Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: bioconductor: affy

https://packages.ecosyste.ms/registries/bioconductor.org/packages/affy

Methods for Affymetrix Oligonucleotide Arrays
1 version
Latest release: about 1 year ago
74 dependent packages
1,755,928 downloads total

Papers Mentioning affy 989

10.1371/journal.pone.0108051
RNA Expression Profiling of Human iPSC-Derived Cardiomyocytes in a Cardiac Hypertrophy Model
Cited by: 45
Author(s): Praful Aggarwal, Amy Turner, Andrea Matter, Steven J. Kattman, Alexander J. Stoddard, Rachel Lorier, Bradley Jay Swanson, Donna K. Arnett, Ulrich Broeckel
Software Mentions: 2
Published: about 10 years ago
10.1371/journal.pone.0012339
Complex Exon-Intron Marking by Histone Modifications Is Not Determined Solely by Nucleosome Distribution
Cited by: 63
Author(s): Pawandeep Dhami, Peter Saffrey, Alexander W. Bruce, Shane C. Dillon, Kelly Chiang, Nicolas Bonhoure, Christof Koch, Jackie Bye, Keith James, Nicola Foad, Peter Ellis, Nicholas A. Watkins, Willem H. Ouwehand, Cordelia Langford, Robert Andrews, Ian Dunham, David Vetrie
Software Mentions: 2
Published: over 14 years ago
10.1371/journal.pone.0097080
Transcription Factors Involved in Prostate Gland Adaptation to Androgen Deprivation
Cited by: 18
Author(s): Rafaela Rosa‐Ribeiro, Umar Nishan, Ramón Vidal, Guilherme Oliveira Barbosa, Leonardo Oliveira Reis, Carlos L. César, Hernandes F. Carvalho
Software Mentions: 2
Published: over 10 years ago
10.1371/journal.pone.0072126
The Nitrate Transporter (NRT) Gene Family in Poplar
Cited by: 79
Author(s): Hua Bai, Dejuan Euring, Katharina Volmer, Dennis Janz, Andrea Polle
Software Mentions: 2
Published: over 11 years ago
10.1371/journal.pone.0053780
Parallel Analysis of mRNA and microRNA Microarray Profiles to Explore Functional Regulatory Patterns in Polycystic Kidney Disease: Using PKD/Mhm Rat Model
Cited by: 55
Author(s): Harsh Dweep, Carsten Sticht, Asawari Kharkar, Priyanka Pandey, Norbert Gretz
Software Mentions: 2
Published: almost 12 years ago
10.1371/journal.pone.0028358
Global Gene Expression Analysis of Murine Limb Development
Cited by: 76
Author(s): Leila Taher, Nicole M. Collette, Deepa K. Murugesh, Evan K. Maxwell, Ivan Ovcharenko, Gabriela G. Loots
Software Mentions: 2
Published: almost 13 years ago
10.18632/aging.104054
Secondary data mining of GEO database for long non-coding RNA and Competing endogenous RNA network in keloid-prone individuals
Cited by: 11
Author(s): Yu Deng, Yangbin Xu, Shuqia Xu, Yujing Zhang, Bing Han, Zheng Liu, Xiangxia Liu, Zhaowei Zhu
Software Mentions: 2
Published: about 4 years ago
10.1371/journal.pone.0035012
Comparative Transcriptional Network Modeling of Three PPAR-α/γ Co-Agonists Reveals Distinct Metabolic Gene Signatures in Primary Human Hepatocytes
Cited by: 15
Author(s): Renée Deehan, Pia Maerz-Weiss, Natalie L. Catlett, Guido Steiner, Ben Wong, Matthew B. Wright, Gil Blander, Keith O. Elliston, William Ladd, María Bobadilla, Jacques Mizrahi, Carolina Haefliger, Alan D. Edgar
Software Mentions: 2
Published: over 12 years ago
10.1371/journal.pone.0181242
Identification of a serum-induced transcriptional signature associated with metastatic cervical cancer
Cited by: 10
Author(s): Anna Palatnik, Shuyun Ye, Christina Kendziorski, Marissa Iden, Jessica S. Zigman, Martin J. Hessner, Janet S. Rader
Software Mentions: 2
Published: about 7 years ago
10.1371/journal.pone.0257232
PIIKA 2.5: Enhanced quality control of peptide microarrays for kinome analysis
Cited by: 1
Author(s): Connor Denomy, Conor Lazarou, Daniel J. Hogan, Antonio Facciuolo, Erin Scruten, Anthony Kusalik, Scott Napper
Software Mentions: 2
Published: about 3 years ago
10.1186/1471-2407-13-175
Systematic antibody generation and validation via tissue microarray technology leading to identification of a novel protein prognostic panel in breast cancer
Cited by: 45
Author(s): Patrick C O ́Leary, Sarah Penny, Roisin T. Dolan, Catherine M. Kelly, Stephen F. Madden, Elton Rexhepaj, Donal J. Brennan, Amanda McCann, Fredrik Pontén, Mathias Uhlén, Radosław Zagożdżon, Michael J. Duffy, Malcolm R. Kell, Karin Jirström, William M. Gallagher
Software Mentions: 2
Published: over 11 years ago
10.1371/journal.pone.0057356
Clinical and Biological Relevance of Genomic Heterogeneity in Chronic Lymphocytic Leukemia
Cited by: 4
Author(s): Daphne R. Friedman, Joseph E. Lucas, J. Brice Weinberg
Software Mentions: 2
Published: over 11 years ago
10.1371/journal.pone.0044998
Myelin-Derived Lipids Modulate Macrophage Activity by Liver X Receptor Activation
Cited by: 54
Author(s): Jeroen F. J. Bogie, Silke Timmermans, Vân Anh Huynh-Thu, Alexandre Irrthum, Hubert J.M. Smeets, Jan Åke Gustafsson, Knut R. Steffensen, Monique Mulder, Piet Stinissen, Niels Hellings, Jerome J. A. Hendriks
Software Mentions: 2
Published: about 12 years ago
10.1186/s12885-018-4421-7
Development of a computational promoter with highly efficient expression in tumors
Cited by: 2
Author(s): Shu Yi Ho, Bo Chang, Chen Han Chung, Yuling Lin, Ching-Te Chuang, Pei Jung Hsieh, Wei Huang, Nu‐Man Tsai, Sheng Chieh Huang, Yen Ku Liu, Yu Chih Lo, Kuang Wen Liao
Software Mentions: 2
Published: over 6 years ago
10.1371/journal.pone.0190709
Oral mucosa tissue gene expression profiling before, during, and after radiation therapy for tonsil squamous cell carcinoma
Cited by: 10
Author(s): Mette Marcussen, Mads Sønderkær, Julie Støve Bødker, Maria Andersen, Søren Laurentius Nielsen, Charles Vesteghem, Ilse Christiansen, Olav J. Bergmann, Martin Bøgsted, Karen Dybkær, Mogens Vyberg, Hans Erik Johnsen
Software Mentions: 2
Published: almost 7 years ago
10.1371/journal.pone.0071425
Analysis of Genome-Wide Changes in the Translatome of Arabidopsis Seedlings Subjected to Heat Stress
Cited by: 93
Author(s): Emilio Yángüez, Ana B. Castro-Sanz, Nuria Fernández-Bautista, Juan Carlos Oliveros, M. Mar Castellano
Software Mentions: 2
Published: over 11 years ago
10.1371/journal.pone.0084117
Evolution of Human Longevity Uncoupled from Caloric Restriction Mechanisms
Cited by: 12
Author(s): Guodong Zhao, Songlin Guo, Mehmet Somel, Philipp Khaitovich
Software Mentions: 2
Published: almost 11 years ago
10.1371/journal.pone.0088896
Long-Term Effects of Gestational Nicotine Exposure and Food-Restriction on Gene Expression in the Striatum of Adolescent Rats
Cited by: 5
Author(s): Nicholas E. Ilott, Tomasz Schneider, Jonathan Mill, Leonard C. Schalkwyk, Giovana Brolese, Lisiane Bizarro, I. P. Stolerman, Emma Dempster, Philip Asherson
Software Mentions: 2
Published: almost 11 years ago
10.1371/journal.pone.0002339
The Aged Retinal Pigment Epithelium/Choroid: A Potential Substratum for the Pathogenesis of Age-Related Macular Degeneration
Cited by: 108
Author(s): Huiyi Chen, Bin Liu, Thomas J. Lukas, Arthur H. Neufeld
Software Mentions: 2
Published: over 16 years ago
10.1371/journal.pone.0008949
An Integrated Mass-Spectrometry Pipeline Identifies Novel Protein Coding-Regions in the Human Genome
Cited by: 26
Author(s): Danny A. Bitton, Duncan L. Smith, Yvonne Connolly, Paul J. Scutt, Crispin Miller
Software Mentions: 2
Published: almost 15 years ago
10.1371/journal.pone.0020509
Deep Sequencing Reveals Novel MicroRNAs and Regulation of MicroRNA Expression during Cell Senescence
Cited by: 71
Author(s): Joseph M. Dhahbi, Hani Atamna, Dario Boffelli, Wendy Magis, Stephen R. Spindler, David I. K. Martin
Software Mentions: 2
Published: over 13 years ago
10.1371/journal.pone.0124283
High EMT Signature Score of Invasive Non-Small Cell Lung Cancer (NSCLC) Cells Correlates with NFκB Driven Colony-Stimulating Factor 2 (CSF2/GM-CSF) Secretion by Neighboring Stromal Fibroblasts
Cited by: 36
Author(s): Albin Rudisch, Matthew R. Dewhurst, Luminita Gabriela Horga, Nina Kramer, Nathalie Harrer, Di Meng, Heiko van der Kuip, Andreas Wernitznig, Andreas Bernthaler, Helmut Dolznig, Wolfgang Sommergruber
Software Mentions: 2
Published: over 9 years ago
10.1186/1741-7007-10-16
Imbalance of heterologous protein folding and disulfide bond formation rates yields runaway oxidative stress
Cited by: 70
Author(s): Keith E.J. Tyo, Zihe Liu, Dina Petranović, Jens Nielsen
Software Mentions: 2
Published: over 12 years ago
10.1371/journal.pone.0125334
Not Just a Sum? Identifying Different Types of Interplay between Constituents in Combined Interventions
Cited by: 1
Author(s): Katrijn Van Deun, Lieven Thorrez, Robert A. van den Berg, Age K. Smilde, Iven Van Mechelen
Software Mentions: 2
Published: over 9 years ago
10.1186/1471-2105-12-46
GCOD - GeneChip Oncology Database
Cited by: 16
Author(s): Fenglong Liu, Joseph A. White, Corina Antonescu, Daniel Gusenleitner, John Quackenbush
Software Mentions: 2
Published: almost 14 years ago
10.1371/journal.pone.0078497
Optimized Probe Masking for Comparative Transcriptomics of Closely Related Species
Cited by: 5
Author(s): Yvonne Poeschl, Carolin Delker, Jana Trenner, Kristian K. Ullrich, Marcel Quint, Ivo Große
Software Mentions: 2
Published: about 11 years ago
10.1371/journal.pone.0019541
Gitools: Analysis and Visualisation of Genomic Data Using Interactive Heat-Maps
Cited by: 232
Author(s): Christian Perez-Llamas, Núria López‐Bigas
Software Mentions: 2
Published: over 13 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: about 15 years ago
10.1186/1471-2105-5-111
Cited by: 116
Author(s): Laurent Gautier, Morten Hylander Møller, Lennart Friis‐Hansen, Steen Knudsen
Software Mentions: 2
Published: almost 21 years ago
10.1038/onc.2017.25
CTCF genetic alterations in endometrial carcinoma are pro-tumorigenic
Cited by: 43
Author(s): Amy D. Marshall, Charles G. Bailey, K Champ, Melissa Vellozzi, Patrick O’Young, Cynthia Metierre, Yongmei Feng, Annora Thoeng, Anthony Richards, Ulf Schmitz, Maté Biro, Reyka G. Jayasinghe, Ding Li, Lyndal Anderson, Elaine R. Mardis, John E.J. Rasko
Software Mentions: 2
Published: over 7 years ago
10.1371/journal.pone.0043915
Mechanisms of Dietary Response in Mice and Primates: A Role for EGR1 in Regulating the Reaction to Human-Specific Nutritional Content
Cited by: 3
Author(s): Kai Weng, Haiyang Hu, Guohua Xu, Philipp Khaitovich, Mehmet Somel
Software Mentions: 2
Published: over 12 years ago
10.1371/journal.pone.0005657
Highly Active Microbial Phosphoantigen Induces Rapid yet Sustained MEK/Erk- and PI-3K/Akt-Mediated Signal Transduction in Anti-Tumor Human γδ T-Cells
Cited by: 47
Author(s): Daniel V. Correia, Francisco d’Orey, Bruno Cardoso, Telma Lança, Ana Rita Grosso, Ana deBarros, Leila R. Martins, João T. Barata, Bruno Silva‐Santos
Software Mentions: 2
Published: over 15 years ago
10.1371/journal.pone.0167599
Diffuse Large B Cell Lymphoma Cell Line U-2946: Model for MCL1 Inhibitor Testing
Cited by: 9
Author(s): Hilmar Quentmeier, Hans G. Drexler, Vivien Hauer, Roderick A.F. MacLeod, Claudia Pommerenke, Cord C. Uphoff, Margarete Zaborski, Mattias Berglund, Gunilla Enblad, Rose‐Marie Amini
Software Mentions: 2
Published: almost 8 years ago
10.1371/journal.pone.0077380
Transcriptional Response to Deletion of the Phosphatidylserine Decarboxylase Psd1p in the Yeast Saccharomyces cerevisiae
Cited by: 11
Author(s): Martina Gsell, Gerald Mascher, Irmgard Schuiki, Birgit Ploier, Claudia Hrastnik, Günther Daum
Software Mentions: 2
Published: about 11 years ago
10.3390/cancers12071870
SNAIL Promotes Metastatic Behavior of Rhabdomyosarcoma by Increasing EZRIN and AKT Expression and Regulating MicroRNA Networks
Cited by: 13
Author(s): Klaudia Skrzypek, Marta Kot, Paweł Konieczny, Artur Nieszporek, Anna Kusienicka, Małgorzata Lasota, Wojciech Bobela, Urszula Jankowska, Sylwia Kędracka–Krok, Marcin Majka
Software Mentions: 2
Published: over 4 years ago
10.3390/cancers13030482
Polycythemia Vera and Essential Thrombocythemia Patients Exhibit Unique Serum Metabolic Profiles Compared to Healthy Individuals and Secondary Thrombocytosis Patients
Cited by: 1
Author(s): Nuria Gómez-Cebrián, Ayelén Rojas-Benedicto, Arturo Albors-Vaquer, Beatríz Bellosillo, Carlos Besses, Joaquín Martínez‐López, Antonio Pineda‐Lucena, Leonor Puchades‐Carrasco
Software Mentions: 2
Published: almost 4 years ago
10.1371/journal.pone.0069082
Utilization of Never-Medicated Bipolar Disorder Patients towards Development and Validation of a Peripheral Biomarker Profile
Cited by: 29
Author(s): Catherine L. Clelland, Laura L. Read, Laura J. Panek, Robert H. Nadrich, Carter Bancroft, James D. Clelland
Software Mentions: 2
Published: over 11 years ago
10.3390/cancers12092498
Drug Vulnerabilities and Disease Prognosis Linked to the Stem Cell-Like Gene Expression Program Triggered by the RHO GTPase Activator VAV2 in Hyperplastic Keratinocytes and Head and Neck Cancer
Cited by: 7
Author(s): L. Francisco Lorenzo‐Martín, Mauricio Menacho‐Marquez, Xosé R. Bustelo
Software Mentions: 2
Published: about 4 years ago
10.3390/cancers13092252
A DNA Repair and Cell Cycle Gene Expression Signature in Pediatric High-Grade Gliomas: Prognostic and Therapeutic Value
Cited by: 2
Author(s): Natacha Entz‐Werlé, Laetitia Poidevin, Petr V. Nazarov, Olivier Poch, Benoît Lhermitte, Marie Pierre Chenard, Hélène Burckel, Éric Guérin, Quentin Fuchs, David Castel, Georges Noël, Laurence Choulier, Monique Dontenwill, Eric Van Dyck
Software Mentions: 2
Published: over 3 years ago
10.1371/journal.pone.0091272
Increasing Consistency of Disease Biomarker Prediction Across Datasets
Cited by: 5
Author(s): Maria Chikina, Stuart C. Sealfon
Software Mentions: 2
Published: over 10 years ago
10.1186/1478-811X-12-24
Mesenchymal to amoeboid transition is associated with stem-like features of melanoma cells
Cited by: 67
Author(s): Maria Letizia Taddei, Elisa Giannoni, Andrea Morandi, Luigi Ippolito, Matteo Ramazzotti, Maurizio Callari, Paolo Gandellini, Paola Chiarugi
Software Mentions: 2
Published: over 10 years ago
10.1038/cdd.2017.62
Nucleosome eviction along with H3K9ac deposition enhances Sox2 binding during human neuroectodermal commitment
Cited by: 17
Author(s): Yanhua Du, Zhenping Liu, Xi Cao, Xiaolong Chen, Zhenyu Chen, Xiaobai Zhang, Xiaoqing Zhang, Cizhong Jiang
Software Mentions: 2
Published: over 7 years ago
10.1038/s41419-018-0476-2
Inhibition of cancer progression by a novel trans-stilbene derivative through disruption of microtubule dynamics, driving G2/M arrest, and p53-dependent apoptosis
Cited by: 35
Author(s): Pravat Kumar Parida, Barun Mahata, Abhisek Santra, Sohini Chakraborty, Zhumur Ghosh, Sanghamitra Raha, Anup Kumar Misra, Kaushik Biswas, Kuladip Jana
Software Mentions: 2
Published: over 6 years ago
10.1038/cddis.2015.48
KLF17 empowers TGF-β/Smad signaling by targeting Smad3-dependent pathway to suppress tumor growth and metastasis during cancer progression
Cited by: 44
Author(s): Amjad Ali, P Zhang, Y Liangfang, S Wenshe, H Wang, Lin Xiao, Yaozhang Dai, Feng Xh, Robb E. Moses, D Wang, Li X, Jianru Xiao
Software Mentions: 2
Published: over 9 years ago
10.1038/s41419-021-03630-x
HomeoboxC6 promotes metastasis by orchestrating the DKK1/Wnt/β-catenin axis in right-sided colon cancer
Cited by: 13
Author(s): Ling Qi, Jiani Chen, Biting Zhou, Kailun Xu, Kailai Wang, Zhihao Fang, Yingkuan Shao, Ying Yuan, Shu Zheng, Wangxiong Hu
Software Mentions: 2
Published: over 3 years ago
10.1038/s41419-021-04109-5
CXCL12/CXCR4 axis as a key mediator in atrial fibrillation via bioinformatics analysis and functional identification
Cited by: 19
Author(s): Peng Liu, Hongke Sun, Xin Zhou, Qiaozhu Wang, Feng Gao, Yuping Fu, Tong Li, Yixin Wang, Yingqi Li, Boyuan Fan, Xiaoli Li, Tiannan Jiang, Xinghua Qin, Qiangsun Zheng
Software Mentions: 2
Published: about 3 years ago
10.1038/s41420-021-00517-w
Mortalin/glucose-regulated protein 75 promotes the cisplatin-resistance of gastric cancer via regulating anti-oxidation/apoptosis and metabolic reprogramming
Cited by: 8
Author(s): Yi Dai, Li Fan, Yuwen Jiao, Guoguang Wang, Tian Zhan, Youyi Xia, Hanyang Liu, Haojun Yang, Jian-Ping Zhang, Liming Tang
Software Mentions: 2
Published: over 3 years ago
10.1038/s41420-020-00376-x
A blood transcriptome-based analysis of disease progression, immune regulation, and symptoms in coronavirus-infected patients
Cited by: 23
Author(s): Anguraj Sadanandam, Tobias Bopp, Santosh Dixit, David J.H.F. Knapp, Chitra Priya Emperumal, Paschalis Vergidis, Krishnaraj Rajalingam, Alan Melcher, Nagarajan Kannan
Software Mentions: 2
Published: almost 4 years ago
10.1186/1471-2105-8-48
Improved precision and accuracy for microarrays using updated probe set definitions
Cited by: 153
Author(s): Rickard Sandberg, Ola Larsson
Software Mentions: 2
Published: almost 18 years ago
10.1371/journal.pone.0045551
Scaling Proprioceptor Gene Transcription by Retrograde NT3 Signaling
Cited by: 15
Author(s): Jun Lee, Andreas Friese, Monika Mielich, Markus W. Sigrist, Silvia Arber
Software Mentions: 2
Published: about 12 years ago
10.1371/journal.pone.0145748
Escherichia coli under Ionic Silver Stress: An Integrative Approach to Explore Transcriptional, Physiological and Biochemical Responses
Cited by: 19
Author(s): Claire Saulou‐Bérion, Ignacio González, Brice Enjalbert, Jean‐Nicolas Audinot, Isabelle Fourquaux, Frédéric Jamme, Muriel Cocaign‐Bousquet, Muriel Mercier‐Bonin, Laurence Girbal
Software Mentions: 2
Published: almost 9 years ago
10.1038/s42003-021-02215-w
Actin cytoskeleton deregulation confers midostaurin resistance in FLT3-mutant acute myeloid leukemia
Cited by: 11
Author(s): Andoni Garitano‐Trojaola, Ana Sancho, Roland Götz, Patrick Eiring, Susanne Walz, Hardikkumar Jetani, Jesus Gil‐Pulido, Matteo Claudio Da Vià, Eva Teufel, Nadine Rhodes, Larissa Haertle, Estibaliz Arellano-Viera, Raoul Tibes, Andreas Rosenwald, Leo Rasche, Michael Hudecek, Markus Sauer, Jürgen Gröll, Hermann Einsele, Sabrina Kraus, Martin Kortüm
Software Mentions: 2
Published: over 3 years ago
10.1155/2011/245137
Gene Expression Profiling in Human High-Grade Astrocytomas
Cited by: 24
Author(s): Zhongyu Liu, Zhiqiang Yao, Chao Li, Yao Lu, Chunfang Gao
Software Mentions: 2
Published: almost 14 years ago
10.1371/journal.pone.0086538
Loss of CD34 Expression in Aging Human Choriocapillaris Endothelial Cells
Cited by: 18
Author(s): Elliott H. Sohn, Miles J. Flamme-Wiese, S. Scott Whitmore, Kai Wang, Budd A. Tucker, Robert F. Mullins
Software Mentions: 2
Published: almost 11 years ago
10.1371/journal.pone.0109847
IgG4 Immunostaining and Its Implications in Orbital Inflammatory Disease
Cited by: 38
Author(s): Amanda Wong, Stephen R. Planck, Dongseok Choi, Christina A. Harrington, Megan L. Troxell, Donald C. Houghton, Patrick Stauffer, David J. Wilson, Hans E. Grossniklaus, Roger A. Dailey, John D. Ng, Eric A. Steele, Gerald J. Harris, Craig N. Czyz, Jill A. Foster, Valerie A. White, Peter J. Dolman, Michael Kazim, Payal Patel, Deepak P. Edward, Hind Al Katan, Hailah Al Hussain, Dinesh Selva, R. Patrick Yeatts, Bobby S. Korn, Don O. Kikkawa
Software Mentions: 2
Published: about 10 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 9 years ago
10.1371/journal.pgen.1003953
MYB10 and MYB72 Are Required for Growth under Iron-Limiting Conditions
Cited by: 182
Author(s): Christine M. Palmer, Maria N. Hindt, Holger Schmidt, Stephan Clemens, Mary Lou Guerinot
Software Mentions: 2
Published: about 11 years ago
10.1371/journal.pgen.1000621
Penetration of the Stigma and Style Elicits a Novel Transcriptome in Pollen Tubes, Pointing to Genes Critical for Growth in a Pistil
Cited by: 300
Author(s): Yuan Qin, Alexander R. Leydon, Ann Manziello, Ritu Pandey, David W. Mount, Stojan Denic, Bane Vasić, Mark A. Johnson, Ravishankar Palanivelu
Software Mentions: 2
Published: about 15 years ago
10.15252/emmm.201303675
<i><scp>RARRES</scp>3</i> suppresses breast cancer lung metastasis by regulating adhesion and differentiation
Cited by: 60
Author(s): M.L González Morales, Enrique J. Arenas, Jelena Urosevic, Marc Guiu, Esther Fernández, Evarist Planet, R. Bryn Fenwick, Sonia Fernández-Ruiz, Xavier Salvatella, David Reverter, Arkaitz Carracedo, Joan Massagué, Roger R. Gomis
Software Mentions: 2
Published: over 10 years ago
10.1371/journal.pgen.1007399
Germline mutations and somatic inactivation of TRIM28 in Wilms tumour
Cited by: 39
Author(s): Benjamin J. Halliday, Ryuji Fukuzawa, David Markie, Richard G. Grundy, Jackie L. Ludgate, Michael A. Black, Jane Skeen, Robert J. Weeks, Daniel Catchpoole, Aedan Roberts, Anthony E. Reeve, Ian M. Morison
Software Mentions: 2
Published: over 6 years ago
10.2217/epi-2017-0029
Defining baseline epigenetic landscapes in the rat liver
Cited by: 5
Author(s): John P. Thomson, Raffaele Ottaviano, Roland Buesen, Jonathan G. Moggs, Michael Schwarz, Richard R. Meehan
Software Mentions: 2
Published: almost 7 years ago
10.1186/1471-2105-6-166
Cited by: 49
Author(s): Mark Reimers, John N. Weinstein
Software Mentions: 2
Published: almost 20 years ago
10.12688/f1000research.3818.2
Systems analysis of the prostate tumor suppressor NKX3.1 supports roles in DNA repair and luminal cell differentiation
Cited by: 5
Author(s): Changjun Yang, Alicia S. Chung, Chia‐Yu Ku, Laurence M. Brill, Roy Williams, David E. Wolf
Software Mentions: 2
Published: almost 10 years ago
10.12688/f1000research.4524.1
KEGGscape: a Cytoscape app for pathway data integration
Cited by: 63
Author(s): Kozo Nishida, Keiichiro Ono, Shigehiko Kanaya, Koichi Takahashi
Software Mentions: 2
Published: over 10 years ago
10.1371/journal.pgen.1001142
Altering a Histone H3K4 Methylation Pathway in Glomerular Podocytes Promotes a Chronic Disease Phenotype
Cited by: 54
Author(s): G. Lefèvre, Sanjeevkumar R. Patel, Doyeob Kim, Lino Tessarollo, Gregory R. Dressler
Software Mentions: 2
Published: about 14 years ago
10.1186/1471-2105-12-180
A Simple Approach to Ranking Differentially Expressed Gene Expression Time Courses through Gaussian Process Regression
Cited by: 86
Author(s): Freddie Kalaitzis, Neil D. Lawrence
Software Mentions: 2
Published: over 13 years ago
10.1186/1471-2105-7-12
Utilization of two sample t-test statistics from redundant probe sets to evaluate different probe set algorithms in GeneChip studies
Cited by: 13
Author(s): Zihua Hu, Gail R. Willsky
Software Mentions: 2
Published: almost 19 years ago
10.1371/journal.pcbi.1003210
How MicroRNA and Transcription Factor Co-regulatory Networks Affect Osteosarcoma Cell Proliferation
Cited by: 68
Author(s): Kathrin Poos, Jan Smida, Michaela Nathrath, Doris Maugg, Daniel Baumhoer, Eberhard Korsching
Software Mentions: 2
Published: about 11 years ago
10.1186/1471-2105-7-211
Assessment of the relationship between pre-chip and post-chip quality measures for Affymetrix GeneChip expression data
Cited by: 34
Author(s): Lesley Jones, Darlene R. Goldstein, Gareth Hughes, Andrew D. Strand, François Collin, Stephen B. Dunnett, Charles Kooperberg, Aaron K. Aragaki, James M. Olson, Sarah J. Augood, Richard L.M. Faull, Ruth Lüthi-Carter, Valentina Moskvina, Angela Hodges
Software Mentions: 2
Published: over 18 years ago
10.1371/journal.pcbi.1000786
Making Informed Choices about Microarray Data Analysis
Cited by: 56
Author(s): Mark Reimers
Software Mentions: 2
Published: over 14 years ago
10.1371/journal.pcbi.1000166
Network Inference Algorithms Elucidate Nrf2 Regulation of Mouse Lung Oxidative Stress
Cited by: 83
Author(s): Ron Taylor, George Acquaah‐Mensah, Mudita Singhal, Deepti Malhotra, Shyam Biswal
Software Mentions: 2
Published: about 16 years ago
10.1371/journal.pcbi.1000189
Removal of AU Bias from Microarray mRNA Expression Data Enhances Computational Identification of Active MicroRNAs
Cited by: 8
Author(s): Ran Elkon, Reuven Agami
Software Mentions: 2
Published: about 16 years ago
10.1371/journal.pcbi.1002217
Thousands of Rab GTPases for the Cell Biologist
Cited by: 171
Author(s): Yoan Diekmann, Elsa Seixas, Marc Gouw, Filipe Tavares-Cadete, Miguel C. Seabra, José B. Pereira-Leal
Software Mentions: 2
Published: about 13 years ago
10.3389/fcell.2021.651913
The Transcription Factor C/EBPβ Promotes HFL-1 Cell Migration, Proliferation, and Inflammation by Activating lncRNA HAS2-AS1 in Hypoxia
Cited by: 5
Author(s): Xue Yang, Fei Qi, Shanchen Wei, Lin Li, Xinmin Liu
Software Mentions: 2
Published: over 3 years ago
10.3389/fendo.2019.00472
Identification of Seven Aberrantly Methylated and Expressed Genes in Adrenocortical Carcinoma
Cited by: 5
Author(s): He Xiao, Weixiang He, Ping Chen, Dongmei Xu, Guang Zeng, Zhuo Li, Mingliu Huang, Xinghuan Wang, Michael E. DiSanto, Xinhua Zhang
Software Mentions: 2
Published: over 5 years ago
10.1186/1471-2105-11-156
Delineation of amplification, hybridization and location effects in microarray data yields better-quality normalization
Cited by: 4
Author(s): Marc Hulsman, Anouk Mentink, Eugene P. van Someren, Koen J. Dechering, Jan de Boer, Marcel J. T. Reinders
Software Mentions: 2
Published: over 14 years ago
10.1111/tpj.13124
Meta‐analysis and meta‐regression of transcriptomic responses to water stress in Arabidopsis
Cited by: 36
Author(s): Joshua S. Rest, Olivia Wilkins, Yuan Wei, Michael D. Purugganan, Jessica Gurevitch
Software Mentions: 2
Published: almost 9 years ago
10.3390/pharmaceutics11120677
Transcriptome-Guided Drug Repositioning
Cited by: 11
Author(s): Arsen Arakelyan, Lilit Nersisyan, Maria Nikoghosyan, Siras Hakobyan, Arman Simonyan, Lydia Hopp, Henry Loeffler‐Wirth, Hans Binder
Software Mentions: 2
Published: almost 5 years ago
10.3389/fgene.2020.00401
Immune-Related Prognostic Model in Colon Cancer: A Gene Expression-Based Study
Cited by: 4
Author(s): Haojie Yang, Wei Jin, Lun Hua, Dan Gan, Can Cui, Changpeng Han, Zhenyi Wang
Software Mentions: 2
Published: over 4 years ago
10.7717/peerj.7872
Identification of potential biomarkers and pivotal biological pathways for prostate cancer using bioinformatics analysis methods
Cited by: 11
Author(s): Zihao He, Xiaolu Duan, Guohua Zeng
Software Mentions: 2
Published: about 5 years ago
10.3390/ijms17050776
Integrated Analysis of Expression Profile Based on Differentially Expressed Genes in Middle Cerebral Artery Occlusion Animal Models
Cited by: 9
Author(s): Huaqiang Zhou, Zeting Qiu, Gao S, Qinchang Chen, Si Li, Wulin Tan, Xiaochen Liu, Zhongxing Wang
Software Mentions: 2
Published: over 8 years ago
10.3389/fgene.2020.00641
Neutrophils, Crucial, or Harmful Immune Cells Involved in Coronavirus Infection: A Bioinformatics Study
Cited by: 68
Author(s): Nima Hemmat, Afshin Derakhshani, Hossein Bannazadeh Baghi, Nicola Silvestris, Behzad Baradaran, Simona De Summa
Software Mentions: 2
Published: over 4 years ago
10.1111/mmi.14250
Defining the regulon of genes controlled by σ<sup>E</sup>, a key regulator of the cell envelope stress response in<i>Streptomyces coelicolor</i>
Cited by: 21
Author(s): Ngat T. Tran, Xiangyan Huang, Hee‐Jeon Hong, Matthew J. Bush, Govind Chandra, Daniela Pinto, Maureen J. Bibb, Matthew I. Hutchings, Thorsten Mascher, Mark J. Buttner
Software Mentions: 2
Published: over 5 years ago
10.3892/mmr.2015.3745
Involvement of enhancer of zeste homolog 2 in cisplatin-resistance in ovarian cancer cells by interacting with several genes
Cited by: 7
Author(s): Huali Wang, Yunhai Yu, Chen Chen, Qian Wang, Taiyi Huang, Fangzhen Hong, Lin Zhu
Software Mentions: 2
Published: over 9 years ago
10.3389/fgene.2013.00209
A comprehensive promoter landscape identifies a novel promoter for CD133 in restricted tissues, cancers, and stem cells
Cited by: 9
Author(s): Ramakrishna Sompallae, Oliver Hofmann, Christopher A. Maher, Craig Gedye, Andreas Behren, Morana Vitezic, Carsten O. Daub, Sylvie Devalle, Otávia L. Caballero, Piero Carninci, Yoshihide Hayashizaki, Elizabeth R. Lawlor, Jonathan Cebon, Winston Hide
Software Mentions: 2
Published: almost 12 years ago
10.3389/fgene.2020.586688
Systematic Analysis of Competing Endogenous RNA Networks in Diffuse Large B-Cell Lymphoma and Hodgkin’s Lymphoma
Cited by: 6
Author(s): Jisoo Kang, Ping Yao, Qiang Tang, Ying Wang, Yuwei Zhou, Jian Huang
Software Mentions: 2
Published: about 4 years ago
10.3892/mmr.2015.3335
Analysis of mechanical ventilation and lipopolysaccharide-induced acute lung injury using DNA microarray analysis
Cited by: 4
Author(s): Yuqing Chen, Xin Zhou, Ling Rong
Software Mentions: 2
Published: almost 10 years ago
10.3389/fgene.2020.562967
Long Non-coding RNA LINC01094 Promotes the Development of Clear Cell Renal Cell Carcinoma by Upregulating SLC2A3 via MicroRNA-184
Cited by: 20
Author(s): Haowen Xu, Xiaolin Wang, Jiacheng Wu, Hao Ji, Zhigang Chen, Haifeng Guo, Jianquan Hou
Software Mentions: 2
Published: about 4 years ago
10.3892/mmr.2014.2766
Expression analysis of the estrogen receptor target genes in renal cell carcinoma
Cited by: 8
Author(s): Zhihong Liu, You Lü, Zongling He, Libo Chen, Yiping Lu
Software Mentions: 2
Published: about 10 years ago
10.1002/mgg3.607
The promising novel biomarkers and candidate small molecule drugs in kidney renal clear cell carcinoma: Evidence from bioinformatics analysis of high‐throughput data
Cited by: 31
Author(s): Bo Zhang, Qiong Wu, Ziheng Wang, Ran Xu, Xinyi Hu, Yidan Sun, Qiuhong Wang, Fei Ju, Shengxiang Ren, Chenlin Zhang, Qin Lin, Qianqian Ma, You Zhou
Software Mentions: 2
Published: almost 6 years ago
10.1002/mgg3.857
Identification and analysis of genes associated with head and neck squamous cell carcinoma by integrated bioinformatics methods
Cited by: 18
Author(s): Jianhua Yu, Ya Yang
Software Mentions: 2
Published: over 5 years ago
10.1002/mgg3.713
Identification of novel biomarkers and small molecule drugs in human colorectal cancer by microarray and bioinformatics analysis
Cited by: 28
Author(s): Juan Chen, Ziheng Wang, Xianjuan Shen, Xiaopeng Cui, Yijun Guo
Software Mentions: 2
Published: over 5 years ago
10.1002/mgg3.1391
Overexpression of <i>SNTG2, TRAF3IP2,</i> and <i>ITGA6</i> transcripts is associated with osteoporotic vertebral fracture in elderly women from community
Cited by: 8
Author(s): Levi H. Jales Neto, Zofia Wicik, Geórgea Hermógenes Fernandes Torres, Liliam Takayama, Valéria F. Caparbo, Neuza Lopes, Alexandre C. Pereira, Rosa Maria Rodrigues Pereira
Software Mentions: 2
Published: over 4 years ago
10.3390/ijms18122685
Significant Down-Regulation of “Biological Adhesion” Genes in Porcine Oocytes after IVM
Cited by: 10
Author(s): Joanna Budna, Piotr Celichowski, Artur Bryja, Marta Dyszkiewicz-Konwińska, Michal Ješeta, Dorota Bukowska, Paweł Antosik, Klaus‐Peter Brüssow, M Bruska, Michał Nowicki, Maciej Zabel, Bartosz Kempisty
Software Mentions: 2
Published: almost 7 years ago
10.1186/1476-4598-12-106
Expression profiling of ion channel genes predicts clinical outcome in breast cancer
Cited by: 85
Author(s): Jae Hong Ko, Eun A. Ko, Wanjun Gu, Inja Lim, Hyoweon Bang, Tong Zhou
Software Mentions: 2
Published: about 11 years ago
10.1186/1476-4598-11-71
microRNA-146a inhibits G protein-coupled receptor-mediated activation of NF-κB by targeting CARD10 and COPS8 in gastric cancer
Cited by: 93
Author(s): Stephanie Crone, Anders Jacobsen, Birgitte Federspiel, Linda Bardram, Anders Krogh, Anders H. Lund, Lennart Friis‐Hansen
Software Mentions: 2
Published: about 12 years ago
10.3389/fimmu.2020.586124
Immune Profiles Identification by Vaccinomics After MVA Immunization in Randomized Clinical Study
Cited by: 6
Author(s): Jorge Sánchez, Eléna Gonçalves, Anuska Llano, Pedro Gonzáles, María Fernández-Maldonado, Annika Vogt, Angèle Soria, Susana Cedrés Pérez, Samandhy Cedeño, Marco A. Fernández, Julien Nourikyan, Simon Bernard, Carmela Ganoza, Eric Pédruzzi, Olivia Bonduelle, Beatriz Mothe, Carmen Elena Gómez, Mariano Esteban, Felipe García, Javier R. Lama, Christian Berthou, Béhazine Combadière
Software Mentions: 2
Published: about 4 years ago
10.1186/1476-4598-10-29
miR-449 inhibits cell proliferation and is down-regulated in gastric cancer
Cited by: 199
Author(s): Tony Bou Kheir, Ewa Futoma-Kazmierczak, Anders Jacobsen, Anders Krogh, Linda Bardram, Christoffer Hother, Kirsten Grønbæk, Birgitte Federspiel, Anders H. Lund, Lennart Friis‐Hansen
Software Mentions: 2
Published: over 13 years ago
10.3389/fmed.2020.619453
Association of Cigarette Smoking, COPD, and Lung Cancer With Expression of SARS-CoV-2 Entry Genes in Human Airway Epithelial Cells
Cited by: 11
Author(s): Youlun Ju, Brigitte Kasper, Frank Petersen, Xinhua Yu
Software Mentions: 2
Published: almost 4 years ago
10.3389/fmicb.2015.01521
Global Regulation of Gene Expression by the MafR Protein of Enterococcus faecalis
Cited by: 16
Author(s): Sofía Ruiz‐Cruz, Manuel Espinosa, Oliver Goldmann, Alicia Bravo
Software Mentions: 2
Published: almost 9 years ago