A citation-based method for searching scientific literature

Jinhyuk Lee, Wonjin Yoon, Sungdong Kim, Donghyeon Kim, Sunkyu Kim, Chan Ho So, Jaewoo Kang. Bioinformatics 2020
Times Cited: 474







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



Times Cited
  Times     Co-cited
Similarity


MIMIC-III, a freely accessible critical care database.
Alistair E W Johnson, Tom J Pollard, Lu Shen, Li-Wei H Lehman, Mengling Feng, Mohammad Ghassemi, Benjamin Moody, Peter Szolovits, Leo Anthony Celi, Roger G Mark. Sci Data 2016
19


Long short-term memory.
S Hochreiter, J Schmidhuber. Neural Comput 1997
9

Mayo clinical Text Analysis and Knowledge Extraction System (cTAKES): architecture, component evaluation and applications.
Guergana K Savova, James J Masanz, Philip V Ogren, Jiaping Zheng, Sunghwan Sohn, Karin C Kipper-Schuler, Christopher G Chute. J Am Med Inform Assoc 2010
773
6

Enhancing clinical concept extraction with contextual embeddings.
Yuqi Si, Jingqi Wang, Hua Xu, Kirk Roberts. J Am Med Inform Assoc 2019
61
9

Clinical information extraction applications: A literature review.
Yanshan Wang, Liwei Wang, Majid Rastegar-Mojarad, Sungrim Moon, Feichen Shen, Naveed Afzal, Sijia Liu, Yuqun Zeng, Saeed Mehrabi, Sunghwan Sohn,[...]. J Biomed Inform 2018
200
6

PhysioBank, PhysioToolkit, and PhysioNet: components of a new research resource for complex physiologic signals.
A L Goldberger, L A Amaral, L Glass, J M Hausdorff, P C Ivanov, R G Mark, J E Mietus, G B Moody, C K Peng, H E Stanley. Circulation 2000
4

Clinical concept extraction using transformers.
Xi Yang, Jiang Bian, William R Hogan, Yonghui Wu. J Am Med Inform Assoc 2020
14
28

The DDI corpus: an annotated corpus with pharmacological substances and drug-drug interactions.
María Herrero-Zazo, Isabel Segura-Bedmar, Paloma Martínez, Thierry Declerck. J Biomed Inform 2013
110
4


Evaluating temporal relations in clinical text: 2012 i2b2 Challenge.
Weiyi Sun, Anna Rumshisky, Ozlem Uzuner. J Am Med Inform Assoc 2013
143
4

2018 n2c2 shared task on adverse drug events and medication extraction in electronic health records.
Sam Henry, Kevin Buchan, Michele Filannino, Amber Stubbs, Ozlem Uzuner. J Am Med Inform Assoc 2020
35
11

2010 i2b2/VA challenge on concepts, assertions, and relations in clinical text.
Özlem Uzuner, Brett R South, Shuying Shen, Scott L DuVall. J Am Med Inform Assoc 2011
379
4

Clinical Concept Embeddings Learned from Massive Sources of Multimodal Medical Data.
Andrew L Beam, Benjamin Kompa, Allen Schmaltz, Inbar Fried, Griffin Weber, Nathan Palmer, Xu Shi, Tianxi Cai, Isaac S Kohane. Pac Symp Biocomput 2020
31
12


BioCreative V CDR task corpus: a resource for chemical disease relation extraction.
Jiao Li, Yueping Sun, Robin J Johnson, Daniela Sciaky, Chih-Hsuan Wei, Robert Leaman, Allan Peter Davis, Carolyn J Mattingly, Thomas C Wiegers, Zhiyong Lu. Database (Oxford) 2016
83
4

Deep learning with word embeddings improves biomedical named entity recognition.
Maryam Habibi, Leon Weber, Mariana Neves, David Luis Wiegandt, Ulf Leser. Bioinformatics 2017
130
4

A neural network multi-task learning approach to biomedical named entity recognition.
Gamal Crichton, Sampo Pyysalo, Billy Chiu, Anna Korhonen. BMC Bioinformatics 2017
33
12

Cross-type biomedical named entity recognition with deep multi-task learning.
Xuan Wang, Yu Zhang, Xiang Ren, Yuhao Zhang, Marinka Zitnik, Jingbo Shang, Curtis Langlotz, Jiawei Han. Bioinformatics 2019
40
10

An overview of the BIOASQ large-scale biomedical semantic indexing and question answering competition.
George Tsatsaronis, Georgios Balikas, Prodromos Malakasiotis, Ioannis Partalas, Matthias Zschunke, Michael R Alvers, Dirk Weissenborn, Anastasia Krithara, Sergios Petridis, Dimitris Polychronopoulos,[...]. BMC Bioinformatics 2015
55
7

Deep learning.
Yann LeCun, Yoshua Bengio, Geoffrey Hinton. Nature 2015
4

Deep learning in clinical natural language processing: a methodical review.
Stephen Wu, Kirk Roberts, Surabhi Datta, Jingcheng Du, Zongcheng Ji, Yuqi Si, Sarvesh Soni, Qiong Wang, Qiang Wei, Yang Xiang,[...]. J Am Med Inform Assoc 2020
67
5

Recognizing obesity and comorbidities in sparse data.
Ozlem Uzuner. J Am Med Inform Assoc 2009
133
3

A general natural-language text processor for clinical radiology.
C Friedman, P O Alderson, J H Austin, J J Cimino, S B Johnson. J Am Med Inform Assoc 1994
397
3

Comparing deep learning and concept extraction based methods for patient phenotyping from clinical narratives.
Sebastian Gehrmann, Franck Dernoncourt, Yeran Li, Eric T Carlson, Joy T Wu, Jonathan Welt, John Foote, Edward T Moseley, David W Grant, Patrick D Tyler,[...]. PLoS One 2018
64
4

Dermatologist-level classification of skin cancer with deep neural networks.
Andre Esteva, Brett Kuprel, Roberto A Novoa, Justin Ko, Susan M Swetter, Helen M Blau, Sebastian Thrun. Nature 2017
3

Diagnosis code assignment: models and evaluation metrics.
Adler Perotte, Rimma Pivovarov, Karthik Natarajan, Nicole Weiskopf, Frank Wood, Noémie Elhadad. J Am Med Inform Assoc 2014
60
5

Exploiting sequence labeling framework to extract document-level relations from biomedical texts.
Zhiheng Li, Zhihao Yang, Yang Xiang, Ling Luo, Yuanyuan Sun, Hongfei Lin. BMC Bioinformatics 2020
5
60



Natural language processing to extract symptoms of severe mental illness from clinical text: the Clinical Record Interactive Search Comprehensive Data Extraction (CRIS-CODE) project.
Richard G Jackson, Rashmi Patel, Nishamali Jayatilleke, Anna Kolliakou, Michael Ball, Genevieve Gorrell, Angus Roberts, Richard J Dobson, Robert Stewart. BMJ Open 2017
82
3


DrugBank 5.0: a major update to the DrugBank database for 2018.
David S Wishart, Yannick D Feunang, An C Guo, Elvis J Lo, Ana Marcu, Jason R Grant, Tanvir Sajed, Daniel Johnson, Carin Li, Zinat Sayeeda,[...]. Nucleic Acids Res 2018
3

miRBase: from microRNA sequences to function.
Ana Kozomara, Maria Birgaoanu, Sam Griffiths-Jones. Nucleic Acids Res 2019
3

Detecting Adverse Drug Events with Rapidly Trained Classification Models.
Alec B Chapman, Kelly S Peterson, Patrick R Alba, Scott L DuVall, Olga V Patterson. Drug Saf 2019
20
15

Natural Language Processing for EHR-Based Pharmacovigilance: A Structured Review.
Yuan Luo, William K Thompson, Timothy M Herr, Zexian Zeng, Mark A Berendsen, Siddhartha R Jonnalagadda, Matthew B Carson, Justin Starren. Drug Saf 2017
57
5

Ensemble method-based extraction of medication and related information from clinical texts.
Youngjun Kim, Stéphane M Meystre. J Am Med Inform Assoc 2020
13
23

A study of deep learning approaches for medication and adverse drug event extraction from clinical text.
Qiang Wei, Zongcheng Ji, Zhiheng Li, Jingcheng Du, Jingqi Wang, Jun Xu, Yang Xiang, Firat Tiryaki, Stephen Wu, Yaoyun Zhang,[...]. J Am Med Inform Assoc 2020
27
11

MT-clinical BERT: scaling clinical information extraction with multitask learning.
Andriy Mulyar, Ozlem Uzuner, Bridget McInnes. J Am Med Inform Assoc 2021
4
75

A comparison of word embeddings for the biomedical natural language processing.
Yanshan Wang, Sijia Liu, Naveed Afzal, Majid Rastegar-Mojarad, Liwei Wang, Feichen Shen, Paul Kingsbury, Hongfang Liu. J Biomed Inform 2018
89
3

BioWordVec, improving biomedical word embeddings with subword information and MeSH.
Yijia Zhang, Qingyu Chen, Zhihao Yang, Hongfei Lin, Zhiyong Lu. Sci Data 2019
73
4

A survey of word embeddings for clinical text.
Faiza Khan Khattak, Serena Jeblee, Chloé Pou-Prom, Mohamed Abdalla, Christopher Meaney, Frank Rudzicz. J Biomed Inform 2019
21
14


BEHRT: Transformer for Electronic Health Records.
Yikuan Li, Shishir Rao, José Roberto Ayala Solares, Abdelaali Hassaine, Rema Ramakrishnan, Dexter Canoy, Yajie Zhu, Kazem Rahimi, Gholamreza Salimi-Khorshidi. Sci Rep 2020
41
7

Comparative experiments on learning information extractors for proteins and their interactions.
Razvan Bunescu, Ruifang Ge, Rohit J Kate, Edward M Marcotte, Raymond J Mooney, Arun K Ramani, Yuk Wah Wong. Artif Intell Med 2005
128
3

Biomedical named entity recognition using BERT in the machine reading comprehension framework.
Cong Sun, Zhihao Yang, Lei Wang, Yin Zhang, Hongfei Lin, Jian Wang. J Biomed Inform 2021
5
60

Cadec: A corpus of adverse drug event annotations.
Sarvnaz Karimi, Alejandro Metke-Jimenez, Madonna Kemp, Chen Wang. J Biomed Inform 2015
40
7


Towards reliable named entity recognition in the biomedical domain.
John M Giorgi, Gary D Bader. Bioinformatics 2020
14
21

Deep EHR: A Survey of Recent Advances in Deep Learning Techniques for Electronic Health Record (EHR) Analysis.
Benjamin Shickel, Patrick James Tighe, Azra Bihorac, Parisa Rashidi. IEEE J Biomed Health Inform 2018
244
3


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.