Topic · RNA modifications and cancer
Most cited papers in RNA modifications and cancer
What are the most cited papers in RNA modifications and cancer?
The most cited paper in RNA modifications and cancer is "Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2" (Michael I. Love, Wolfgang K. Huber, Simon Anders, 2014), with 104,335 citations. Next come "Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles" (58,060) and "Cutadapt removes adapter sequences from high-throughput sequencing reads" (37,060).
Showing 50 of 100 papers. Every paper with more than 3,741 citations is listed.
| # | Paper | ||
|---|---|---|---|
| 1 | Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 Michael I. Love, Wolfgang K. Huber, Simon Anders · Genome biology | 5 Dec 2014 | 104,335 |
| 2 | Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles Aravind N. Subramanian, Pablo Tamayo, Vamsi Krishna Mootha et al. · Proceedings of the National Academy of Sciences | 30 Sep 2005 | 58,060 |
| 3 | Cutadapt removes adapter sequences from high-throughput sequencing reads Marcel Martin · EMBnet journal | 2 May 2011 | 37,060 |
| 4 | The SILVA ribosomal RNA gene database project: improved data processing and web-based tools Christian Quast, Elmar Pruesse, Pelin Yilmaz et al. · Nucleic Acids Research | 27 Nov 2012 | 35,094 |
| 5 | HISAT: a fast spliced aligner with low memory requirements Daehwan Kim, Ben Langmead, Steven L. Salzberg · Nature Methods | 9 Mar 2015 | 26,880 |
| 6 | Full-length transcriptome assembly from RNA-Seq data without a reference genome Manfred G. Grabherr et al. · Nature Biotechnology | 15 May 2011 | 23,028 |
| 7 | An integrated encyclopedia of DNA elements in the human genome Ian Dunham et al. · Nature | Sep 2012 | 19,751 |
| 8 | Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation Cole Trapnell, Brian A. Williams, Geo M. Pertea et al. · Nature Biotechnology | May 2010 | 16,702 |
| 9 | StringTie enables improved reconstruction of a transcriptome from RNA-seq reads Mihaela Pertea, Geo M. Pertea, Corina M. Antonescu et al. · Nature Biotechnology | 18 Feb 2015 | 16,085 |
| 10 | TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions Daehwan Kim, Geo M. Pertea, Cole Trapnell et al. · Genome biology | 25 Apr 2013 | 13,857 |
| 11 | Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks Cole Trapnell, Adam Roberts, Loyal A. Goff et al. · Nature Protocols | Mar 2012 | 13,036 |
| 12 | tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence Todd M. Lowe, Sean R. Eddy · Nucleic Acids Research | Mar 1997 | 11,330 |
| 13 | Chromatin Modifications and Their Function Tony Kouzarides · Cell | Feb 2007 | 10,979 |
| 14 | A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping Suhas S.P. Rao, Miriam H. Huntley, Neva C. Durand et al. · Cell | Dec 2014 | 10,225 |
| 15 | A scaling normalization method for differential expression analysis of RNA-seq data Mark D. Robinson, Alicia Oshlack · Genome biology | 2 Mar 2010 | 8,712 |
| 16 | Most mammalian mRNAs are conserved targets of microRNAs Robin C. Friedman, Kyle Kai‐How Farh, Christopher B. Burge et al. · Genome Research | 27 Oct 2008 | 8,671 |
| 17 | WAF1, a potential mediator of p53 tumor suppression Wafik S. El‐Deiry, Takashi Tokino, Victor E. Velculescu et al. · Cell | Nov 1993 | 8,417 |
| 18 | Genomic sequencing. George M. Church, W Gilbert · Proceedings of the National Academy of Sciences | Apr 1984 | 8,225 |
| 19 | Gene ontology analysis for RNA-seq: accounting for selection bias Matthew D. Young, Matthew J. Wakefield, Gordon K. Smyth et al. · Genome biology | 4 Feb 2010 | 7,920 |
| 20 | Ferroptosis: A Regulated Cell Death Nexus Linking Metabolism, Redox Biology, and Disease Brent R. Stockwell et al. · Cell | Oct 2017 | 7,867 |
| 21 | A ceRNA Hypothesis: The Rosetta Stone of a Hidden RNA Language? Leonardo Salmena, Laura Poliseno, Yvonne Tay et al. · Cell | Aug 2011 | 7,805 |
| 22 | Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown Mihaela Pertea, Daehwan Kim, Geo M. Pertea et al. · Nature Protocols | 11 Aug 2016 | 7,776 |
| 23 | MicroRNA signatures in human cancers George Adrian Calin, Carlo Maria Croce · Nature reviews. Cancer | 24 Oct 2006 | 7,667 |
| 24 | Ferroptosis: mechanisms, biology and role in disease Xuejun Jiang, Brent R. Stockwell, Marcus Conrad · Nature Reviews Molecular Cell Biology | 25 Jan 2021 | 7,650 |
| 25 | U1 snRNP regulates cancer cell migration and invasion in vitro Jung‐Min Oh, Christopher C. Venters, Chao Di et al. · Nature Communications | 7 Jan 2020 | 7,252 |
| 26 | Integrative analysis of 111 reference human epigenomes Anshul Kundaje et al. · Nature | 17 Feb 2015 | 7,245 |
| 27 | Biomolecular condensates: organizers of cellular biochemistry Salman F. Banani, Hyun O. Lee, Anthony A. Hyman et al. · Nature Reviews Molecular Cell Biology | 22 Feb 2017 | 6,730 |
| 28 | UALCAN: A Portal for Facilitating Tumor Subgroup Gene Expression and Survival Analyses Darshan Shimoga Chandrashekar, Bhuwan Bashel, Sai Akshaya Hodigere Balasubramanya et al. · Neoplasia | 18 Jul 2017 | 6,610 |
| 29 | Efficientin vitrosynthesis of biologically active RNA and RNA hybridization probes from plasmids containing a bacteriophage SP6 promoter Douglas A. Melton, Paul A. Krieg, Michael R. Rebagliati et al. · Nucleic Acids Research | 1984 | 6,454 |
| 30 | RNAmmer: consistent and rapid annotation of ribosomal RNA genes Karin Lagesen, Peter F. Hallin, Einar Andreas Rødland et al. · Nucleic Acids Research | 22 Apr 2007 | 6,423 |
| 31 | Functions of DNA methylation: islands, start sites, gene bodies and beyond Peter Anthony Jones · Nature Reviews Genetics | 29 May 2012 | 6,369 |
| 32 | The GTEx Consortium atlas of genetic regulatory effects across human tissues François Aguet et al. · Science | 10 Sep 2020 | 6,192 |
| 33 | The Emerging Hallmarks of Cancer Metabolism Natalya N. Pavlova, Craig B. Thompson · Cell Metabolism | 2016 | 6,192 |
| 34 | Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications Felix Krueger, Simon Andrews · Bioinformatics | 14 Apr 2011 | 6,026 |
| 35 | Comprehensive molecular profiling of lung adenocarcinoma Eric A. Collisson et al. · Nature | 8 Jul 2014 | 5,968 |
| 36 | Conversion of 5-Methylcytosine to 5-Hydroxymethylcytosine in Mammalian DNA by MLL Partner TET1 Mamta Tahiliani, Kian Peng Koh, Yinghua Shen et al. · Science | 16 Apr 2009 | 5,936 |
| 37 | Long non-coding RNAs: insights into functions Tim R. Mercer, Marcel E. Dinger, John S. Mattick · Nature Reviews Genetics | 3 Feb 2009 | 5,835 |
| 38 | The p21 Cdk-interacting protein Cip1 is a potent inhibitor of G1 cyclin-dependent kinases J. Wade Harper · Cell | 19 Nov 1993 | 5,700 |
| 39 | GEPIA2: an enhanced web server for large-scale expression profiling and interactive analysis Zefang Tang, Boxi Kang, Chenwei Li et al. · Nucleic Acids Research | 10 May 2019 | 5,608 |
| 40 | Regulation of microRNA biogenesis Minju Ha, V. Narry Kim · Nature Reviews Molecular Cell Biology | 16 Jul 2014 | 5,598 |
| 41 | Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage Dvir Aran, Agnieszka P. Looney, Leqian Liu et al. · Nature Immunology | 4 Jan 2019 | 5,566 |
| 42 | An RNA-Sequencing Transcriptome and Splicing Database of Glia, Neurons, and Vascular Cells of the Cerebral Cortex Ye Zhang, Kenian Chen, Steven A. Sloan et al. · Journal of Neuroscience | 3 Sep 2014 | 5,474 |
| 43 | The biogenesis, biology and characterization of circular RNAs Lasse S. Kristensen, Maria Schertz Andersen, Lotte Victoria Winther Stagsted et al. · Nature Reviews Genetics | 8 Aug 2019 | 5,460 |
| 44 | Alternative isoform regulation in human tissue transcriptomes Eric T. Wang, Rickard Sandberg, Shujun J. Luo et al. · Nature | Nov 2008 | 5,451 |
| 45 | Overview of MicroRNA Biogenesis, Mechanisms of Actions, and Circulation Jacob Anderson O’Brien, Heyam Hayder, Yara Zayed et al. · Frontiers in Endocrinology | 3 Aug 2018 | 5,381 |
| 46 | Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis Rajnish A. Gupta, Nilay Shah, Ke Wang et al. · Nature | Apr 2010 | 5,341 |
| 47 | The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression Thomas Derrien et al. · Genome Research | Sep 2012 | 5,308 |
| 48 | Gene regulation by long non-coding RNAs and its biological functions Luisa Statello, Chunjie Guo, Ling‐Ling Chen et al. · Nature Reviews Molecular Cell Biology | 22 Dec 2020 | 5,304 |
| 49 | Mechanisms of post-transcriptional regulation by microRNAs: are the answers in sight? Witold Filipowicz, Suvendra N. Bhattacharyya, Nahum Sonenberg · Nature Reviews Genetics | 16 Jan 2008 | 5,265 |
| 50 | The zebrafish reference genome sequence and its relationship to the human genome Kerstin Howe et al. · Nature | 16 Apr 2013 | 5,261 |
Citations are OpenAlex's own counts, from its 2026-09-23 snapshot, so the ranking can differ from Google Scholar or Web of Science. A paper is listed for a field when OpenAlex files it under one of the field's topics; retracted papers and papers whose citation count cannot be traced to citing works are left out, and a preprint and the article it became are shown once. Release dates are OpenAlex's: where a source gave only a month or a year, that is what is shown. How the lists are chosen.