Transcriptomic methods

ISSN: 1471-2164 (Online)

In this topical collection (638 articles)

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  1. Methodology article

    Systematic exploration of autonomous modules in noisy microRNA-target networks for testing the generality of the ceRNA hypothesis

    Danny Kit-Sang Yip, Iris K Pang, Kevin Y Yip Article:1178
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  2. Research article

    Evaluation and validation of a robust single cell RNA-amplification protocol through transcriptional profiling of enriched lung cancer initiating cells

    Dominic G Rothwell, Yaoyong Li, Mahmood Ayub, Catriona Tate, Gillian Newton… Article:1129
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  3. Research article

    Transcriptomic signatures of peroxisome proliferator-activated receptor α (PPARα) in different mouse liver models identify novel aspects of its biology

    Ewa Szalowska, Haftu A Tesfay, Sacha A F T van Hijum, Sander Kersten Article:1106
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  4. Research article

    De novo transcriptome sequencing and analysis of Coccinella septempunctata L. in non-diapause, diapause and diapause-terminated states to identify diapause-associated genes

    Xiaoyang Qi, Lisheng Zhang, Yanhua Han, Xiaoyun Ren, Jian Huang… Article:1086
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  5. Research article

    Reconstruction of temporal activity of microRNAs from gene expression data in breast cancer cell line

    Naresh Doni Jayavelu, Nadav Bar Article:1077
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  6. Research article

    Comprehensive evaluation of AmpliSeq transcriptome, a novel targeted whole transcriptome RNA sequencing methodology for global gene expression analysis

    Wenli Li, Amy Turner, Praful Aggarwal, Andrea Matter, Erin Storvick… Article:1069
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  7. Methodology article

    Leveraging global gene expression patterns to predict expression of unmeasured genes

    James Rudd, René A. Zelaya, Eugene Demidenko, Ellen L. Goode… Article:1065
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  8. Methodology article

    De novo prediction of cis-regulatory elements and modules through integrative analysis of a large number of ChIP datasets

    Meng Niu, Ehsan S Tabari, Zhengchang Su Article:1047
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  9. Research article

    High-throughput transcriptomics reveals common and strain-specific responses of human macrophages to infection with Mycobacterium abscessus Smooth and Rough variants

    Anna Aulicino, Adam M. Dinan, Aleksandra A. Miranda-CasoLuengo… Article:1046
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  10. Research article

    Transcriptome structure variability in Saccharomyces cerevisiae strains determined with a newly developed assembly software

    Alessandro Sardu, Laura Treu, Stefano Campanaro Article:1045
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  11. Research article

    A human 3′UTR clone collection to study post-transcriptional gene regulation

    Kasuen Kotagama, Cody S. Babb, Justin M. Wolter, Ronan P. Murphy… Article:1036
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  12. Methodology article

    Removal of redundant contigs from de novo RNA-Seq assemblies via homology search improves accurate detection of differentially expressed genes

    Hanako Ono, Kazuo Ishii, Toshinori Kozaki, Isao Ogiwara, Motoki Kanekatsu… Article:1031
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  13. Research article

    Candidate chemosensory genes identified in Colaphellus bowringi by antennal transcriptome analysis

    Xiao-Ming Li, Xiu-Yun Zhu, Zhi-Qiang Wang, Yi Wang, Peng He, Geng Chen… Article:1028
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  14. Methodology Article

    On the relevance of technical variation due to building pools in microarray experiments

    Henrik Rudolf, Gerd Nuernberg, Dirk Koczan, Jens Vanselow, Tanja Gempe… Article:1027
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  15. Research article

    Putative biomarkers for predicting tumor sample purity based on gene expression data

    Yuanyuan Li, David M. Umbach, Adrienna Bingham, Qi-Jing Li, Yuan Zhuang… Article:1021
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  16. Research article

    Differential temporal expression of milk miRNA during the lactation cycle of the marsupial tammar wallaby (Macropus eugenii)

    Vengamanaidu Modepalli, Amit Kumar, Lyn A Hinds, Julie A Sharp… Article:1012
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  17. Methodology article

    Predicting the functional repertoire of an organism from unassembled RNA–seq data

    Manuel Landesfeind, Peter Meinicke Article:1003
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  18. Methodology article

    A next generation sequencing based approach to identify extracellular vesicle mediated mRNA transfers between cells

    Jialiang Yang, Jacob Hagen, Kalyani V. Guntur, Kimaada Allette… Article:987
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  19. Methodology

    Purification of nanogram-range immunoprecipitated DNA in ChIP-seq application

    Jian Zhong, Zhenqing Ye, Samuel W. Lenz, Chad R. Clark, Adil Bharucha… Article:985
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  20. Research article

    Comparative transcriptome and proteome profiling of two Citrus sinensis cultivars during fruit development and ripening

    Jian-hui Wang, Jian-jun Liu, Ke-ling Chen, Hong-wen Li, Jian He, Bin Guan… Article:984
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