Abeed Sarker

Publication Activity (10 Years)

Years Active: 2010-2024
Publications (10 Years): 76

Top Topics

Text Classification

Natural Language

Top Venues

J. Biomed. Informatics

J. Am. Medical Informatics Assoc.

Publications

Yuting Guo, Seyedeh Somayyeh Mousavi, Reza Sameni, Abeed Sarker
Leveraging Large Language Models for Analyzing Blood Pressure Variations Across Biological Sex from Scientific Literature. CoRR (2024)
Drew Walker, Annie Thorne, Sudeshna Das, Jennifer Love, Hannah Cooper, Melvin Livingston III, Abeed Sarker
CARE-SD: Classifier-based analysis for recognizing and eliminating stigmatizing and doubt marker labels in electronic health records: model development and validation. CoRR (2024)
Yao Ge, Sudeshna Das, Karen O'Connor, Mohammed Ali Al-Garadi, Graciela Gonzalez-Hernandez, Abeed Sarker
Reddit-Impacts: A Named Entity Recognition Dataset for Analyzing Clinical and Social Effects of Substance Use Derived from Social Media. CoRR (2024)
Seibi Kobara, Alireza Rafiei, Masoud Nateghi, Selen Bozkurt, Rishikesan Kamaleswaran, Abeed Sarker
Social Media as a Sensor: Analyzing Twitter Data for Breast Cancer Medication Effects Using Natural Language Processing. AIME (1) (2024)
Ari Z. Klein, Juan M. Banda, Yuting Guo, Ana Lucía Schmidt, Dongfang Xu, Ivan Flores Amaro, Raul Rodriguez-Esteban, Abeed Sarker, Graciela Gonzalez-Hernandez
Overview of the 8th Social Media Mining for Health Applications (#SMM4H) shared tasks at the AMIA 2023 Annual Symposium. J. Am. Medical Informatics Assoc. 31 (4) (2024)
Seyedeh Somayyeh Mousavi, Yuting Guo, Abeed Sarker, Reza Sameni
Learning from Two Decades of Blood Pressure Data: Demography-Specific Patterns Across 75 Million Patient Encounters. CoRR (2024)
Yuting Guo, Anthony Ovadje, Mohammed Ali Al-Garadi, Abeed Sarker
Evaluating Large Language Models for Health-Related Text Classification Tasks with Public Social Media Data. CoRR (2024)
Xiang Dai, Sarvnaz Karimi, Abeed Sarker, Ben Hachey, Cécile Paris
MultiADE: A Multi-domain Benchmark for Adverse Drug Event Extraction. CoRR (2024)
Seibi Kobara, Alireza Rafiei, Masoud Nateghi, Selen Bozkurt, Rishikesan Kamaleswaran, Abeed Sarker
Social Media as a Sensor: Analyzing Twitter Data for Breast Cancer Medication Effects Using Natural Language Processing. CoRR (2024)
Sudeshna Das, Yao Ge, Yuting Guo, Swati Rajwal, JaMor Hairston, Jeanne M. Powell, Drew Walker, Snigdha Peddireddy, Sahithi Lakamana, Selen Bozkurt, Matthew A. Reyna, Reza Sameni, Yunyu Xiao, Sangmi Kim, Rasheeta Chandler, Natalie Hernandez, Danielle Mowery, Rachel Wightman, Jennifer Love, Anthony Spadaro, Jeanmarie Perrone, Abeed Sarker
Two-layer retrieval augmented generation framework for low-resource medical question-answering: proof of concept using Reddit data. CoRR (2024)
Yao Ge, Mohammed Ali Al-Garadi, Abeed Sarker
Data Augmentation with Nearest Neighbor Classifier for Few-Shot Named Entity Recognition. MedInfo (2023)
Yuting Guo, Yao Ge, Abeed Sarker
Detection of Medication Mentions and Medication Change Events in Clinical Notes Using Transformer-Based Models. MedInfo (2023)
Yao Ge, Yuting Guo, Sudeshna Das, Mohammed Ali Al-Garadi, Abeed Sarker
Few-shot learning for medical text: A review of advances, trends, and opportunities. J. Biomed. Informatics 144 (2023)
Jeanne M. Powell, Yuting Guo, Abeed Sarker, J. Lucas McKay
Classification of Fall Types in Parkinson's Disease from Self-report Data Using Natural Language Processing. AIME (2023)
Balsam Alkouz, Zaher Al Aghbari, Mohammed Ali Al-Garadi, Abeed Sarker
Deepluenza: Deep learning for influenza detection from Twitter. Expert Syst. Appl. 198 (2022)
Yuting Guo, Swati Rajwal, Sahithi Lakamana, Chia-Chun Chiang, Paul C. Menell, Adnan H. Shahid, Yi-Chieh Chen, Nikita Chhabra, Wan-Ju Chao, Chieh-Ju Chao, Todd J. Schwedt, Imon Banerjee, Abeed Sarker
Generalizable Natural Language Processing Framework for Migraine Reporting from Social Media. CoRR (2022)
Abeed Sarker
Social media mining for toxicovigilance of prescription medications: End-to-end pipeline, challenges and future work. CoRR (2022)
Davy Weissenbacher, Juan Banda, Vera Davydova, Darryl Estrada-Zavala, Luis Gascó Sánchez, Yao Ge, Yuting Guo, Ari Z. Klein, Martin Krallinger, Mathias Leddin, Arjun Magge, Raul Rodriguez-Esteban, Abeed Sarker, Lucia Schmidt, Elena Tutubalina, Graciela Gonzalez-Hernandez
Overview of the Seventh Social Media Mining for Health Applications (#SMM4H) Shared Tasks at COLING 2022. SMM4H@COLING (2022)
Yao Ge, Yuting Guo, Yuan-Chi Yang, Mohammed Ali Al-Garadi, Abeed Sarker
Few-shot learning for medical text: A systematic review. CoRR (2022)
Mohammed Ali Al-Garadi, Sangmi Kim, Yuting Guo, Elise Warren, Yuan-Chi Yang, Sahithi Lakamana, Abeed Sarker
Natural language model for automatic identification of Intimate Partner Violence reports from Twitter. Array 15 (2022)
Yao Ge, Yuting Guo, Yuan-Chi Yang, Mohammed Ali Al-Garadi, Abeed Sarker
A comparison of few-shot and traditional named entity recognition models for medical text. ICHI (2022)
Samah Jamal Fodeh, Mohammed Ali Al-Garadi, Osama Elsankary, Jeanmarie Perrone, William Becker, Abeed Sarker
Utilizing a multi-class classification approach to detect therapeutic and recreational misuse of opioids on Twitter. Comput. Biol. Medicine 129 (2021)
Yuting Guo, Yao Ge, Mohammed Ali Al-Garadi, Abeed Sarker
Pre-trained Transformer-based Classification and Span Detection Models for Social Media Health Applications. SMM4H@NAACL-HLT (2021)
Arjun Magge, Ari Z. Klein, Antonio Miranda-Escalada, Mohammed Ali Al-Garadi, Ilseyar Alimova, Zulfat Miftahutdinov, Eulàlia Farré, Salvador Lima-López, Ivan Flores, Karen O'Connor, Davy Weissenbacher, Elena Tutubalina, Abeed Sarker, Juan M. Banda, Martin Krallinger, Graciela Gonzalez-Hernandez
Overview of the Sixth Social Media Mining for Health Applications (#SMM4H) Shared Tasks at NAACL 2021. SMM4H@NAACL-HLT (2021)
Abeed Sarker
Obtaining insights about nonmedical use of prescription medications from social media via natural language processing. ICWSM Workshops (2021)
Sahithi Lakamana, Abeed Sarker
Tracking the COVID-19 outbreak in India via Twitter. AMIA (2021)
Abeed Sarker
LexExp: a system for automatically expanding concept lexicons for noisy biomedical texts. Bioinform. 37 (16) (2021)
Mohammed Ali Al-Garadi, Yuan-Chi Yang, Haitao Cai, Yucheng Ruan, Karen O'Connor, Graciela Gonzalez-Hernandez, Jeanmarie Perrone, Abeed Sarker
Text classification models for the automatic detection of nonmedical prescription medication use from social media. BMC Medical Informatics Decis. Mak. 21 (1) (2021)
Yao Ge, Yuting Guo, Abeed Sarker
Mining and characterizing long-COVID symptoms from self-reports on Reddit. AMIA (2021)
Mohammed Ali Al-Garadi, Yuan-Chi Yang, Sahithi Lakamana, Jie Lin, Sabrina Li, Angel Xie, Whitney Hogg-Bremer, Mylin Torres, Imon Banerjee, Abeed Sarker
Automatic Breast Cancer Cohort Detection from Social Media for Studying Factors Affecting Patient-Centered Outcomes. AIME (2020)
Abeed Sarker, Yuan-Chi Yang, Mohammed Ali Al-Garadi, Aamir Abbas
A Light-Weight Text Summarization System for Fast Access to Medical Evidence. Frontiers Digit. Health 2 (2020)
Abeed Sarker, Annika DeRoos, Jeanmarie Perrone
Mining social media for prescription medication abuse monitoring: a review and proposal for a data-centric framework. J. Am. Medical Informatics Assoc. 27 (2) (2020)
Abeed Sarker, Sahithi Lakamana, Whitney Hogg-Bremer, Angel Xie, Mohammed Ali Al-Garadi, Yuan-Chi Yang
Self-reported COVID-19 symptoms on Twitter: an analysis and a research resource. J. Am. Medical Informatics Assoc. 27 (8) (2020)
Yuting Guo, Mohammed Ali Al-Garadi, Abeed Sarker
Emory at WNUT-2020 Task 2: Combining Pretrained Deep Learning Models and Feature Enrichment for Informative Tweet Identification. W-NUT@EMNLP (2020)
Ari Z. Klein, Ilseyar Alimova, Ivan Flores, Arjun Magge, Zulfat Miftahutdinov, Anne-Lyse Minard, Karen O'Connor, Abeed Sarker, Elena Tutubalina, Davy Weissenbacher, Graciela Gonzalez-Hernandez
Overview of the Fifth Social Media Mining for Health Applications (#SMM4H) Shared Tasks at COLING 2020. SMM4H@COLING (2020)
Arjun Magge, Abeed Sarker, Azadeh Nikfarjam, Graciela Gonzalez-Hernandez
Comment on: "Deep learning for pharmacovigilance: recurrent neural network architectures for labeling adverse drug reactions in Twitter posts". J. Am. Medical Informatics Assoc. 26 (6) (2019)
Davy Weissenbacher, Abeed Sarker, Ari Z. Klein, Karen O'Connor, Arjun Magge Ranganatha, Graciela Gonzalez-Hernandez
Deep Neural Networks Ensemble for Detecting Medication Mentions in Tweets. CoRR (2019)
Anne Dirkson, Suzan Verberne, Abeed Sarker, Wessel Kraaij
Data-Driven Lexical Normalization for Medical Social Media. Multimodal Technol. Interact. 3 (3) (2019)
Davy Weissenbacher, Abeed Sarker, Arjun Magge, Ashlynn R. Daughton, Karen O'Connor, Michael J. Paul, Graciela Gonzalez-Hernandez
Overview of the Fourth Social Media Mining for Health (SMM4H) Shared Tasks at ACL 2019. SMM4H@ACL (2019)
Anahita Davoudi, Ari Z. Klein, Abeed Sarker, Graciela Gonzalez-Hernandez
Towards Automatic Bot Detection in Twitter for Health-related Tasks. CoRR (2019)
Arjun Magge, Davy Weissenbacher, Abeed Sarker, Matthew Scotch, Graciela Gonzalez-Hernandez
Bi-directional Recurrent Neural Network Models for Geographic Location Extraction in Biomedical Literature. PSB (2019)
Abeed Sarker, Graciela Gonzalez-Hernandez, Jeanmarie Perrone
Towards Automating Location-Specific Opioid Toxicosurveillance from Twitter via Data Science Methods. MedInfo (2019)
Abeed Sarker, Ari Z. Klein, Janet Mee, Polina Harik, Graciela Gonzalez-Hernandez
An interpretable natural language processing system for written medical examination assessment. J. Biomed. Informatics 98 (2019)
Ari Z. Klein, Abeed Sarker, Davy Weissenbacher, Graciela Gonzalez-Hernandez
Towards scaling Twitter for digital epidemiology of birth defects. npj Digit. Medicine 2 (2019)
Davy Weissenbacher, Abeed Sarker, Ari Z. Klein, Karen O'Connor, Arjun Magge, Graciela Gonzalez-Hernandez
Deep neural networks ensemble for detecting medication mentions in tweets. J. Am. Medical Informatics Assoc. 26 (12) (2019)
Ari Z. Klein, Abeed Sarker, Haitao Cai, Davy Weissenbacher, Graciela Gonzalez-Hernandez
Social media mining for birth defects research: A rule-based, bootstrapping approach to collecting data for rare health-related events on Twitter. J. Biomed. Informatics 87 (2018)
Abeed Sarker, Graciela Gonzalez-Hernandez
An unsupervised and customizable misspelling generator for mining noisy health-related text sources. J. Biomed. Informatics 88 (2018)
Davy Weissenbacher, Abeed Sarker, Michael J. Paul, Graciela Gonzalez-Hernandez
Overview of the Third Social Media Mining for Health (SMM4H) Shared Tasks at EMNLP 2018. SMM4H@EMNLP (2018)
Ari Z. Klein, Abeed Sarker, Davy Weissenbacher, Graciela Gonzalez-Hernandez
Automatically Detecting Self-Reported Birth Defect Outcomes on Twitter for Large-scale Epidemiological Research. CoRR (2018)
Graciela Gonzalez-Hernandez, Abeed Sarker, Karen O'Connor, Casey S. Greene, Hongfang Liu
Session Introduction. PSB (2018)
Masoud Rouhizadeh, Arjun Magge, Ari Z. Klein, Abeed Sarker, Graciela Gonzalez
A Rule-based Approach to Determining Pregnancy Timeframe from Contextual Social Media Postings. DH (2018)
Arjun Magge, Davy Weissenbacher, Abeed Sarker, Matthew Scotch, Graciela Gonzalez-Hernandez
Deep neural networks and distant supervision for geographic location mention extraction. Bioinform. 34 (13) (2018)
Abeed Sarker, Maksim Belousov, Jasper Friedrichs, Kai Hakala, Svetlana Kiritchenko, Farrokh Mehryary, Sifei Han, Tung Tran, Anthony Rios, Ramakanth Kavuluru, Berry de Bruijn, Filip Ginter, Debanjan Mahata, Saif M. Mohammad, Goran Nenadic, Graciela Gonzalez-Hernandez
Data and systems for medication-related text classification and concept normalization from Twitter: insights from the Social Media Mining for Health (SMM4H)-2017 shared task. J. Am. Medical Informatics Assoc. 25 (10) (2018)
Abeed Sarker, Graciela Gonzalez-Hernandez
An unsupervised and customizable misspelling generator for mining noisy health-related text sources. CoRR (2018)
Abeed Sarker, Graciela Gonzalez
HLP$@$UPenn at SemEval-2017 Task 4A: A simple, self-optimizing text classification system combining dense and sparse vectors. SemEval@ACL (2017)
Ehsan Emadzadeh, Abeed Sarker, Azadeh Nikfarjam, Graciela Gonzalez-Hernandez
Hybrid Semantic Analysis for Mapping Adverse Drug Reaction Mentions in Tweets to Medical Terminology. AMIA (2017)
Pramod Bharadwaj Chandrashekar, Arjun Magge, Abeed Sarker, Graciela Gonzalez
Social media mining for identification and exploration of health-related information from pregnant women. CoRR (2017)
Abeed Sarker
A customizable pipeline for social media text normalization. Soc. Netw. Anal. Min. 7 (1) (2017)
Abeed Sarker, Diego Mollá Aliod, Cécile Paris
Automated text summarisation and evidence-based medicine: A survey of two domains. CoRR (2017)
Ari Z. Klein, Abeed Sarker, Masoud Rouhizadeh, Karen O'Connor, Graciela Gonzalez
Detecting Personal Medication Intake in Twitter: An Annotated Corpus and Baseline Classification System. BioNLP (2017)
Abeed Sarker, Graciela Gonzalez
Overview of the Second Social Media Mining for Health (SMM4H) Shared Tasks at AMIA 2017. SMM4H@AMIA (2017)
Abeed Sarker, Graciela Gonzalez
Data, tools and resources for mining social media drug chatter. BioTxtM@COLING 2016 (2016)
Abeed Sarker
Automated Extraction of Number of Subjects in Randomised Controlled Trials. CoRR (2016)
Ioannis Korkontzelos, Azadeh Nikfarjam, Matthew Shardlow, Abeed Sarker, Sophia Ananiadou, Graciela Gonzalez-Hernandez
Analysis of the effect of sentiment analysis on extracting adverse drug reactions from tweets and forum posts. J. Biomed. Informatics 62 (2016)
Abeed Sarker, Diego Mollá, Cécile Paris
Query-oriented evidence extraction to support evidence-based medicine practice. J. Biomed. Informatics 59 (2016)
Abbas Chokor, Abeed Sarker, Graciela Gonzalez
Mining the Web for Pharmacovigilance: the Case Study of Duloxetine and Venlafaxine. CoRR (2016)
Abeed Sarker, Graciela Gonzalez
DiegoLab16 at SemEval-2016 Task 4: Sentiment Analysis in Twitter using Centroids, Clusters, and Sentiment Lexicons. SemEval@NAACL-HLT (2016)
Diego Mollá, María Elena Santiago-Martínez, Abeed Sarker, Cécile Paris
A corpus for research in text processing for evidence based medicine. Lang. Resour. Evaluation 50 (4) (2016)
Abeed Sarker, Azadeh Nikfarjam, Graciela Gonzalez-Hernandez
Social Media Mining Shared Task Workshop. PSB (2016)
Ryan Sullivan, Abeed Sarker, Karen O'Connor, Amanda Goodin, Mark Karlsrud, Graciela Gonzalez
Finding Potentially Unsafe Nutritional Supplements from User Reviews with Topic Modeling. PSB (2016)
Michael J. Paul, Abeed Sarker, John S. Brownstein, Azadeh Nikfarjam, Matthew Scotch, Karen L. Smith, Graciela Gonzalez-Hernandez
Session Introduction. PSB (2016)
Azadeh Nikfarjam, Abeed Sarker, Karen O'Connor, Rachel E. Ginn, Graciela Gonzalez-Hernandez
Pharmacovigilance from social media: mining adverse drug reaction mentions using sequence labeling with word embedding cluster features. J. Am. Medical Informatics Assoc. 22 (3) (2015)
Abeed Sarker, Diego Mollá, Cécile Paris
Automatic evidence quality prediction to support evidence-based decision making. Artif. Intell. Medicine 64 (2) (2015)
Abeed Sarker, Rachel E. Ginn, Azadeh Nikfarjam, Karen O'Connor, Karen L. Smith, Swetha Jayaraman, Tejaswi Upadhaya, Graciela Gonzalez-Hernandez
Utilizing social media data for pharmacovigilance: A review. J. Biomed. Informatics 54 (2015)
Abeed Sarker, Graciela Gonzalez
Portable automatic text classification for adverse drug reaction detection via multi-corpus training. J. Biomed. Informatics 53 (2015)
Abeed Sarker, Azadeh Nikfarjam, Davy Weissenbacher, Graciela Gonzalez-Hernandez
DIEGOLab: An Approach for Message-level Sentiment Classification in Twitter. SemEval@NAACL-HLT (2015)
Diego Mollá Aliod, Christopher Jones, Abeed Sarker
Impact of Citing Papers for Summarisation of Clinical Documents. ALTA (2014)
Karen O'Connor, Azadeh Nikfarjam, Rachel E. Ginn, Pranoti Pimpalkhute, Abeed Sarker, Karen L. Smith, Graciela Gonzalez-Hernandez
Pharmacovigilance on Twitter? Mining Tweets for Adverse Drug Reactions. AMIA (2014)
Abeed Sarker, Diego Mollá Aliod, Cécile Paris
Automatic Prediction of Evidence-based Recommendations via Sentence-level Polarity Classification. IJCNLP (2013)
Abeed Sarker, Diego Mollá, Cécile Paris
An Approach for Query-Focused Text Summarisation for Evidence Based Medicine. AIME (2013)
Abeed Sarker, Diego Mollá, Cécile Paris
Extractive evidence based medicine summarisation based on sentence-specific statistics. CBMS (2012)
Abeed Sarker, Diego Mollá Aliod, Cécile Paris
Towards Two-step Multi-document Summarisation for Evidence Based Medicine: A Quantitative Analysis. ALTA (2012)
Abeed Sarker, Diego Mollá, Cécile Paris
Outcome Polarity Identification of Medical Papers. ALTA (2011)
Diego Mollá, Abeed Sarker
Automatic Grading of Evidence: the 2011 ALTA Shared Task. ALTA (2011)
Abeed Sarker, Leonard G. C. Hamey
Improved Reconstruction of Flutter Shutter Images for Motion Blur Reduction. DICTA (2010)