A citation-based method for searching scientific literature

Cedrik Tekendo-Ngongang, Babajide Owosela, Maximilian Muenke, Paul Kruszka. Am J Med Genet C Semin Med Genet 2020
Times Cited: 2







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



Times Cited
  Times     Co-cited
Similarity


Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
100

Histone H3K27ac separates active from poised enhancers and predicts developmental state.
Menno P Creyghton, Albert W Cheng, G Grant Welstead, Tristan Kooistra, Bryce W Carey, Eveline J Steine, Jacob Hanna, Michael A Lodato, Garrett M Frampton, Phillip A Sharp,[...]. Proc Natl Acad Sci U S A 2010
50

A Systematic Approach to Identify Candidate Transcription Factors that Control Cell Identity.
Ana C D'Alessio, Zi Peng Fan, Katherine J Wert, Petr Baranov, Malkiel A Cohen, Janmeet S Saini, Evan Cohick, Carol Charniga, Daniel Dadon, Nancy M Hannett,[...]. Stem Cell Reports 2015
89
50

CRISPR Interference Efficiently Induces Specific and Reversible Gene Silencing in Human iPSCs.
Mohammad A Mandegar, Nathaniel Huebsch, Ekaterina B Frolov, Edward Shin, Annie Truong, Michael P Olvera, Amanda H Chan, Yuichiro Miyaoka, Kristin Holmes, C Ian Spencer,[...]. Cell Stem Cell 2016
215
50

Promoter features related to tissue specificity as measured by Shannon entropy.
Jonathan Schug, Winfried-Paul Schuller, Claudia Kappen, J Michael Salbaum, Maja Bucan, Christian J Stoeckert. Genome Biol 2005
293
50

Single-Cell Transcriptomic Analysis of Cardiac Differentiation from Human PSCs Reveals HOPX-Dependent Cardiomyocyte Maturation.
Clayton E Friedman, Quan Nguyen, Samuel W Lukowski, Abbigail Helfer, Han Sheng Chiu, Jason Miklas, Shiri Levy, Shengbao Suo, Jing-Dong Jackie Han, Pierre Osteil,[...]. Cell Stem Cell 2018
100
50

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
50

Gene ontology: tool for the unification of biology. The Gene Ontology Consortium.
M Ashburner, C A Ball, J A Blake, D Botstein, H Butler, J M Cherry, A P Davis, K Dolinski, S S Dwight, J T Eppig,[...]. Nat Genet 2000
50

mclust 5: Clustering, Classification and Density Estimation Using Gaussian Finite Mixture Models.
Luca Scrucca, Michael Fop, T Brendan Murphy, Adrian E Raftery. R J 2016
358
50

ExAtlas: An interactive online tool for meta-analysis of gene expression data.
Alexei A Sharov, David Schlessinger, Minoru S H Ko. J Bioinform Comput Biol 2015
34
50

Control of developmental regulators by Polycomb in human embryonic stem cells.
Tong Ihn Lee, Richard G Jenner, Laurie A Boyer, Matthew G Guenther, Stuart S Levine, Roshan M Kumar, Brett Chevalier, Sarah E Johnstone, Megan F Cole, Kyo-ichi Isono,[...]. Cell 2006
50

KEGG: kyoto encyclopedia of genes and genomes.
M Kanehisa, S Goto. Nucleic Acids Res 2000
50

Eomesodermin is required for mouse trophoblast development and mesoderm formation.
A P Russ, S Wattler, W H Colledge, S A Aparicio, M B Carlton, J J Pearce, S C Barton, M A Surani, K Ryan, M C Nehls,[...]. Nature 2000
444
50

BioMart Central Portal--unified access to biological data.
Syed Haider, Benoit Ballester, Damian Smedley, Junjun Zhang, Peter Rice, Arek Kasprzyk. Nucleic Acids Res 2009
251
50


CellNet: network biology applied to stem cell engineering.
Patrick Cahan, Hu Li, Samantha A Morris, Edroaldo Lummertz da Rocha, George Q Daley, James J Collins. Cell 2014
307
50

Human housekeeping genes, revisited.
Eli Eisenberg, Erez Y Levanon. Trends Genet 2013
613
50

The single-cell transcriptional landscape of mammalian organogenesis.
Junyue Cao, Malte Spielmann, Xiaojie Qiu, Xingfan Huang, Daniel M Ibrahim, Andrew J Hill, Fan Zhang, Stefan Mundlos, Lena Christiansen, Frank J Steemers,[...]. Nature 2019
489
50

Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs.
John L Rinn, Michael Kertesz, Jordon K Wang, Sharon L Squazzo, Xiao Xu, Samantha A Brugmann, L Henry Goodnough, Jill A Helms, Peggy J Farnham, Eran Segal,[...]. Cell 2007
50

Electroporation of transgenic DNAs in the sea squirt Ciona.
Lionel Christiaen, Eileen Wagner, Weiyang Shi, Michael Levine. Cold Spring Harb Protoc 2009
51
50


Molecular architecture of lineage allocation and tissue organization in early mouse embryo.
Guangdun Peng, Shengbao Suo, Guizhong Cui, Fang Yu, Ran Wang, Jun Chen, Shirui Chen, Zhiwen Liu, Guoyu Chen, Yun Qian,[...]. Nature 2019
51
50

Differentiation of embryonic stem cells is induced by GATA factors.
Junji Fujikura, Eiji Yamato, Shigenobu Yonemura, Kiminori Hosoda, Shinji Masui, Kazuwa Nakao, Jun-ichi Miyazaki Ji, Hitoshi Niwa. Genes Dev 2002
361
50

Role of the gut endoderm in relaying left-right patterning in mice.
Manuel Viotti, Lei Niu, Song-Hai Shi, Anna-Katerina Hadjantonakis. PLoS Biol 2012
45
50

A temporal chromatin signature in human embryonic stem cells identifies regulators of cardiac development.
Sharon L Paige, Sean Thomas, Cristi L Stoick-Cooper, Hao Wang, Lisa Maves, Richard Sandstrom, Lil Pabon, Hans Reinecke, Gabriel Pratt, Gordon Keller,[...]. Cell 2012
225
50

Generating high-purity cardiac and endothelial derivatives from patterned mesoderm using human pluripotent stem cells.
Nathan J Palpant, Lil Pabon, Clayton E Friedman, Meredith Roberts, Brandon Hadland, Rebecca J Zaunbrecher, Irwin Bernstein, Ying Zheng, Charles E Murry. Nat Protoc 2017
82
50


High-resolution profiling of histone methylations in the human genome.
Artem Barski, Suresh Cuddapah, Kairong Cui, Tae-Young Roh, Dustin E Schones, Zhibin Wang, Gang Wei, Iouri Chepelev, Keji Zhao. Cell 2007
50


Design and analysis of ChIP-seq experiments for DNA-binding proteins.
Peter V Kharchenko, Michael Y Tolstorukov, Peter J Park. Nat Biotechnol 2008
566
50

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
50

Six3 repression of Wnt signaling in the anterior neuroectoderm is essential for vertebrate forebrain development.
Oleg V Lagutin, Changqi C Zhu, Daisuke Kobayashi, Jacek Topczewski, Kenji Shimamura, Luis Puelles, Helen R C Russell, Peter J McKinnon, Lilianna Solnica-Krezel, Guillermo Oliver. Genes Dev 2003
339
50

ascend: R package for analysis of single-cell RNA-seq data.
Anne Senabouth, Samuel W Lukowski, Jose Alquicira Hernandez, Stacey B Andersen, Xin Mei, Quan H Nguyen, Joseph E Powell. Gigascience 2019
16
50

Identifying ChIP-seq enrichment using MACS.
Jianxing Feng, Tao Liu, Bo Qin, Yong Zhang, Xiaole Shirley Liu. Nat Protoc 2012
676
50

DBD--taxonomically broad transcription factor predictions: new content and functionality.
Derek Wilson, Varodom Charoensawan, Sarah K Kummerfeld, Sarah A Teichmann. Nucleic Acids Res 2008
199
50

Spatial Transcriptome for the Molecular Annotation of Lineage Fates and Cell Identity in Mid-gastrula Mouse Embryo.
Guangdun Peng, Shengbao Suo, Jun Chen, Weiyang Chen, Chang Liu, Fang Yu, Ran Wang, Shirui Chen, Na Sun, Guizhong Cui,[...]. Dev Cell 2016
119
50

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
50

Genetic networks governing heart development.
Ashley J Waardenberg, Mirana Ramialison, Romaric Bouveret, Richard P Harvey. Cold Spring Harb Perspect Med 2014
26
50

Polycomb complexes repress developmental regulators in murine embryonic stem cells.
Laurie A Boyer, Kathrin Plath, Julia Zeitlinger, Tobias Brambrink, Lea A Medeiros, Tong Ihn Lee, Stuart S Levine, Marius Wernig, Adriana Tajonar, Mridula K Ray,[...]. Nature 2006
50

BET bromodomains mediate transcriptional pause release in heart failure.
Priti Anand, Jonathan D Brown, Charles Y Lin, Jun Qi, Rongli Zhang, Pedro Calderon Artero, M Amer Alaiti, Jace Bullard, Kareem Alazem, Kenneth B Margulies,[...]. Cell 2013
229
50

A transcribed enhancer dictates mesendoderm specification in pluripotency.
Michael Alexanian, Daniel Maric, Stephen P Jenkinson, Marco Mina, Clayton E Friedman, Ching-Chia Ting, Rudi Micheletti, Isabelle Plaisance, Mohamed Nemir, Damien Maison,[...]. Nat Commun 2017
26
50

The Polycomb complex PRC2 and its mark in life.
Raphaël Margueron, Danny Reinberg. Nature 2011
50

Six3 demarcates the anterior-most developing brain region in bilaterian animals.
Patrick Rh Steinmetz, Rolf Urbach, Nico Posnien, Joakim Eriksson, Roman P Kostyuchenko, Carlo Brena, Keren Guy, Michael Akam, Gregor Bucher, Detlev Arendt. Evodevo 2010
85
50

SEdb: a comprehensive human super-enhancer database.
Yong Jiang, Fengcui Qian, Xuefeng Bai, Yuejuan Liu, Qiuyu Wang, Bo Ai, Xiaole Han, Shanshan Shi, Jian Zhang, Xuecang Li,[...]. Nucleic Acids Res 2019
67
50


Absence of canonical marks of active chromatin in developmentally regulated genes.
Sílvia Pérez-Lluch, Enrique Blanco, Hagen Tilgner, Joao Curado, Marina Ruiz-Romero, Montserrat Corominas, Roderic Guigó. Nat Genet 2015
49
50


A promoter-level mammalian expression atlas.
Alistair R R Forrest, Hideya Kawaji, Michael Rehli, J Kenneth Baillie, Michiel J L de Hoon, Vanja Haberle, Timo Lassmann, Ivan V Kulakovskiy, Marina Lizio, Masayoshi Itoh,[...]. Nature 2014
50

Integrating single-cell transcriptomic data across different conditions, technologies, and species.
Andrew Butler, Paul Hoffman, Peter Smibert, Efthymia Papalexi, Rahul Satija. Nat Biotechnol 2018
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.