A citation-based method for searching scientific literature

Juechen Yang, Qilin Li, Nighat Noureen, Yanbing Fang, Raushan Kurmasheva, Peter J Houghton, Xiaojing Wang, Siyuan Zheng. Nucleic Acids Res 2021
Times Cited: 2







List of co-cited articles
articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


clusterProfiler: an R package for comparing biological themes among gene clusters.
Guangchuang Yu, Li-Gen Wang, Yanyan Han, Qing-Yu He. OMICS 2012
50

BoxPlotR: a web tool for generation of box plots.
Michaela Spitzer, Jan Wildenhain, Juri Rappsilber, Mike Tyers. Nat Methods 2014
399
50

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data.
Mark D Robinson, Davis J McCarthy, Gordon K Smyth. Bioinformatics 2010
50

Circos: an information aesthetic for comparative genomics.
Martin Krzywinski, Jacqueline Schein, Inanç Birol, Joseph Connors, Randy Gascoyne, Doug Horsman, Steven J Jones, Marco A Marra. Genome Res 2009
50

Interactive analysis of single-cell epigenomic landscapes with ChromSCape.
Pacôme Prompsy, Pia Kirchmeier, Justine Marsolier, Marc Deloger, Nicolas Servant, Céline Vallot. Nat Commun 2020
9
50

Scater: pre-processing, quality control, normalization and visualization of single-cell RNA-seq data in R.
Davis J McCarthy, Kieran R Campbell, Aaron T L Lun, Quin F Wills. Bioinformatics 2017
608
50


Web tools to fight pandemics: the COVID-19 experience.
Daniele Mercatelli, Andrew N Holding, Federico M Giorgi. Brief Bioinform 2021
18
50



Orchestrating high-throughput genomic analysis with Bioconductor.
Wolfgang Huber, Vincent J Carey, Robert Gentleman, Simon Anders, Marc Carlson, Benilton S Carvalho, Hector Corrada Bravo, Sean Davis, Laurent Gatto, Thomas Girke,[...]. Nat Methods 2015
50

The UCSC Genome Browser database: 2021 update.
Jairo Navarro Gonzalez, Ann S Zweig, Matthew L Speir, Daniel Schmelter, Kate R Rosenbloom, Brian J Raney, Conner C Powell, Luis R Nassar, Nathan D Maulding, Christopher M Lee,[...]. Nucleic Acids Res 2021
165
50

COVID19-world: a shiny application to perform comprehensive country-specific data visualization for SARS-CoV-2 epidemic.
Cristian Tebé, Joan Valls, Pau Satorra, Aurelio Tobías. BMC Med Res Methodol 2020
14
50


GAM: a web-service for integrated transcriptional and metabolic network analysis.
Alexey A Sergushichev, Alexander A Loboda, Abhishek K Jha, Emma E Vincent, Edward M Driggers, Russell G Jones, Edward J Pearce, Maxim N Artyomov. Nucleic Acids Res 2016
55
50



shinyCircos: an R/Shiny application for interactive creation of Circos plot.
Yiming Yu, Yidan Ouyang, Wen Yao. Bioinformatics 2018
114
50



LOLAweb: a containerized web server for interactive genomic locus overlap enrichment analysis.
V P Nagraj, Neal E Magee, Nathan C Sheffield. Nucleic Acids Res 2018
16
50

Software for computing and annotating genomic ranges.
Michael Lawrence, Wolfgang Huber, Hervé Pagès, Patrick Aboyoun, Marc Carlson, Robert Gentleman, Martin T Morgan, Vincent J Carey. PLoS Comput Biol 2013
50


TREND-DB-a transcriptome-wide atlas of the dynamic landscape of alternative polyadenylation.
Federico Marini, Denise Scherzinger, Sven Danckwardt. Nucleic Acids Res 2021
15
50

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
50


Orchestrating single-cell analysis with Bioconductor.
Robert A Amezquita, Aaron T L Lun, Etienne Becht, Vince J Carey, Lindsay N Carpp, Ludwig Geistlinger, Federico Marini, Kevin Rue-Albrecht, Davide Risso, Charlotte Soneson,[...]. Nat Methods 2020
164
50

circlize Implements and enhances circular visualization in R.
Zuguang Gu, Lei Gu, Roland Eils, Matthias Schlesner, Benedikt Brors. Bioinformatics 2014
50

Basic local alignment search tool.
S F Altschul, W Gish, W Miller, E W Myers, D J Lipman. J Mol Biol 1990
50


shinyChromosome: An R/Shiny Application for Interactive Creation of Non-circular Plots of Whole Genomes.
Yiming Yu, Wen Yao, Yuping Wang, Fangfang Huang. Genomics Proteomics Bioinformatics 2019
6
50

APE: Analyses of Phylogenetics and Evolution in R language.
Emmanuel Paradis, Julien Claude, Korbinian Strimmer. Bioinformatics 2004
50

BioCircos.js: an interactive Circos JavaScript library for biological data visualization on web applications.
Ya Cui, Xiaowei Chen, Huaxia Luo, Zhen Fan, Jianjun Luo, Shunmin He, Haiyan Yue, Peng Zhang, Runsheng Chen. Bioinformatics 2016
62
50


The Sequence Alignment/Map format and SAMtools.
Heng Li, Bob Handsaker, Alec Wysoker, Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin. Bioinformatics 2009
50

Histone ubiquitination in the DNA damage response.
Michael Uckelmann, Titia K Sixma. DNA Repair (Amst) 2017
114
50

The SAGA Deubiquitination Module Promotes DNA Repair and Class Switch Recombination through ATM and DNAPK-Mediated γH2AX Formation.
Shaliny Ramachandran, Dania Haddad, Conglei Li, Michael X Le, Alexanda K Ling, Clare C So, Rajeev M Nepal, Jennifer L Gommerman, Kefei Yu, Troy Ketela,[...]. Cell Rep 2016
67
50

The cullin 4B-based UV-damaged DNA-binding protein ligase binds to UV-damaged chromatin and ubiquitinates histone H2A.
Jennifer Guerrero-Santoro, Maria G Kapetanaki, Ching L Hsieh, Ilya Gorbachinsky, Arthur S Levine, Vesna Rapić-Otrin. Cancer Res 2008
96
50

m6A Demethylase ALKBH5 Maintains Tumorigenicity of Glioblastoma Stem-like Cells by Sustaining FOXM1 Expression and Cell Proliferation Program.
Sicong Zhang, Boxuan Simen Zhao, Aidong Zhou, Kangyu Lin, Shaoping Zheng, Zhike Lu, Yaohui Chen, Erik P Sulman, Keping Xie, Oliver Bögler,[...]. Cancer Cell 2017
819
50

Dot Blot Analysis of N6-methyladenosine RNA Modification Levels.
Lisha Shen, Zhe Liang, Hao Yu. Bio Protoc 2017
15
50

RNF20 and histone H2B ubiquitylation exert opposing effects in Basal-Like versus luminal breast cancer.
Ohad Tarcic, Roy Z Granit, Ioannis S Pateras, Hadas Masury, Bella Maly, Yaara Zwang, Yosef Yarden, Vassilis G Gorgoulis, Eli Pikarsky, Ittai Ben-Porath,[...]. Cell Death Differ 2017
31
50


USP22 Functions as an Oncogenic Driver in Prostate Cancer by Regulating Cell Proliferation and DNA Repair.
Jennifer J McCann, Irina A Vasilevskaya, Neermala Poudel Neupane, Ayesha A Shafi, Christopher McNair, Emanuela Dylgjeri, Amy C Mandigo, Matthew J Schiewer, Randy S Schrecengost, Peter Gallagher,[...]. Cancer Res 2020
28
50

Mammalian WTAP is a regulatory subunit of the RNA N6-methyladenosine methyltransferase.
Xiao-Li Ping, Bao-Fa Sun, Lu Wang, Wen Xiao, Xin Yang, Wen-Jia Wang, Samir Adhikari, Yue Shi, Ying Lv, Yu-Sheng Chen,[...]. Cell Res 2014
50

Translational biology of osteosarcoma.
Maya Kansara, Michele W Teng, Mark J Smyth, David M Thomas. Nat Rev Cancer 2014
671
50

Elevated ratio of MMP2/MMP9 activity is associated with poor response to chemotherapy in osteosarcoma.
Pierre Kunz, Heiner Sähr, Burkhard Lehner, Christian Fischer, Elisabeth Seebach, Jörg Fellenberg. BMC Cancer 2016
45
50

Histone H2A monoubiquitination represses transcription by inhibiting RNA polymerase II transcriptional elongation.
Wenlai Zhou, Ping Zhu, Jianxun Wang, Gabriel Pascual, Kenneth A Ohgi, Jean Lozach, Christopher K Glass, Michael G Rosenfeld. Mol Cell 2008
276
50

DNA polymerases and cancer.
Sabine S Lange, Kei-ichi Takata, Richard D Wood. Nat Rev Cancer 2011
378
50

Readers, writers and erasers of N6-methylated adenosine modification.
Baixing Wu, Li Li, Ying Huang, Jinbiao Ma, Jinrong Min. Curr Opin Struct Biol 2017
61
50

ALKBH5 is a mammalian RNA demethylase that impacts RNA metabolism and mouse fertility.
Guanqun Zheng, John Arne Dahl, Yamei Niu, Peter Fedorcsak, Chun-Min Huang, Charles J Li, Cathrine B Vågbø, Yue Shi, Wen-Ling Wang, Shu-Hui Song,[...]. Mol Cell 2013
50


Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.