A citation-based method for searching scientific literature

Norman Zielke, Anna Vähärautio, Jianping Liu, Teemu Kivioja, Jussi Taipale. Dev Cell 2022
Times Cited: 1







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



Times Cited
  Times     Co-cited
Similarity


CRISPR/Cas9 screening using unique molecular identifiers.
Bernhard Schmierer, Sandeep K Botla, Jilin Zhang, Mikko Turunen, Teemu Kivioja, Jussi Taipale. Mol Syst Biol 2017
31
100

Mapping the genetic landscape of DNA double-strand break repair.
Jeffrey A Hussmann, Jia Ling, Purnima Ravisankar, Jun Yan, Ann Cirincione, Albert Xu, Danny Simpson, Dian Yang, Anne Bothmer, Cecilia Cotta-Ramusino,[...]. Cell 2021
29
100

Massively parallel assessment of human variants with base editor screens.
Ruth E Hanna, Mudra Hegde, Christian R Fagre, Peter C DeWeirdt, Annabel K Sangree, Zsofia Szegletes, Audrey Griffith, Marissa N Feeley, Kendall R Sanson, Yossef Baidi,[...]. Cell 2021
59
100

Sequence determinants of human gene regulatory elements.
Biswajyoti Sahu, Tuomo Hartonen, Päivi Pihlajamaa, Bei Wei, Kashyap Dave, Fangjie Zhu, Eevi Kaasinen, Katja Lidschreiber, Michael Lidschreiber, Carsten O Daub,[...]. Nat Genet 2022
6
100

Functional interrogation of DNA damage response variants with base editing screens.
Raquel Cuella-Martin, Samuel B Hayward, Xiao Fan, Xiao Chen, Jen-Wei Huang, Angelo Taglialatela, Giuseppe Leuzzi, Junfei Zhao, Raul Rabadan, Chao Lu,[...]. Cell 2021
50
100

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions.
Daehwan Kim, Geo Pertea, Cole Trapnell, Harold Pimentel, Ryan Kelley, Steven L Salzberg. Genome Biol 2013
100

CRISPR Screens Provide a Comprehensive Assessment of Cancer Vulnerabilities but Generate False-Positive Hits for Highly Amplified Genomic Regions.
Diana M Munoz, Pamela J Cassiani, Li Li, Eric Billy, Joshua M Korn, Michael D Jones, Javad Golji, David A Ruddy, Kristine Yu, Gregory McAllister,[...]. Cancer Discov 2016
203
100

Grb2 monomer-dimer equilibrium determines normal versus oncogenic function.
Zamal Ahmed, Zahra Timsah, Kin M Suen, Nathan P Cook, Gilbert R Lee, Chi-Chuan Lin, Mihai Gagea, Angel A Marti, John E Ladbury. Nat Commun 2015
37
100

Precise genomic deletions using paired prime editing.
Junhong Choi, Wei Chen, Chase C Suiter, Choli Lee, Florence M Chardon, Wei Yang, Anh Leith, Riza M Daza, Beth Martin, Jay Shendure. Nat Biotechnol 2022
30
100

GUIDE-seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases.
Shengdar Q Tsai, Zongli Zheng, Nhu T Nguyen, Matthew Liebers, Ved V Topkar, Vishal Thapar, Nicolas Wyvekens, Cyd Khayter, A John Iafrate, Long P Le,[...]. Nat Biotechnol 2015
100

Deletion and replacement of long genomic sequences using prime editing.
Tingting Jiang, Xiao-Ou Zhang, Zhiping Weng, Wen Xue. Nat Biotechnol 2022
24
100

Search-and-replace genome editing without double-strand breaks or donor DNA.
Andrew V Anzalone, Peyton B Randolph, Jessie R Davis, Alexander A Sousa, Luke W Koblan, Jonathan M Levy, Peter J Chen, Christopher Wilson, Gregory A Newby, Aditya Raguram,[...]. Nature 2019
100

A functional screen for Myc-responsive genes reveals serine hydroxymethyltransferase, a major source of the one-carbon unit for cell metabolism.
Mikhail A Nikiforov, Sanjay Chandriani, Brenda O'Connell, Oleksi Petrenko, Iulia Kotenko, Andrew Beavis, John M Sedivy, Michael D Cole. Mol Cell Biol 2002
152
100

Mapping and analysis of phosphorylation sites: a quick guide for cell biologists.
Noah Dephoure, Kathleen L Gould, Steven P Gygi, Douglas R Kellogg. Mol Biol Cell 2013
161
100

Genome-scale CRISPR-Cas9 knockout screening in human cells.
Ophir Shalem, Neville E Sanjana, Ella Hartenian, Xi Shi, David A Scott, Tarjei Mikkelson, Dirk Heckl, Benjamin L Ebert, David E Root, John G Doench,[...]. Science 2014
100


High-throughput functional genomics using CRISPR-Cas9.
Ophir Shalem, Neville E Sanjana, Feng Zhang. Nat Rev Genet 2015
674
100

MYC: connecting selective transcriptional control to global RNA production.
Theresia R Kress, Arianna Sabò, Bruno Amati. Nat Rev Cancer 2015
289
100

Highly efficient Cas9-mediated transcriptional programming.
Alejandro Chavez, Jonathan Scheiman, Suhani Vora, Benjamin W Pruitt, Marcelle Tuttle, Eswar P R Iyer, Shuailiang Lin, Samira Kiani, Christopher D Guzman, Daniel J Wiegand,[...]. Nat Methods 2015
818
100

Genome-scale measurement of off-target activity using Cas9 toxicity in high-throughput screens.
David W Morgens, Michael Wainberg, Evan A Boyle, Oana Ursu, Carlos L Araya, C Kimberly Tsui, Michael S Haney, Gaelen T Hess, Kyuho Han, Edwin E Jeng,[...]. Nat Commun 2017
134
100


Selective transcriptional regulation by Myc in cellular growth control and lymphomagenesis.
Arianna Sabò, Theresia R Kress, Mattia Pelizzola, Stefano de Pretis, Marcin M Gorski, Alessandra Tesi, Marco J Morelli, Pranami Bora, Mirko Doni, Alessandro Verrecchia,[...]. Nature 2014
312
100

Accurate classification of BRCA1 variants with saturation genome editing.
Gregory M Findlay, Riza M Daza, Beth Martin, Melissa D Zhang, Anh P Leith, Molly Gasperini, Joseph D Janizek, Xingfan Huang, Lea M Starita, Jay Shendure. Nature 2018
312
100

Genome-Scale CRISPR-Mediated Control of Gene Repression and Activation.
Luke A Gilbert, Max A Horlbeck, Britt Adamson, Jacqueline E Villalta, Yuwen Chen, Evan H Whitehead, Carla Guimaraes, Barbara Panning, Hidde L Ploegh, Michael C Bassik,[...]. Cell 2014
100

Contribution of allelic imbalance to colorectal cancer.
Kimmo Palin, Esa Pitkänen, Mikko Turunen, Biswajyoti Sahu, Päivi Pihlajamaa, Teemu Kivioja, Eevi Kaasinen, Niko Välimäki, Ulrika A Hänninen, Tatiana Cajuso,[...]. Nat Commun 2018
15
100



MYC activation is a hallmark of cancer initiation and maintenance.
Meital Gabay, Yulin Li, Dean W Felsher. Cold Spring Harb Perspect Med 2014
455
100

CRISPOR: intuitive guide selection for CRISPR/Cas9 genome editing experiments and screens.
Jean-Paul Concordet, Maximilian Haeussler. Nucleic Acids Res 2018
398
100

Genomic targets of the human c-Myc protein.
Paula C Fernandez, Scott R Frank, Luquan Wang, Marianne Schroeder, Suxing Liu, Jonathan Greene, Andrea Cocito, Bruno Amati. Genes Dev 2003
740
100

c-Myc is a universal amplifier of expressed genes in lymphocytes and embryonic stem cells.
Zuqin Nie, Gangqing Hu, Gang Wei, Kairong Cui, Arito Yamane, Wolfgang Resch, Ruoning Wang, Douglas R Green, Lino Tessarollo, Rafael Casellas,[...]. Cell 2012
724
100

Genetic screens in human cells using the CRISPR-Cas9 system.
Tim Wang, Jenny J Wei, David M Sabatini, Eric S Lander. Science 2014
100

Activation and repression by oncogenic MYC shape tumour-specific gene expression profiles.
Susanne Walz, Francesca Lorenzin, Jennifer Morton, Katrin E Wiese, Björn von Eyss, Steffi Herold, Lukas Rycak, Hélène Dumay-Odelot, Saadia Karim, Marek Bartkuhn,[...]. Nature 2014
303
100

Model-based analysis of ChIP-Seq (MACS).
Yong Zhang, Tao Liu, Clifford A Meyer, Jérôme Eeckhoute, David S Johnson, Bradley E Bernstein, Chad Nusbaum, Richard M Myers, Myles Brown, Wei Li,[...]. Genome Biol 2008
100

Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex.
Silvana Konermann, Mark D Brigham, Alexandro E Trevino, Julia Joung, Omar O Abudayyeh, Clea Barcena, Patrick D Hsu, Naomi Habib, Jonathan S Gootenberg, Hiroshi Nishimasu,[...]. Nature 2015
100


Fast gapped-read alignment with Bowtie 2.
Ben Langmead, Steven L Salzberg. Nat Methods 2012
100

Genome editing. The new frontier of genome engineering with CRISPR-Cas9.
Jennifer A Doudna, Emmanuelle Charpentier. Science 2014
100

cdc2 phosphorylation is required for its interaction with cyclin.
B Ducommun, P Brambilla, M A Félix, B R Franza, E Karsenti, G Draetta. EMBO J 1991
306
100

WebLogo: a sequence logo generator.
Gavin E Crooks, Gary Hon, John-Marc Chandonia, Steven E Brenner. Genome Res 2004
100

Strategies for controlling CRISPR/Cas9 off-target effects and biological variations in mammalian genome editing experiments.
Michelle L Kimberland, Wangfang Hou, Adolfo Alfonso-Pecchio, Stephen Wilson, Yanhua Rao, Shu Zhang, Quinn Lu. J Biotechnol 2018
48
100


Genomic Copy Number Dictates a Gene-Independent Cell Response to CRISPR/Cas9 Targeting.
Andrew J Aguirre, Robin M Meyers, Barbara A Weir, Francisca Vazquez, Cheng-Zhong Zhang, Uri Ben-David, April Cook, Gavin Ha, William F Harrington, Mihir B Doshi,[...]. Cancer Discov 2016
301
100

Regulation of senescence traits by MAPKs.
Carlos Anerillas, Kotb Abdelmohsen, Myriam Gorospe. Geroscience 2020
38
100


Coexpression of NRASQ61R and BRAFV600E in human melanoma cells activates senescence and increases susceptibility to cell-mediated cytotoxicity.
Carlotta Petti, Alessandra Molla, Claudia Vegetti, Soldano Ferrone, Andrea Anichini, Marialuisa Sensi. Cancer Res 2006
64
100

ATAC-seq: A Method for Assaying Chromatin Accessibility Genome-Wide.
Jason D Buenrostro, Beijing Wu, Howard Y Chang, William J Greenleaf. Curr Protoc Mol Biol 2015
100

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks.
Cole Trapnell, Adam Roberts, Loyal Goff, Geo Pertea, Daehwan Kim, David R Kelley, Harold Pimentel, Steven L Salzberg, John L Rinn, Lior Pachter. Nat Protoc 2012
100

Sequence-specific DNA binding by the c-Myc protein.
T K Blackwell, L Kretzner, E M Blackwood, R N Eisenman, H Weintraub. Science 1990
867
100

Gene essentiality and synthetic lethality in haploid human cells.
Vincent A Blomen, Peter Májek, Lucas T Jae, Johannes W Bigenzahn, Joppe Nieuwenhuis, Jacqueline Staring, Roberto Sacco, Ferdy R van Diemen, Nadine Olk, Alexey Stukalov,[...]. Science 2015
484
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.