A citation-based method for searching scientific literature

Hyo Sik Jang, Yujie Chen, Jiaxin Ge, Alicia N Wilkening, Yiran Hou, Hyung Joo Lee, You Rim Choi, Rebecca F Lowdon, Xiaoyun Xing, Daofeng Li, Charles K Kaufman, Stephen L Johnson, Ting Wang. Genome Biol 2021
Times Cited: 1







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



Times Cited
  Times     Co-cited
Similarity


ZFIN: enhancements and updates to the Zebrafish Model Organism Database.
Yvonne Bradford, Tom Conlin, Nathan Dunn, David Fashena, Ken Frazer, Douglas G Howe, Jonathan Knight, Prita Mani, Ryan Martin, Sierra A T Moxon,[...]. Nucleic Acids Res 2011
163
100

Integrative analysis of 111 reference human epigenomes.
Anshul Kundaje, Wouter Meuleman, Jason Ernst, Misha Bilenky, Angela Yen, Alireza Heravi-Moussavi, Pouya Kheradpour, Zhizhuo Zhang, Jianrong Wang, Michael J Ziller,[...]. Nature 2015
100

Thyroid hormone regulates distinct paths to maturation in pigment cell lineages.
Lauren M Saunders, Abhishek K Mishra, Andrew J Aman, Victor M Lewis, Matthew B Toomey, Jonathan S Packer, Xiaojie Qiu, Jose L McFaline-Figueroa, Joseph C Corbo, Cole Trapnell,[...]. Elife 2019
36
100

FIMO: scanning for occurrences of a given motif.
Charles E Grant, Timothy L Bailey, William Stafford Noble. Bioinformatics 2011
100

DNA methylation and gene expression.
Zahava Siegfried, Itamar Simon. Wiley Interdiscip Rev Syst Biol Med 2010
67
100


CRISPRscan: designing highly efficient sgRNAs for CRISPR-Cas9 targeting in vivo.
Miguel A Moreno-Mateos, Charles E Vejnar, Jean-Denis Beaudoin, Juan P Fernandez, Emily K Mis, Mustafa K Khokha, Antonio J Giraldez. Nat Methods 2015
520
100

Iridophores and their interactions with other chromatophores are required for stripe formation in zebrafish.
Hans Georg Frohnhöfer, Jana Krauss, Hans-Martin Maischein, Christiane Nüsslein-Volhard. Development 2013
113
100


Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data.
Robert C McLeay, Timothy L Bailey. BMC Bioinformatics 2010
293
100

The N-terminal domain of gastrulation brain homeobox 2 (Gbx2) is required for iridophore specification in zebrafish.
Shunya Hozumi, Masaki Shirai, Jingxin Wang, Shun Aoki, Yutaka Kikuchi. Biochem Biophys Res Commun 2018
2
100

Tyrosinase gene expression in zebrafish embryos.
E Camp, M Lardelli. Dev Genes Evol 2001
55
100


Zebrafish melanophilin facilitates melanosome dispersion by regulating dynein.
Lavinia Sheets, David G Ransom, Eve M Mellgren, Stephen L Johnson, Bruce J Schnapp. Curr Biol 2007
48
100

Neural crest development: insights from the zebrafish.
Manuel Rocha, Noor Singh, Kamil Ahsan, Anastasia Beiriger, Victoria E Prince. Dev Dyn 2020
18
100

Metascape provides a biologist-oriented resource for the analysis of systems-level datasets.
Yingyao Zhou, Bin Zhou, Lars Pache, Max Chang, Alireza Hadj Khodabakhshi, Olga Tanaseichuk, Christopher Benner, Sumit K Chanda. Nat Commun 2019
100

pnp4a Is the Causal Gene of the Medaka Iridophore Mutant guanineless.
Tetsuaki Kimura, Yusuke Takehana, Kiyoshi Naruse. G3 (Bethesda) 2017
10
100


Alk and Ltk ligands are essential for iridophore development in zebrafish mediated by the receptor tyrosine kinase Ltk.
Elizabeth S Mo, Qianni Cheng, Andrey V Reshetnyak, Joseph Schlessinger, Stefania Nicoli. Proc Natl Acad Sci U S A 2017
35
100

Complex heatmaps reveal patterns and correlations in multidimensional genomic data.
Zuguang Gu, Roland Eils, Matthias Schlesner. Bioinformatics 2016
100


A systems biology approach uncovers the core gene regulatory network governing iridophore fate choice from the neural crest.
Kleio Petratou, Tatiana Subkhankulova, James A Lister, Andrea Rocco, Hartmut Schwetlick, Robert N Kelsh. PLoS Genet 2018
16
100


Differentiation of zebrafish melanophores depends on transcription factors AP2 alpha and AP2 epsilon.
Eric Van Otterloo, Wei Li, Gregory Bonde, Kristopher M Day, Mei-Yu Hsu, Robert A Cornell. PLoS Genet 2010
30
100


StringTie enables improved reconstruction of a transcriptome from RNA-seq reads.
Mihaela Pertea, Geo M Pertea, Corina M Antonescu, Tsung-Cheng Chang, Joshua T Mendell, Steven L Salzberg. Nat Biotechnol 2015
100

Gene regulatory networks for development.
Michael Levine, Eric H Davidson. Proc Natl Acad Sci U S A 2005
425
100

Transcriptional regulation of mitfa accounts for the sox10 requirement in zebrafish melanophore development.
Stone Elworthy, James A Lister, Tom J Carney, David W Raible, Robert N Kelsh. Development 2003
113
100

Development of pigment cells in the zebrafish embryo.
James A Lister. Microsc Res Tech 2002
34
100

Four twist genes in zebrafish, four expression patterns.
Igal Germanguz, Dmitri Lev, Tal Waisman, Cheol-Hee Kim, Inna Gitelman. Dev Dyn 2007
33
100

The transcription factors Ets1 and Sox10 interact during murine melanocyte development.
Amy Saldana-Caboverde, Erasmo M Perera, Dawn E Watkins-Chow, Nancy F Hansen, Meghana Vemulapalli, James C Mullikin, William J Pavan, Lidia Kos. Dev Biol 2015
12
100


Zebrafish sox9b is an early neural crest marker.
Ming Li, Chengtian Zhao, Ying Wang, Zhixing Zhao, Anming Meng. Dev Genes Evol 2002
47
100

Development of the neural crest in the zebrafish.
J S Eisen, J A Weston. Dev Biol 1993
62
100

AnimalTFDB 2.0: a resource for expression, prediction and functional study of animal transcription factors.
Hong-Mei Zhang, Teng Liu, Chun-Jie Liu, Shuangyang Song, Xiantong Zhang, Wei Liu, Haibo Jia, Yu Xue, An-Yuan Guo. Nucleic Acids Res 2015
173
100

Genetic Screen for Postembryonic Development in the Zebrafish (Danio rerio): Dominant Mutations Affecting Adult Form.
Katrin Henke, Jacob M Daane, M Brent Hawkins, Christopher M Dooley, Elisabeth M Busch-Nentwich, Derek L Stemple, Matthew P Harris. Genetics 2017
31
100

Transcription factors: from enhancer binding to developmental control.
François Spitz, Eileen E M Furlong. Nat Rev Genet 2012
968
100


Human tumor genomics and zebrafish modeling identify SPRED1 loss as a driver of mucosal melanoma.
Julien Ablain, Mengshu Xu, Harriet Rothschild, Richard C Jordan, Jeffrey K Mito, Brianne H Daniels, Caitlin F Bell, Nancy M Joseph, Hong Wu, Boris C Bastian,[...]. Science 2018
57
100

Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities.
Sven Heinz, Christopher Benner, Nathanael Spann, Eric Bertolino, Yin C Lin, Peter Laslo, Jason X Cheng, Cornelis Murre, Harinder Singh, Christopher K Glass. Mol Cell 2010
100

Detection of nonneutral substitution rates on mammalian phylogenies.
Katherine S Pollard, Melissa J Hubisz, Kate R Rosenbloom, Adam Siepel. Genome Res 2010
100



A map of cis-regulatory elements and 3D genome structures in zebrafish.
Hongbo Yang, Yu Luan, Tingting Liu, Hyung Joo Lee, Li Fang, Yanli Wang, Xiaotao Wang, Bo Zhang, Qiushi Jin, Khai Chung Ang,[...]. Nature 2020
14
100

Pigment Cell Progenitors in Zebrafish Remain Multipotent through Metamorphosis.
Ajeet Pratap Singh, April Dinwiddie, Prateek Mahalwar, Ursula Schach, Claudia Linker, Uwe Irion, Christiane Nüsslein-Volhard. Dev Cell 2016
40
100

CRISPOR: intuitive guide selection for CRISPR/Cas9 genome editing experiments and screens.
Jean-Paul Concordet, Maximilian Haeussler. Nucleic Acids Res 2018
179
100

BEDTools: a flexible suite of utilities for comparing genomic features.
Aaron R Quinlan, Ira M Hall. Bioinformatics 2010
100

STAR: ultrafast universal RNA-seq aligner.
Alexander Dobin, Carrie A Davis, Felix Schlesinger, Jorg Drenkow, Chris Zaleski, Sonali Jha, Philippe Batut, Mark Chaisson, Thomas R Gingeras. Bioinformatics 2013
100

Functional genomics tools for the analysis of zebrafish pigment.
Michael A Pickart, Sridhar Sivasubbu, Aubrey L Nielsen, Sabitha Shriram, Richard A King, Stephen C Ekker. Pigment Cell Res 2004
29
100

deepTools2: a next generation web server for deep-sequencing data analysis.
Fidel Ramírez, Devon P Ryan, Björn Grüning, Vivek Bhardwaj, Fabian Kilpert, Andreas S Richter, Steffen Heyne, Friederike Dündar, Thomas Manke. Nucleic Acids Res 2016
100


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.