A citation-based method for searching scientific literature

Hongxiu Wen, Yongjin Li, Sami N Malek, Yeong C Kim, Jia Xu, Peixian Chen, Fengxia Xiao, Xin Huang, Xianzheng Zhou, Zhenyu Xuan, Shiva Mankala, Guihua Hou, Janet D Rowley, Michael Q Zhang, San Ming Wang. PLoS One 2012
Times Cited: 26







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



Times Cited
  Times     Co-cited
Similarity


Genomic and epigenomic landscapes of adult de novo acute myeloid leukemia.
Timothy J Ley, Christopher Miller, Li Ding, Benjamin J Raphael, Andrew J Mungall, A Gordon Robertson, Katherine Hoadley, Timothy J Triche, Peter W Laird, Jack D Baty,[...]. N Engl J Med 2013
38

Recurrent chimeric fusion RNAs in non-cancer tissues and cells.
Mihaela Babiceanu, Fujun Qin, Zhongqiu Xie, Yuemeng Jia, Kevin Lopez, Nick Janus, Loryn Facemire, Shailesh Kumar, Yuwei Pang, Yanjun Qi,[...]. Nucleic Acids Res 2016
105
26

Chimeric transcript generated by cis-splicing of adjacent genes regulates prostate cancer cell proliferation.
Yanmei Zhang, Mei Gong, Huiling Yuan, Hong G Park, Henry F Frierson, Hui Li. Cancer Discov 2012
98
23

DNA sequencing of a cytogenetically normal acute myeloid leukaemia genome.
Timothy J Ley, Elaine R Mardis, Li Ding, Bob Fulton, Michael D McLellan, Ken Chen, David Dooling, Brian H Dunford-Shore, Sean McGrath, Matthew Hickenbotham,[...]. Nature 2008
909
19

CBFA2T3-GLIS2 fusion transcript is a novel common feature in pediatric, cytogenetically normal AML, not restricted to FAB M7 subtype.
Riccardo Masetti, Martina Pigazzi, Marco Togni, Annalisa Astolfi, Valentina Indio, Elena Manara, Rita Casadio, Andrea Pession, Giuseppe Basso, Franco Locatelli. Blood 2013
82
19

Recurring mutations found by sequencing an acute myeloid leukemia genome.
Elaine R Mardis, Li Ding, David J Dooling, David E Larson, Michael D McLellan, Ken Chen, Daniel C Koboldt, Robert S Fulton, Kim D Delehaunty, Sean D McGrath,[...]. N Engl J Med 2009
19

Discovery of CTCF-sensitive Cis-spliced fusion RNAs between adjacent genes in human prostate cells.
Fujun Qin, Zhenguo Song, Mihaela Babiceanu, Yansu Song, Loryn Facemire, Ritambhara Singh, Mazhar Adli, Hui Li. PLoS Genet 2015
59
19

Clonal evolution in relapsed acute myeloid leukaemia revealed by whole-genome sequencing.
Li Ding, Timothy J Ley, David E Larson, Christopher A Miller, Daniel C Koboldt, John S Welch, Julie K Ritchey, Margaret A Young, Tamara Lamprecht, Michael D McLellan,[...]. Nature 2012
15

Expression of conjoined genes: another mechanism for gene regulation in eukaryotes.
Tulika Prakash, Vineet K Sharma, Naoki Adati, Ritsuko Ozawa, Naveen Kumar, Yuichiro Nishida, Takayoshi Fujikake, Tadayuki Takeda, Todd D Taylor. PLoS One 2010
73
15

The impact of translocations and gene fusions on cancer causation.
Felix Mitelman, Bertil Johansson, Fredrik Mertens. Nat Rev Cancer 2007
892
15

Recurrent fusion of TMPRSS2 and ETS transcription factor genes in prostate cancer.
Scott A Tomlins, Daniel R Rhodes, Sven Perner, Saravana M Dhanasekaran, Rohit Mehra, Xiao-Wei Sun, Sooryanarayana Varambally, Xuhong Cao, Joelle Tchinda, Rainer Kuefer,[...]. Science 2005
15

ChimeraScan: a tool for identifying chimeric transcription in sequencing data.
Matthew K Iyer, Arul M Chinnaiyan, Christopher A Maher. Bioinformatics 2011
197
15

Transcriptome sequencing to detect gene fusions in cancer.
Christopher A Maher, Chandan Kumar-Sinha, Xuhong Cao, Shanker Kalyana-Sundaram, Bo Han, Xiaojun Jing, Lee Sam, Terrence Barrette, Nallasivam Palanisamy, Arul M Chinnaiyan. Nature 2009
590
15

Deep RNA sequencing analysis of readthrough gene fusions in human prostate adenocarcinoma and reference samples.
Serban Nacu, Wenlin Yuan, Zhengyan Kan, Deepali Bhatt, Celina Sanchez Rivers, Jeremy Stinson, Brock A Peters, Zora Modrusan, Kenneth Jung, Somasekar Seshagiri,[...]. BMC Med Genomics 2011
113
15

The landscape and therapeutic relevance of cancer-associated transcript fusions.
K Yoshihara, Q Wang, W Torres-Garcia, S Zheng, R Vegesna, H Kim, R G W Verhaak. Oncogene 2015
298
15

A chimeric RNA characteristic of rhabdomyosarcoma in normal myogenesis process.
Huiling Yuan, Fujun Qin, Mercedeh Movassagh, Hong Park, Wendy Golden, Zhongqiu Xie, Peng Zhang, Jeffrey Sklar, Hui Li. Cancer Discov 2013
57
15

Transcription-mediated gene fusion in the human genome.
Pinchas Akiva, Amir Toporik, Sarit Edelheit, Yifat Peretz, Alex Diber, Ronen Shemesh, Amit Novik, Rotem Sorek. Genome Res 2006
208
15

Tandem chimerism as a means to increase protein complexity in the human genome.
Genís Parra, Alexandre Reymond, Noura Dabbouseh, Emmanouil T Dermitzakis, Robert Castelo, Timothy M Thomson, Stylianos E Antonarakis, Roderic Guigó. Genome Res 2006
154
15

Diagnosis and management of AML in adults: 2017 ELN recommendations from an international expert panel.
Hartmut Döhner, Elihu Estey, David Grimwade, Sergio Amadori, Frederick R Appelbaum, Thomas Büchner, Hervé Dombret, Benjamin L Ebert, Pierre Fenaux, Richard A Larson,[...]. Blood 2017
15

A novel bioinformatics pipeline for identification and characterization of fusion transcripts in breast cancer and normal cell lines.
Yan W Asmann, Asif Hossain, Brian M Necela, Sumit Middha, Krishna R Kalari, Zhifu Sun, High-Seng Chai, David W Williamson, Derek Radisky, Gary P Schroth,[...]. Nucleic Acids Res 2011
77
11

Detection of redundant fusion transcripts as biomarkers or disease-specific therapeutic targets in breast cancer.
Yan W Asmann, Brian M Necela, Krishna R Kalari, Asif Hossain, Tiffany R Baker, Jennifer M Carr, Caroline Davis, Julie E Getz, Galen Hostetter, Xing Li,[...]. Cancer Res 2012
72
11


The origin and evolution of mutations in acute myeloid leukemia.
John S Welch, Timothy J Ley, Daniel C Link, Christopher A Miller, David E Larson, Daniel C Koboldt, Lukas D Wartman, Tamara L Lamprecht, Fulu Liu, Jun Xia,[...]. Cell 2012
11

Detailed molecular characterisation of acute myeloid leukaemia with a normal karyotype using targeted DNA capture.
N Conte, I Varela, C Grove, N Manes, K Yusa, T Moreno, A Segonds-Pichon, A Bench, E Gudgin, B Herman,[...]. Leukemia 2013
23
13

DNMT3A mutations in acute myeloid leukemia.
Timothy J Ley, Li Ding, Matthew J Walter, Michael D McLellan, Tamara Lamprecht, David E Larson, Cyriac Kandoth, Jacqueline E Payton, Jack Baty, John Welch,[...]. N Engl J Med 2010
11

Comprehensive analysis of transcriptome variation uncovers known and novel driver events in T-cell acute lymphoblastic leukemia.
Zeynep Kalender Atak, Valentina Gianfelici, Gert Hulselmans, Kim De Keersmaecker, Arun George Devasia, Ellen Geerdens, Nicole Mentens, Sabina Chiaretti, Kaat Durinck, Anne Uyttebroeck,[...]. PLoS Genet 2013
94
11

Exome sequencing identifies recurrent mutations of the splicing factor SF3B1 gene in chronic lymphocytic leukemia.
Víctor Quesada, Laura Conde, Neus Villamor, Gonzalo R Ordóñez, Pedro Jares, Laia Bassaganyas, Andrew J Ramsay, Sílvia Beà, Magda Pinyol, Alejandra Martínez-Trillos,[...]. Nat Genet 2011
719
11

Identification of pre-leukaemic haematopoietic stem cells in acute leukaemia.
Liran I Shlush, Sasan Zandi, Amanda Mitchell, Weihsu Claire Chen, Joseph M Brandwein, Vikas Gupta, James A Kennedy, Aaron D Schimmer, Andre C Schuh, Karen W Yee,[...]. Nature 2014
964
11

DHH-RHEBL1 fusion transcript: a novel recurrent feature in the new landscape of pediatric CBFA2T3-GLIS2-positive acute myeloid leukemia.
Riccardo Masetti, Marco Togni, Annalisa Astolfi, Martina Pigazzi, Elena Manara, Valentina Indio, Carmelo Rizzari, Sergio Rutella, Giuseppe Basso, Andrea Pession,[...]. Oncotarget 2013
18
16

Mutations in nucleophosmin (NPM1) in acute myeloid leukemia (AML): association with other gene abnormalities and previously established gene expression signatures and their favorable prognostic significance.
Roel G W Verhaak, Chantal S Goudswaard, Wim van Putten, Maarten A Bijl, Mathijs A Sanders, Wendy Hugens, André G Uitterlinden, Claudia A J Erpelinck, Ruud Delwel, Bob Löwenberg,[...]. Blood 2005
435
11

deFuse: an algorithm for gene fusion discovery in tumor RNA-Seq data.
Andrew McPherson, Fereydoun Hormozdiari, Abdalnasser Zayed, Ryan Giuliany, Gavin Ha, Mark G F Sun, Malachi Griffith, Alireza Heravi Moussavi, Janine Senz, Nataliya Melnyk,[...]. PLoS Comput Biol 2011
381
11

Recurrent read-through fusion transcripts in breast cancer.
Katherine E Varley, Jason Gertz, Brian S Roberts, Nicholas S Davis, Kevin M Bowling, Marie K Kirby, Amy S Nesmith, Patsy G Oliver, William E Grizzle, Andres Forero,[...]. Breast Cancer Res Treat 2014
106
11

Recurrent chimeric RNAs enriched in human prostate cancer identified by deep sequencing.
Kalpana Kannan, Liguo Wang, Jianghua Wang, Michael M Ittmann, Wei Li, Laising Yen. Proc Natl Acad Sci U S A 2011
130
11


TFG, a target of chromosome translocations in lymphoma and soft tissue tumors, fuses to GPR128 in healthy individuals.
Andrew Chase, Thomas Ernst, Andreas Fiebig, Andrew Collins, Francis Grand, Philipp Erben, Andreas Reiter, Stefan Schreiber, Nicholas C P Cross. Haematologica 2010
45
11

Integrative transcriptome sequencing identifies trans-splicing events with important roles in human embryonic stem cell pluripotency.
Chan-Shuo Wu, Chun-Ying Yu, Ching-Yu Chuang, Michael Hsiao, Cheng-Fu Kao, Hung-Chih Kuo, Trees-Juen Chuang. Genome Res 2014
71
11

Comprehensive evaluation of fusion transcript detection algorithms and a meta-caller to combine top performing methods in paired-end RNA-seq data.
Silvia Liu, Wei-Hsiang Tsai, Ying Ding, Rui Chen, Zhou Fang, Zhiguang Huo, SungHwan Kim, Tianzhou Ma, Ting-Yu Chang, Nolan Michael Priedigkeit,[...]. Nucleic Acids Res 2016
99
11

Identification of the transforming EML4-ALK fusion gene in non-small-cell lung cancer.
Manabu Soda, Young Lim Choi, Munehiro Enomoto, Shuji Takada, Yoshihiro Yamashita, Shunpei Ishikawa, Shin-ichiro Fujiwara, Hideki Watanabe, Kentaro Kurashina, Hisashi Hatanaka,[...]. Nature 2007
11

Chimeric RNAs generated by intergenic splicing in normal and cancer cells.
Kasey Jividen, Hui Li. Genes Chromosomes Cancer 2014
51
11

A neoplastic gene fusion mimics trans-splicing of RNAs in normal human cells.
Hui Li, Jinglan Wang, Gil Mor, Jeffrey Sklar. Science 2008
204
11

SLC45A3-ELK4 is a novel and frequent erythroblast transformation-specific fusion transcript in prostate cancer.
David S Rickman, Dorothee Pflueger, Benjamin Moss, Vanessa E VanDoren, Chen X Chen, Alexandre de la Taille, Rainer Kuefer, Ashutosh K Tewari, Sunita R Setlur, Francesca Demichelis,[...]. Cancer Res 2009
145
11

Identification of the NUP98-PHF23 fusion gene in pediatric cytogenetically normal acute myeloid leukemia by whole-transcriptome sequencing.
Marco Togni, Riccardo Masetti, Martina Pigazzi, Annalisa Astolfi, Daniele Zama, Valentina Indio, Salvatore Serravalle, Elena Manara, Valeria Bisio, Carmelo Rizzari,[...]. J Hematol Oncol 2015
8
37

Tandem RNA chimeras contribute to transcriptome diversity in human population and are associated with intronic genetic variants.
Liliana Greger, Jing Su, Johan Rung, Pedro G Ferreira, Tuuli Lappalainen, Emmanouil T Dermitzakis, Alvis Brazma. PLoS One 2014
24
12

The emerging complexity of gene fusions in cancer.
Fredrik Mertens, Bertil Johansson, Thoas Fioretos, Felix Mitelman. Nat Rev Cancer 2015
368
11

Genomic Classification and Prognosis in Acute Myeloid Leukemia.
Elli Papaemmanuil, Moritz Gerstung, Lars Bullinger, Verena I Gaidzik, Peter Paschka, Nicola D Roberts, Nicola E Potter, Michael Heuser, Felicitas Thol, Niccolo Bolli,[...]. N Engl J Med 2016
11

TumorFusions: an integrative resource for cancer-associated transcript fusions.
Xin Hu, Qianghu Wang, Ming Tang, Floris Barthel, Samirkumar Amin, Kosuke Yoshihara, Frederick M Lang, Emmanuel Martinez-Ledesma, Soo Hyun Lee, Siyuan Zheng,[...]. Nucleic Acids Res 2018
107
11

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data.
Mark D Robinson, Davis J McCarthy, Gordon K Smyth. Bioinformatics 2010
7

TopHat: discovering splice junctions with RNA-Seq.
Cole Trapnell, Lior Pachter, Steven L Salzberg. Bioinformatics 2009
7

Mutations in the DNMT3A exon 23 independently predict poor outcome in older patients with acute myeloid leukemia: a SWOG report.
F Ostronoff, M Othus, P A Ho, M Kutny, D E Geraghty, S H Petersdorf, J E Godwin, C L Willman, J P Radich, F R Appelbaum,[...]. Leukemia 2013
38
7

GATA2 zinc finger 1 mutations associated with biallelic CEBPA mutations define a unique genetic entity of acute myeloid leukemia.
Philipp A Greif, Annika Dufour, Nikola P Konstandin, Bianka Ksienzyk, Evelyn Zellmeier, Belay Tizazu, Jutta Sturm, Tobias Benthaus, Tobias Herold, Marjan Yaghmaie,[...]. Blood 2012
109
7


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.