A citation-based method for searching scientific literature

Ram Ajore, Abhishek Niroula, Maroulio Pertesi, Caterina Cafaro, Malte Thodberg, Molly Went, Erik L Bao, Laura Duran-Lozano, Aitzkoa Lopez de Lapuente Portilla, Thorunn Olafsdottir, Nerea Ugidos-Damboriena, Olafur Magnusson, Mehmet Samur, Caleb A Lareau, Gisli H Halldorsson, Gudmar Thorleifsson, Gudmundur L Norddahl, Kristbjorg Gunnarsdottir, Asta Försti, Hartmut Goldschmidt, Kari Hemminki, Frits van Rhee, Scott Kimber, Adam S Sperling, Martin Kaiser, Kenneth Anderson, Ingileif Jonsdottir, Nikhil Munshi, Thorunn Rafnar, Anders Waage, Niels Weinhold, Unnur Thorsteinsdottir, Vijay G Sankaran, Kari Stefansson, Richard Houlston, Björn Nilsson. Nat Commun 2022
Times Cited: 1







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



Times Cited
  Times     Co-cited
Similarity


Comprehensive functional genomic resource and integrative model for the human brain.
Daifeng Wang, Shuang Liu, Jonathan Warrell, Hyejung Won, Xu Shi, Fabio C P Navarro, Declan Clarke, Mengting Gu, Prashant Emani, Yucheng T Yang,[...]. Science 2018
335
100

Genetic and epigenetic fine mapping of causal autoimmune disease variants.
Kyle Kai-How Farh, Alexander Marson, Jiang Zhu, Markus Kleinewietfeld, William J Housley, Samantha Beik, Noam Shoresh, Holly Whitton, Russell J H Ryan, Alexander A Shishkin,[...]. Nature 2015
100

High-resolution analysis of DNA regulatory elements by synthetic saturation mutagenesis.
Rupali P Patwardhan, Choli Lee, Oren Litvin, David L Young, Dana Pe'er, Jay Shendure. Nat Biotechnol 2009
203
100

Candidate silencer elements for the human and mouse genomes.
Naresh Doni Jayavelu, Ajay Jajodia, Arpit Mishra, R David Hawkins. Nat Commun 2020
46
100

The mutational constraint spectrum quantified from variation in 141,456 humans.
Konrad J Karczewski, Laurent C Francioli, Grace Tiao, Beryl B Cummings, Jessica Alföldi, Qingbo Wang, Ryan L Collins, Kristen M Laricchia, Andrea Ganna, Daniel P Birnbaum,[...]. Nature 2020
100

MaveDB: an open-source platform to distribute and interpret data from multiplexed assays of variant effect.
Daniel Esposito, Jochen Weile, Jay Shendure, Lea M Starita, Anthony T Papenfuss, Frederick P Roth, Douglas M Fowler, Alan F Rubin. Genome Biol 2019
43
100

Regulatory variants: from detection to predicting impact.
Elena Rojano, Pedro Seoane, Juan A G Ranea, James R Perkins. Brief Bioinform 2019
50
100

Genome editing with CRISPR-Cas nucleases, base editors, transposases and prime editors.
Andrew V Anzalone, Luke W Koblan, David R Liu. Nat Biotechnol 2020
576
100

Single-cell epigenomics: Recording the past and predicting the future.
Gavin Kelsey, Oliver Stegle, Wolf Reik. Science 2017
203
100

Chromatin activity at GWAS loci identifies T cell states driving complex immune diseases.
Blagoje Soskic, Eddie Cano-Gamez, Deborah J Smyth, Wendy C Rowan, Nikolina Nakic, Jorge Esparza-Gordillo, Lara Bossini-Castillo, David F Tough, Christopher G C Larminie, Paola G Bronson,[...]. Nat Genet 2019
37
100

JASPAR 2020: update of the open-access database of transcription factor binding profiles.
Oriol Fornes, Jaime A Castro-Mondragon, Aziz Khan, Robin van der Lee, Xi Zhang, Phillip A Richmond, Bhavi P Modi, Solenne Correard, Marius Gheorghe, Damir Baranašić,[...]. Nucleic Acids Res 2020
753
100

The NIH Roadmap Epigenomics Mapping Consortium.
Bradley E Bernstein, John A Stamatoyannopoulos, Joseph F Costello, Bing Ren, Aleksandar Milosavljevic, Alexander Meissner, Manolis Kellis, Marco A Marra, Arthur L Beaudet, Joseph R Ecker,[...]. Nat Biotechnol 2010
100

Massively parallel in vivo enhancer assay reveals that highly local features determine the cis-regulatory function of ChIP-seq peaks.
Michael A White, Connie A Myers, Joseph C Corbo, Barak A Cohen. Proc Natl Acad Sci U S A 2013
129
100

Systematic dissection and optimization of inducible enhancers in human cells using a massively parallel reporter assay.
Alexandre Melnikov, Anand Murugan, Xiaolan Zhang, Tiberiu Tesileanu, Li Wang, Peter Rogov, Soheil Feizi, Andreas Gnirke, Curtis G Callan, Justin B Kinney,[...]. Nat Biotechnol 2012
387
100

Deciphering essential cistromes using genome-wide CRISPR screens.
Teng Fei, Wei Li, Jingyu Peng, Tengfei Xiao, Chen-Hao Chen, Alexander Wu, Jialiang Huang, Chongzhi Zang, X Shirley Liu, Myles Brown. Proc Natl Acad Sci U S A 2019
26
100


Annotating non-coding regions of the genome.
Roger P Alexander, Gang Fang, Joel Rozowsky, Michael Snyder, Mark B Gerstein. Nat Rev Genet 2010
282
100

TRUB1 is the predominant pseudouridine synthase acting on mammalian mRNA via a predictable and conserved code.
Modi Safra, Ronit Nir, Daneyal Farouq, Ilya Vainberg Slutskin, Schraga Schwartz. Genome Res 2017
66
100

Global discovery of lupus genetic risk variant allelic enhancer activity.
Xiaoming Lu, Xiaoting Chen, Carmy Forney, Omer Donmez, Daniel Miller, Sreeja Parameswaran, Ted Hong, Yongbo Huang, Mario Pujato, Tareian Cazares,[...]. Nat Commun 2021
11
100

Human 5' UTR design and variant effect prediction from a massively parallel translation assay.
Paul J Sample, Ban Wang, David W Reid, Vlad Presnyak, Iain J McFadyen, David R Morris, Georg Seelig. Nat Biotechnol 2019
79
100

High-throughput and quantitative assessment of enhancer activity in mammals by CapStarr-seq.
Laurent Vanhille, Aurélien Griffon, Muhammad Ahmad Maqbool, Joaquin Zacarias-Cabeza, Lan T M Dao, Nicolas Fernandez, Benoit Ballester, Jean Christophe Andrau, Salvatore Spicuglia. Nat Commun 2015
89
100

Unsupervised pattern discovery in human chromatin structure through genomic segmentation.
Michael M Hoffman, Orion J Buske, Jie Wang, Zhiping Weng, Jeff A Bilmes, William Stafford Noble. Nat Methods 2012
352
100

Identification of Functional Variants in the FAM13A Chronic Obstructive Pulmonary Disease Genome-Wide Association Study Locus by Massively Parallel Reporter Assays.
Peter J Castaldi, Feng Guo, Dandi Qiao, Fei Du, Zun Zar Chi Naing, Yan Li, Betty Pham, Tarjei S Mikkelsen, Michael H Cho, Edwin K Silverman,[...]. Am J Respir Crit Care Med 2019
24
100

CRISPR Interference-Based Platform for Multimodal Genetic Screens in Human iPSC-Derived Neurons.
Ruilin Tian, Mariam A Gachechiladze, Connor H Ludwig, Matthew T Laurie, Jason Y Hong, Diane Nathaniel, Anika V Prabhu, Michael S Fernandopulle, Rajan Patel, Mehrnoosh Abshari,[...]. Neuron 2019
135
100

High-resolution interrogation of functional elements in the noncoding genome.
Neville E Sanjana, Jason Wright, Kaijie Zheng, Ophir Shalem, Pierre Fontanillas, Julia Joung, Christine Cheng, Aviv Regev, Feng Zhang. Science 2016
171
100

Massively parallel synthetic promoter assays reveal the in vivo effects of binding site variants.
Ilaria Mogno, Jamie C Kwasnieski, Barak A Cohen. Genome Res 2013
66
100

Systematic identification of regulatory variants associated with cancer risk.
Song Liu, Yuwen Liu, Qin Zhang, Jiayu Wu, Junbo Liang, Shan Yu, Gong-Hong Wei, Kevin P White, Xiaoyue Wang. Genome Biol 2017
46
100

One-step generation of mice carrying reporter and conditional alleles by CRISPR/Cas-mediated genome engineering.
Hui Yang, Haoyi Wang, Chikdu S Shivalila, Albert W Cheng, Linyu Shi, Rudolf Jaenisch. Cell 2013
100

The Cancer Genome Atlas Pan-Cancer analysis project.
John N Weinstein, Eric A Collisson, Gordon B Mills, Kenna R Mills Shaw, Brad A Ozenberger, Kyle Ellrott, Ilya Shmulevich, Chris Sander, Joshua M Stuart. Nat Genet 2013
100

Genome-wide analysis of somatic noncoding mutation patterns in cancer.
Felix Dietlein, Alex B Wang, Christian Fagre, Anran Tang, Nicolle J M Besselink, Edwin Cuppen, Chunliang Li, Shamil R Sunyaev, James T Neal, Eliezer M Van Allen. Science 2022
4
100

A tiling-deletion-based genetic screen for cis-regulatory element identification in mammalian cells.
Yarui Diao, Rongxin Fang, Bin Li, Zhipeng Meng, Juntao Yu, Yunjiang Qiu, Kimberly C Lin, Hui Huang, Tristin Liu, Ryan J Marina,[...]. Nat Methods 2017
135
100

Biological relevance of computationally predicted pathogenicity of noncoding variants.
Li Liu, Maxwell D Sanderford, Ravi Patel, Pramod Chandrashekar, Greg Gibson, Sudhir Kumar. Nat Commun 2019
24
100

A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens.
Molly Gasperini, Andrew J Hill, José L McFaline-Figueroa, Beth Martin, Seungsoo Kim, Melissa D Zhang, Dana Jackson, Anh Leith, Jacob Schreiber, William S Noble,[...]. Cell 2019
176
100

A Massively Parallel Reporter Assay of 3' UTR Sequences Identifies In Vivo Rules for mRNA Degradation.
Michal Rabani, Lindsey Pieper, Guo-Liang Chew, Alexander F Schier. Mol Cell 2017
49
100


Recurrent somatic mutations in regulatory regions of human cancer genomes.
Collin Melton, Jason A Reuter, Damek V Spacek, Michael Snyder. Nat Genet 2015
174
100

Dissection of c-AMP Response Element Architecture by Using Genomic and Episomal Massively Parallel Reporter Assays.
Jessica E Davis, Kimberly D Insigne, Eric M Jones, Quinn A Hastings, W Clifford Boldridge, Sriram Kosuri. Cell Syst 2020
11
100

Systematic dissection of transcriptional regulatory networks by genome-scale and single-cell CRISPR screens.
Rui Lopes, Kathleen Sprouffske, Caibin Sheng, Esther C H Uijttewaal, Adriana Emma Wesdorp, Jan Dahinden, Simon Wengert, Juan Diaz-Miyar, Umut Yildiz, Melusine Bleu,[...]. Sci Adv 2021
9
100

Functional regulatory variants implicate distinct transcriptional networks in dementia.
Yonatan A Cooper, Noam Teyssier, Nina M Dräger, Qiuyu Guo, Jessica E Davis, Sydney M Sattler, Zhongan Yang, Abdulsamie Patel, Sarah Wu, Sriram Kosuri,[...]. Science 2022
8
100

Systematic analysis of binding of transcription factors to noncoding variants.
Jian Yan, Yunjiang Qiu, André M Ribeiro Dos Santos, Yimeng Yin, Yang E Li, Nick Vinckier, Naoki Nariai, Paola Benaglio, Anugraha Raman, Xiaoyu Li,[...]. Nature 2021
32
100

Prioritizing disease and trait causal variants at the TNFAIP3 locus using functional and genomic features.
John P Ray, Carl G de Boer, Charles P Fulco, Caleb A Lareau, Masahiro Kanai, Jacob C Ulirsch, Ryan Tewhey, Leif S Ludwig, Steven K Reilly, Drew T Bergman,[...]. Nat Commun 2020
23
100

Genome-wide mapping of autonomous promoter activity in human cells.
Joris van Arensbergen, Vincent D FitzPatrick, Marcel de Haas, Ludo Pagie, Jasper Sluimer, Harmen J Bussemaker, Bas van Steensel. Nat Biotechnol 2017
46
100

TRANSFAC: a database on transcription factors and their DNA binding sites.
E Wingender, P Dietze, H Karas, R Knüppel. Nucleic Acids Res 1996
694
100

Parallel functional testing identifies enhancers active in early postnatal mouse brain.
Jason T Lambert, Linda Su-Feher, Karol Cichewicz, Tracy L Warren, Iva Zdilar, Yurong Wang, Kenneth J Lim, Jessica L Haigh, Sarah J Morse, Cesar P Canales,[...]. Elife 2021
4
100

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
100

Systematic mapping of functional enhancer-promoter connections with CRISPR interference.
Charles P Fulco, Mathias Munschauer, Rockwell Anyoha, Glen Munson, Sharon R Grossman, Elizabeth M Perez, Michael Kane, Brian Cleary, Eric S Lander, Jesse M Engreitz. Science 2016
287
100

Massively parallel reporter perturbation assays uncover temporal regulatory architecture during neural differentiation.
Anat Kreimer, Tal Ashuach, Fumitaka Inoue, Alex Khodaverdian, Chengyu Deng, Nir Yosef, Nadav Ahituv. Nat Commun 2022
1
100

Massively parallel decoding of mammalian regulatory sequences supports a flexible organizational model.
Robin P Smith, Leila Taher, Rupali P Patwardhan, Mee J Kim, Fumitaka Inoue, Jay Shendure, Ivan Ovcharenko, Nadav Ahituv. Nat Genet 2013
141
100

Deciphering regulatory DNA sequences and noncoding genetic variants using neural network models of massively parallel reporter assays.
Rajiv Movva, Peyton Greenside, Georgi K Marinov, Surag Nair, Avanti Shrikumar, Anshul Kundaje. PLoS One 2019
29
100

Dissecting Immune Circuits by Linking CRISPR-Pooled Screens with Single-Cell RNA-Seq.
Diego Adhemar Jaitin, Assaf Weiner, Ido Yofe, David Lara-Astiaso, Hadas Keren-Shaul, Eyal David, Tomer Meir Salame, Amos Tanay, Alexander van Oudenaarden, Ido Amit. Cell 2016
357
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.