A citation-based method for searching scientific literature

Jeffrey B S Gaither, Grant E Lammi, James L Li, David M Gordon, Harkness C Kuck, Benjamin J Kelly, James R Fitch, Peter White. Gigascience 2021
Times Cited: 4







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



Times Cited
  Times     Co-cited
Similarity


Landscape and variation of RNA secondary structure across the human transcriptome.
Yue Wan, Kun Qu, Qiangfeng Cliff Zhang, Ryan A Flynn, Ohad Manor, Zhengqing Ouyang, Jiajing Zhang, Robert C Spitale, Michael P Snyder, Eran Segal,[...]. Nature 2014
334
50

Disease-associated mutations that alter the RNA structural ensemble.
Matthew Halvorsen, Joshua S Martin, Sam Broadaway, Alain Laederach. PLoS Genet 2010
195
50

Synonymous but not the same: the causes and consequences of codon bias.
Joshua B Plotkin, Grzegorz Kudla. Nat Rev Genet 2011
795
50

Annotating pathogenic non-coding variants in genic regions.
Sahar Gelfman, Quanli Wang, K Melodi McSweeney, Zhong Ren, Francesca La Carpia, Matt Halvorsen, Kelly Schoch, Fanni Ratzon, Erin L Heinzen, Michael J Boland,[...]. Nat Commun 2017
59
50

Sensitive measurement of single-nucleotide polymorphism-induced changes of RNA conformation: application to disease studies.
Raheleh Salari, Chava Kimchi-Sarfaty, Michael M Gottesman, Teresa M Przytycka. Nucleic Acids Res 2013
43
50

Genome-wide measurement of RNA secondary structure in yeast.
Michael Kertesz, Yue Wan, Elad Mazor, John L Rinn, Robert C Nutter, Howard Y Chang, Eran Segal. Nature 2010
511
50

Somatic mutation landscapes at single-molecule resolution.
Federico Abascal, Luke M R Harvey, Emily Mitchell, Andrew R J Lawson, Stefanie V Lensing, Peter Ellis, Andrew J C Russell, Raul E Alcantara, Adrian Baez-Ortega, Yichen Wang,[...]. Nature 2021
28
50

Prediction of dinucleotide-specific RNA-binding sites in proteins.
Michael Fernandez, Yutaro Kumagai, Daron M Standley, Akinori Sarai, Kenji Mizuguchi, Shandar Ahmad. BMC Bioinformatics 2011
31
25

Solving the riddle of codon usage preferences: a test for translational selection.
Mario dos Reis, Renos Savva, Lorenz Wernisch. Nucleic Acids Res 2004
413
25

Codon identity regulates mRNA stability and translation efficiency during the maternal-to-zygotic transition.
Ariel A Bazzini, Florencia Del Viso, Miguel A Moreno-Mateos, Timothy G Johnstone, Charles E Vejnar, Yidan Qin, Jun Yao, Mustafa K Khokha, Antonio J Giraldez. EMBO J 2016
128
25


Computational identification of deleterious synonymous variants in human genomes using a feature-based approach.
Fang Shi, Yao Yao, Yannan Bin, Chun-Hou Zheng, Junfeng Xia. BMC Med Genomics 2019
21
25


Synonymous mutations frequently act as driver mutations in human cancers.
Fran Supek, Belén Miñana, Juan Valcárcel, Toni Gabaldón, Ben Lehner. Cell 2014
318
25


An evolutionarily conserved mechanism for controlling the efficiency of protein translation.
Tamir Tuller, Asaf Carmi, Kalin Vestsigian, Sivan Navon, Yuval Dorfan, John Zaborske, Tao Pan, Orna Dahan, Itay Furman, Yitzhak Pilpel. Cell 2010
520
25

VariantSpark: population scale clustering of genotype information.
Aidan R O'Brien, Neil F W Saunders, Yi Guo, Fabian A Buske, Rodney J Scott, Denis C Bauer. BMC Genomics 2015
9
25

A synonymous single nucleotide polymorphism in DeltaF508 CFTR alters the secondary structure of the mRNA and the expression of the mutant protein.
Rafal A Bartoszewski, Michael Jablonsky, Sylwia Bartoszewska, Lauren Stevenson, Qun Dai, John Kappes, James F Collawn, Zsuzsa Bebok. J Biol Chem 2010
132
25

SparkBWA: Speeding Up the Alignment of High-Throughput DNA Sequencing Data.
José M Abuín, Juan C Pichel, Tomás F Pena, Jorge Amigo. PLoS One 2016
23
25

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3.
Pablo Cingolani, Adrian Platts, Le Lily Wang, Melissa Coon, Tung Nguyen, Luan Wang, Susan J Land, Xiangyi Lu, Douglas M Ruden. Fly (Austin) 2012
25

Clinical whole-exome sequencing for the diagnosis of mendelian disorders.
Yaping Yang, Donna M Muzny, Jeffrey G Reid, Matthew N Bainbridge, Alecia Willis, Patricia A Ward, Alicia Braxton, Joke Beuten, Fan Xia, Zhiyv Niu,[...]. N Engl J Med 2013
25



A single synonymous mutation determines the phosphorylation and stability of the nascent protein.
Konstantinos Karakostis, Sivakumar Vadivel Gnanasundram, Ignacio López, Aikaterini Thermou, Lixiao Wang, Karin Nylander, Vanesa Olivares-Illana, Robin Fåhraeus. J Mol Cell Biol 2019
11
25


Role of mRNA structure in the control of protein folding.
Guilhem Faure, Aleksey Y Ogurtsov, Svetlana A Shabalina, Eugene V Koonin. Nucleic Acids Res 2016
39
25

The Silence Speaks, but We Do Not Listen: Synonymous c.1824C>T Gene Variant in the Last Exon of the Prothrombin Gene as a New Prothrombotic Risk Factor.
Iva Pruner, Maria Farm, Branko Tomic, Maja Gvozdenov, Mirjana Kovac, Predrag Miljic, Nida Mahmoud Hourani Soutari, Aleksandra Antovic, Dragica Radojkovic, Jovan Antovic,[...]. Clin Chem 2020
1
100

Following translation by single ribosomes one codon at a time.
Jin-Der Wen, Laura Lancaster, Courtney Hodges, Ana-Carolina Zeri, Shige H Yoshimura, Harry F Noller, Carlos Bustamante, Ignacio Tinoco. Nature 2008
321
25

CMfinder--a covariance model based RNA motif finding algorithm.
Zizhen Yao, Zasha Weinberg, Walter L Ruzzo. Bioinformatics 2006
229
25

Evaluation of the OPTC gene in primary open angle glaucoma: functional significance of a silent change.
Moulinath Acharya, Suddhasil Mookherjee, Ashima Bhattacharjee, Sanjay K D Thakur, Arun K Bandyopadhyay, Abhijit Sen, Subhabrata Chakrabarti, Kunal Ray. BMC Mol Biol 2007
21
25


Single synonymous mutation in factor IX alters protein properties and underlies haemophilia B.
Vijaya L Simhadri, Nobuko Hamasaki-Katagiri, Brian C Lin, Ryan Hunt, Sujata Jha, Sandra C Tseng, Andrew Wu, Amber A Bentley, Ran Zichel, Qi Lu,[...]. J Med Genet 2017
30
25

Codon Bias as a Means to Fine-Tune Gene Expression.
Tessa E F Quax, Nico J Claassens, Dieter Söll, John van der Oost. Mol Cell 2015
295
25

Transcriptional defect of an inherited NKX2-5 haplotype comprising a SNP, a nonsynonymous and a synonymous mutation, associated with human congenital heart disease.
Stella Marie Reamon-Buettner, Evelyn Sattlegger, Yari Ciribilli, Alberto Inga, Armin Wessel, Jürgen Borlak. PLoS One 2013
22
25

Systematic Computational Identification of Variants That Activate Exonic and Intronic Cryptic Splice Sites.
Melissa Lee, Patrick Roos, Neeraj Sharma, Melis Atalar, Taylor A Evans, Matthew J Pellicore, Emily Davis, Anh-Thu N Lam, Susan E Stanley, Sara E Khalil,[...]. Am J Hum Genet 2017
41
25

A pan-cancer analysis of synonymous mutations.
Yogita Sharma, Milad Miladi, Sandeep Dukare, Karine Boulay, Maiwen Caudron-Herger, Matthias Groß, Rolf Backofen, Sven Diederichs. Nat Commun 2019
46
25

Genome-scale characterization of RNA tertiary structures and their functional impact by RNA solvent accessibility prediction.
Yuedong Yang, Xiaomei Li, Huiying Zhao, Jian Zhan, Jihua Wang, Yaoqi Zhou. RNA 2017
12
25

Whole Genome Sequencing Increases Molecular Diagnostic Yield Compared with Current Diagnostic Testing for Inherited Retinal Disease.
Jamie M Ellingford, Stephanie Barton, Sanjeev Bhaskar, Simon G Williams, Panagiotis I Sergouniotis, James O'Sullivan, Janine A Lamb, Rahat Perveen, Georgina Hall, William G Newman,[...]. Ophthalmology 2016
64
25


Ribosome Collisions Result in +1 Frameshifting in the Absence of No-Go Decay.
Carrie L Simms, Liewei L Yan, Jessica K Qiu, Hani S Zaher. Cell Rep 2019
16
25

Sequence, Structure, and Context Preferences of Human RNA Binding Proteins.
Daniel Dominguez, Peter Freese, Maria S Alexis, Amanda Su, Myles Hochman, Tsultrim Palden, Cassandra Bazile, Nicole J Lambert, Eric L Van Nostrand, Gabriel A Pratt,[...]. Mol Cell 2018
175
25



Base-stacking and base-pairing contributions into thermal stability of the DNA double helix.
Peter Yakovchuk, Ekaterina Protozanova, Maxim D Frank-Kamenetskii. Nucleic Acids Res 2006
455
25

Adaptation of mRNA structure to control protein folding.
Guilhem Faure, Aleksey Y Ogurtsov, Svetlana A Shabalina, Eugene V Koonin. RNA Biol 2017
12
25

Bicodon bias can determine the role of synonymous SNPs in human diseases.
Christina McCarthy, Alejandra Carrea, Luis Diambra. BMC Genomics 2017
23
25

Ribosome Collision Is Critical for Quality Control during No-Go Decay.
Carrie L Simms, Liewei L Yan, Hani S Zaher. Mol Cell 2017
119
25

Synonymous mutations in the human dopamine receptor D2 (DRD2) affect mRNA stability and synthesis of the receptor.
Jubao Duan, Mark S Wainwright, Josep M Comeron, Naruya Saitou, Alan R Sanders, Joel Gelernter, Pablo V Gejman. Hum Mol Genet 2003
672
25

Synonymous codon usage affects the expression of wild type and F508del CFTR.
Kalpit Shah, Yi Cheng, Brian Hahn, Robert Bridges, Neil A Bradbury, David M Mueller. J Mol Biol 2015
17
25

regSNPs-splicing: a tool for prioritizing synonymous single-nucleotide substitution.
Xinjun Zhang, Meng Li, Hai Lin, Xi Rao, Weixing Feng, Yuedong Yang, Matthew Mort, David N Cooper, Yue Wang, Yadong Wang,[...]. Hum Genet 2017
11
25


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.