, Hendrik Poorter, Philippe Rocca-Serra, Susanna-Assunta Sansone, Uwe Scholz, Marco van Schriek, Ümit Seren, Björn Usadel, Stéphan Weise, Paul J. Kersey, Paweł Krajewski
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0011429

Revealing New Mouse Epicardial Cell Markers through Transcriptomics
Cited by: 59
Author(s): Lars Bochmann, Padmini Sarathchandra, Frederica Mori, Enrique Lara‐Pezzi, Domenico Lazzaro, Nadia Rosenthal
Software Mentions: 1
Published: almost 16 years ago

10.1371/journal.pone.0019077

miR-132 Mediates the Integration of Newborn Neurons into the Adult Dentate Gyrus
Cited by: 140
Author(s): Bryan W. Luikart, Ae Soon L. Bensen, Eric K. Washburn, Julia V. Perederiy, Kimmy Su, Yun Li, Steven G. Kernie, Luis F. Parada, Gary L. Westbrook
Software Mentions: 1
Published: almost 15 years ago

10.3389/fpls.2012.00294

Reverse Engineering: A Key Component of Systems Biology to Unravel Global Abiotic Stress Cross-Talk
Cited by: 34
Author(s): Swetlana Friedel, Björn Usadel, Nicolaus von Wirén, Nese Sreenivasulu
Software Mentions: 1
Published: over 14 years ago

10.1111/tpj.14898

TERMINAL FLOWER‐1/CENTRORADIALIS inhibits tuberisation via protein interaction with the tuberigen activation complex
Cited by: 21
Author(s): Xing Zhang, Raymond Campbell, Laurence J. M. Ducreux, Jennifer Morris, Pete E. Hedley, Elena Mellado‐Ortega, Alison G. Roberts, Jennifer Stephens, Glenn Bryan, L. Torrance, Sean Chapman, Salomé Prat, Mark A. Taylor
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0044206

MiR-214 Targets β-Catenin Pathway to Suppress Invasion, Stem-Like Traits and Recurrence of Human Hepatocellular Carcinoma
Cited by: 142
Author(s): Hongping Xia, London Lucien Ooi, Kam M. Hui
Software Mentions: 1
Published: over 13 years ago

10.1093/pcp/pcx191

ATTED-II in 2018: A Plant Coexpression Database Based on Investigation of the Statistical Property of the Mutual Rank Index
Cited by: 196
Author(s): Takeshi Obayashi, Yosuke Aoki, Shu Tadaka, Yuki Kagaya, Kengo Kinoshita
Software Mentions: 1
Published: over 8 years ago

10.1186/1471-213X-7-129

Gene array identification of Ipf1/Pdx1-/-regulated genes in pancreatic progenitor cells
Cited by: 26
Author(s): Per H. Svensson, Cecilia Williams, Joakim Lundeberg, Patrik Rydén, Ingela Bergqvist, Helena Edlund
Software Mentions: 1
Published: over 18 years ago

10.1186/ar3062

New insights into the pathogenesis of glucocorticoid-induced avascular necrosis: microarray analysis of gene expression in a rat model
Cited by: 47
Author(s): Mohammad Amin Kerachian, Denis Cournoyer, Edward J. Harvey, Terry Y.-K. Chow, Louis R. Bégin, Ayoub Nahal, Chantal Séguin
Software Mentions: 1
Published: over 16 years ago

10.3389/fpls.2019.00315

ABA-Induced Vegetative Diaspore Formation in Physcomitrella patens
Cited by: 27
Author(s): Muhammad Arif, Manuel Hiß, Marta Tomek, Hauke Busch, Rabea Meyberg, Stefanie Tintelnot, Ralf Reski, Stefan A. Rensing, Wolfgang Frank
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0200716

Identification of serum miR-1915-3p and miR-455-3p as biomarkers for breast cancer
Cited by: 45
Author(s): Jian Guo, Chen Liu, Wei Wang, Yan Liu, Huiwen He, Chong Chen, Rong Xiang, Yunping Luo
Software Mentions: 1
Published: over 7 years ago

10.1093/pcp/pcv165

ATTED-II in 2016: A Plant Coexpression Database Towards Lineage-Specific Coexpression
Cited by: 143
Author(s): Yosuke Aoki, Yasunobu Okamura, Shu Tadaka, Kengo Kinoshita, Takeshi Obayashi
Software Mentions: 1
Published: over 10 years ago

10.1098/rstb.2010.0286

Computational biology for ageing
Cited by: 37
Author(s): Daniela Wieser, Irene Papatheodorou, Matthias Ziehm, Janet M. Thornton
Software Mentions: 1
Published: over 15 years ago

10.1098/rstb.2019.0413

Dissecting the interaction of photosynthetic electron transfer with mitochondrial signalling and hypoxic response in the Arabidopsis rcd1 mutant
Cited by: 15
Author(s): Alexey Shapiguzov, Lauri Nikkanen, Duncan Fitzpatrick, Julia P. Vainonen, Richard Gossens, Saleh Alseekh, Fayezeh Aarabi, Arjun Tiwari, Olga Blokhina, Klára Panzarová, Zuzana Benedikty, Esa Tyystjärvi, Alisdair R. Fernie, Martin Trtílek, Eva‐Mari Aro, Eevi Rintamäki, Jaakko Kangasjärvi
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pone.0014672

Estrogen-Dependent Gene Expression in the Mouse Ovary
Cited by: 9
Author(s): Seng H. Liew, Mai A. Sarraj, Ann E. Drummond, Jock K. Findlay
Software Mentions: 1
Published: about 15 years ago

10.3390/pharmaceutics11040152

Translational PBPK Modeling of the Protein Therapeutic and CD95L Inhibitor Asunercept to Develop Dose Recommendations for Its First Use in Pediatric Glioblastoma Patients
Cited by: 17
Author(s): Nina Hanke, Claudia Kunz, Meinolf Thiemann, Harald Fricke, Thorsten Lehr
Software Mentions: 1
Published: about 7 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: almost 6 years ago

10.7717/peerj.10141

Integrated transcriptome meta-analysis of pancreatic ductal adenocarcinoma and matched adjacent pancreatic tissues
Cited by: 28
Author(s): Sevcan Atay
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0106706

Research Resources: Comparative MicroRNA Profiles in Human Corona Radiata Cells and Cumulus Oophorus Cells Detected by Next-Generation Small RNA Sequencing
Cited by: 23
Author(s): Xianhong Tong, Bo Xu, Yuan‐Wei Zhang, Yusheng Liu, Chao Ma
Software Mentions: 1
Published: over 11 years ago

10.3390/pathogens5030051

FlpS, the FNR-Like Protein of Streptococcus suis Is an Essential, Oxygen-Sensing Activator of the Arginine Deiminase System
Cited by: 10
Author(s): Jörg Willenborg, Anna Koczula, Marcus Fulde, Astrid de Greeff, Andreas Beineke, Wolfgang Eisenreich, Claudia Huber, Maren Seitz, Peter Valentin‐Weigand, Ralph Goethe
Software Mentions: 1
Published: over 9 years ago

10.1186/1755-8417-2-2

Unraveling the disease pathogenesis behind lethal hydrolethalus syndrome revealed multiple changes in molecular and cellular level
Cited by: 10
Author(s): Heli Honkala, Jenni Lahtela, Hazel M. Fox, Massimiliano Gentile, Niklas Pakkasjärvi, Riitta Salonen, Kirmo Wartiovaara, Matti Jauhiainen, Marjo Kestilä
Software Mentions: 1
Published: almost 17 years ago

10.1186/s12957-020-01975-9

Immunohistochemical basigin expression level in thyroid cancer tissues
Cited by: 2
Author(s): Wanping Guo, Deng Tang, Yu‐Yan Pang, Xiao‐Jiao Li, Gang Chen, Zhi‐Guang Huang, Xiao‐Zhun Tang, Quirino Lai, Jin-Yan Gan, Xiaoli Huang, Xiaofan Liu, Zhixiao Wei, Wei Ma
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0145696

Correction: Lung Transcriptomics during Protective Ventilatory Support in Sepsis-Induced Acute Lung Injury
Cited by: 3
Author(s): Marialbert Acosta‐Herrera, Fabián Lorenzo-Díaz, Maria Pino‐Yanes, Almudena Corrales, Francisco Valladares, Tilman E. Klassert, Basilio Valladares, Hortense Slevogt, Shwu‐Fan Ma, Jesús Villar, Carlos Flores
Software Mentions: 1
Published: over 10 years ago

10.1186/s12957-018-1320-y

Clinical value of miR-198-5p in lung squamous cell carcinoma assessed using microarray and RT-qPCR
Cited by: 19
Author(s): Yue‐Ya Liang, Jiacheng Huang, Rongjiang Tang, Wenjie Chen, Peng Chen, Wei‐Luan Cen, Ke Shi, Gao Li, Xiang Gao, An‐Gui Liu, Xuebiao Peng, Su-Hua Huang, Ye‐Ying Fang, Yutong Gu
Software Mentions: 1
Published: about 8 years ago

10.1186/1471-213X-10-54

Analysis of the asymmetrically expressed Ablim1 locus reveals existence of a lateral plate Nodal-independent left sided signal and an early, left-right independent role for nodal flow
Cited by: 11
Author(s): Jonathan L. Stevens, А. Н. Ермаков, José Bragança, Helen Hilton, Peter A. Underhill, Shoumo Bhattacharya, Nigel A. Brown, Dominic P. Norris
Software Mentions: 1
Published: almost 16 years ago

10.1007/s10354-016-0488-4

New insights in Rett syndrome using pathway analysis for transcriptomics data
Cited by: 9
Author(s): Friederike Ehrhart, Susan L. Coort, Elisa Cirillo, Eric Smeets, Chris T. Evelo, Leopold Curfs
Software Mentions: 1
Published: over 9 years ago

10.12688/wellcomeopenres.14576.2

DOLORisk: study protocol for a multi-centre observational study to understand the risk factors and determinants of neuropathic pain
Cited by: 20
Author(s): Mathilde M.V. Pascal, Andreas C. Themistocleous, Ralf Baron, Andreas Binder, Didier Bouhassira, Geert Crombez, Nanna Brix Finnerup, Janne Gierthmühlen, Yelena Granovsky, Leif Groop, Harry L. Hébert, Troels Staehelin Jensen, Kristinn Johnsen, Mark I. McCarthy, Meng Wang, Colin N.A. Palmer, Andrew S.C. Rice, Jordi Serra, Romà Solà, David Yarnitsky, Blair H. Smith, Nadine Attal, David L.H. Bennett
Software Mentions: 1
Published: about 7 years ago

10.1186/s40478-014-0093-y

Integrated multi-cohort transcriptional meta-analysis of neurodegenerative diseases
Cited by: 80
Author(s): Matthew Li, Terry C. Burns, Alexander A. Morgan, Purvesh Khatri
Software Mentions: 1
Published: over 11 years ago

10.12688/wellcomeopenres.12199.1

Methyl donor deficient diets cause distinct alterations in lipid metabolism but are poorly representative of human NAFLD
Cited by: 12
Author(s): Marcus J. Lyall, Jessy Cartier, James Richards, Diego Cobice, John P. Thomson, Richard R. Meehan, Stephen M. Anderton, Amanda J. Drake
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0017259

GTI: A Novel Algorithm for Identifying Outlier Gene Expression Profiles from Integrated Microarray Datasets
Cited by: 27
Author(s): John Patrick Mpindi, Henri Sara, Saija Haapa-Paananen, Sami Kilpinen, Tommi Pisto, Elmar Bucher, K. Ojala, Kristiina Iljin, Paula Vainio, Mari Björkman, Santosh Gupta, Pekka Kohonen, Matthias Nees, Olli Kallioniemi
Software Mentions: 1
Published: about 15 years ago

10.1371/journal.pone.0073817

Wild Type p53 Transcriptionally Represses the SALL2 Transcription Factor under Genotoxic Stress
Cited by: 10
Author(s): Carlos Farkas, Carla P. Martins, D. E. Escobar, Matías I. Hepp, David B. Donner, Ariel F. Castro, Gérard I. Evan, José L. Gutiérrez, Robert S. Warren, Roxana Pincheira
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0057329

Klf4 Is a Transcriptional Regulator of Genes Critical for EMT, Including Jnk1 (Mapk8)
Cited by: 116
Author(s): Neha Tiwari, Nathalie Meyer-Schaller, Phil Arnold, Helena Antoniadis, Mikhail Pachkov, Erik van Nimwegen, Gerhard Christofori
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0177278

The Rhizoctonia solani AG1-IB (isolate 7/3/14) transcriptome during interaction with the host plant lettuce (Lactuca sativa L.)
Cited by: 23
Author(s): Bart Verwaaijen, Daniel Wibberg, Magdalena Kröber, Anderson M. Winkler, Rita Zrenner, Hanna Bednarz, Karsten Niehaus, Rita Grosch, Alfred Pühler, Andreas Schlüter
Software Mentions: 1
Published: almost 9 years ago

10.3390/v12010076

Comparative Transcriptome Analysis Provides Molecular Insights into the Interaction of Beet necrotic yellow vein virus and Beet soil-borne mosaic virus with Their Host Sugar Beet
Cited by: 11
Author(s): J. Gil, Daniel Wibberg, Omid Eini, Eugene I. Savenkov, Mark Varrelmann, Sebastian Liebe
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0062456

Age-Mediated Transcriptomic Changes in Adult Mouse Substantia Nigra
Cited by: 12
Author(s): Lin Gao, María Hidalgo-Figueroa, Luis Escudero, Juan Díaz‐Martín, José López‐Barneo, Alberto Pascual
Software Mentions: 1
Published: almost 13 years ago

10.1186/1743-422X-11-27

Gene expression profiling of CD4+T cells in treatment-naive HIV, HCV mono- or co-infected Chinese
Cited by: 4
Author(s): Yi Liu, Jin Zhao, Jing Lü, Ying Cui, Lin Chen, Jinquan Cheng, Yan Sun, Zhi Li, Ruotin Men, Li Yang, Hsiang‐Fu Kung, Zhengrong Yang, Ming‐Liang He
Software Mentions: 1
Published: about 12 years ago

10.1016/j.vetpar.2015.08.023

Variable exon usage of differentially-expressed genes associated with resistance of sheep to Teladorsagia circumcincta
Cited by: 3
Author(s): Hazel Wilkie, Siyang Xu, Anton Gossner
Software Mentions: 1
Published: over 10 years ago

10.1016/j.vaccine.2010.06.005

An investigation of clinical and immunological events following repeated aerodigestive tract challenge infections with live Mycobacterium bovis Bacille Calmette Guérin
Cited by: 8
Author(s): Fernanda Schreiber, Zhiming Huo, Rafaela Giemza, Maria Woodrow, Nicola Fenner, Zoe Stephens, Gordon Dougan, Steven Prideaux, L.R.R. Castello-Branco, David J. M. Lewis
Software Mentions: 1
Published: almost 16 years ago

10.1371/journal.pone.0008939

The Transcriptional Programme of Human Heart Valves Reveals the Natural History of Infective Endocarditis
Cited by: 29
Author(s): Marie Benoit, Franck Thuny, Yannick Le Priol, Hubert Lépidi, Sonia Bastonero, Jean‐Paul Casalta, Frédéric Collart, Christian Capo, Didier Raoult, Jean‐Louis Mège
Software Mentions: 1
Published: about 16 years ago

10.1371/journal.pone.0020063

Molecular Strategy for Survival at a Critical High Temperature in Eschierichia coli
Cited by: 72
Author(s): Masayuki Murata, Hiroko Fujimoto, Kaori Nishimura, Kannikar Charoensuk, Hiroshi Nagamitsu, Satish Raina, Tomoyuki Kosaka, Taku Oshima, Nagahisa Ogasawara, Mamoru Yamada
Software Mentions: 1
Published: almost 15 years ago

10.15252/msb.20199043

A gene regulatory network controls the balance between mesendoderm and ectoderm at pluripotency exit
Cited by: 16
Author(s): Hanna L. Sladitschek, Pierre Neveu
Software Mentions: 1
Published: over 6 years ago

10.1002/msb.134886

Periodic <scp>mRNA</scp> synthesis and degradation co‐operate during cell cycle gene expression
Cited by: 75
Author(s): Philipp Eser, Carina Demel, Kerstin Maier, Björn Schwalb, Nicole Pirkl, Dietmar E. Martin, Patrick Cramer, Achim Tresch
Software Mentions: 1
Published: over 12 years ago

10.15252/msb.20156658

The BioStudies database
Cited by: 25
Author(s): Johanna McEntyre, Ugis Sarkans, Alvis Brāzma
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0109978

Life without Oxygen: Gene Regulatory Responses of the Crucian Carp (Carassius carassius) Heart Subjected to Chronic Anoxia
Cited by: 11
Author(s): Kåre‐Olav Stensløkken, Stian Ellefsen, Olga Vasieva, Yongxiang Fang, Anthony P. Farrell, Lisa Olohan, Jarle Vaage, Göran Nilsson, Andrew R. Cossins
Software Mentions: 1
Published: over 11 years ago

10.15252/msb.20156525

The bimodally expressed micro <scp>RNA</scp> miR‐142 gates exit from pluripotency
Cited by: 26
Author(s): Hanna L. Sladitschek, Pierre Neveu
Software Mentions: 1
Published: over 10 years ago

10.1038/s41380-019-0505-2

Familial t(1;11) translocation is associated with disruption of white matter structural integrity and oligodendrocyte–myelin dysfunction
Cited by: 17
Author(s): Navneet A. Vasistha, Mandy Johnstone, Samantha K. Barton, Steffen Mayerl, Bhuvaneish T. Selvaraj, Pippa A. Thomson, Owen Dando, Ellen Grünewald, Clara Alloza, Mark E. Bastin, Matthew R. Livesey, Kyriakos D. Economides, Dario Magnani, Paraskevi Makedonopolou, Karen Burr, David Story, Douglas Blackwood, DJ Wyllie, Andrew M. McIntosh, J. Kirsty Millar, Charles ffrench‐Constant, Giles E. Hardingham, Stephen M. Lawrie, Siddharthan Chandran
Software Mentions: 1
Published: over 6 years ago

10.1002/1878-0261.12894

Multiomics integrative analysis reveals antagonistic roles of CBX2 and CBX7 in metabolic reprogramming of breast cancer
Cited by: 17
Author(s): Mohammad Askandar Iqbal, Shumaila Siddiqui, Asad Ur Rehman, Farid Ahmad Siddiqui, Prithvi Singh, Bhupender Kumar, Daman Saluja
Software Mentions: 1
Published: about 5 years ago

10.1534/g3.117.300225

A Deconvolution Protocol for ChIP-Seq Reveals Analogous Enhancer Structures on the Mouse and Human Ribosomal RNA Genes
Cited by: 30
Author(s): Jean-Clément Mars, Marianne Sabourin-Felix, Michel G. Tremblay, Tom Moss
Software Mentions: 1
Published: over 8 years ago

10.1111/mmi.13091

Deciphering the metabolic response of <scp> M </scp> ycobacterium tuberculosis to nitrogen stress
Cited by: 33
Author(s): Katrina Williams, Victoria A Jenkins, Geraint Barton, William A Bryant, Nitya Krishnan, Brian Robertson
Software Mentions: 1
Published: over 10 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: over 5 years ago

10.1371/journal.pone.0053478

Genome-Wide Alteration of Histone H3K9 Acetylation Pattern in Mouse Offspring Prenatally Exposed to Arsenic
Cited by: 83
Author(s): Andrea A. Cronican, Nicholas F. Fitz, Alexis B. Carter, Muzamil Saleem, Sruti Shiva, Aaron Barchowsky, Radosveta Koldamova, Jonathan Schug, Iliya Lefterov
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0109745

Mg2+ Effect on Argonaute and RNA Duplex by Molecular Dynamics and Bioinformatics Implications
Cited by: 9
Author(s): Seungyoon Nam, Hyojung Ryu, Won Son, Yon Hui Kim, Young Ho Kim, Curt Balch, Kenneth P. Nephew, Jinhyuk Lee
Software Mentions: 1
Published: over 11 years ago

10.1186/1471-2407-12-260

Colon cancer molecular subtypes identified by expression profiling and associatedto stroma, mucinous type and different clinical behavior
Cited by: 112
Author(s): Beatriz Pérez-Villamil, Alejandro Romera Lopez, Susana Prieto, Guillermo López–Campos, Antonio Calles, J. A. Asenjo, Julián Sanz-Ortega, Cristina Fernández Pérez, Javier Sastre, Rosario Alfonso, Trinidad Caldés, Fernando Martín-Sánchez, Eduardo Díaz-Rubio
Software Mentions: 1
Published: almost 14 years ago

Projects: bioconductor: ArrayExpress

Science Score: 83/100

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Papers Mentioning ArrayExpress 1,962