nlptechx.github.io

In 2019

1. Identification of conclusive association entities in biomedical articles

2. LSTMVoter: chemical named entity recognition using a conglomerate of sequence labeling tools

3. Automatic identification and extraction of medical conditions and evidences from electronic health records

4. ProvCaRe: Characterizing scientific reproducibility of biomedical research studies using semantic provenance metadata

5. Adverse Drug Events Detection in Clinical Notes by Jointly Modeling Entities and Relations Using Neural Networks

6. MADEx: A System for Detecting Medications, Adverse Drug Events, and Their Relations from Clinical Notes

7. Enhanced Entity Extraction Using Big Data Mechanics

In 2018

1. A global network of biomedical relationships derived from text

2. Bf3R at SemEval-2018 Task 7: Evaluating Two Relation Extraction Tools for Finding Semantic Relations in Biomedical Abstracts

NLP terms:

• POS: Patrs of speech tagging
• NER: Named entity recognition
• CMS: Content Management Sysytem

Technologies

• CaseOLAP: Context-aware Semantic Online Analytical Processing
• SegPhrase+ : Phrase mining Algorithm
• LINE : Large Scale Information Network Embedding
• MCX: Multidimentional Content Exploration
• RepPhrase: Representative Phrase

MCX

• Paper: Multidimensional Content eXploration
• Github:

CaseOLAP, Text-cube, RepPhrase

• Paper: Multi-Dimensional, Phrase-Based Summarization in Text Cubes
• OLAP: OLAP from Oracle
• Paper: A Text Cube Approach to Human, Social and Cultural Behavior in the Twitter Stream
• Book: Phrase Mining from Massive Text and Its Applications-17
• Book: Mining Latent Entity Structures-15
• Github:

SLING: 19 Oct 2017

• Paper: SLING: A framework for frame semantic parsing
• Github: github

Highway Network (LM-LSTM-CRF): 15 Sep 2017

• Paper: Empower Sequence Labeling with Task-Aware Neural Language Model
• Github: github-Python

AutoPhrase: 11 Mar 2017

• Paper: Automated Phrase Mining from Massive Text Corpora
• Github: github-C++

SegPhrase+ : June 4, 2015

• Paper: Mining Quality Phrases from Massive Text Corpora
• Talk: Mining Quality Phrases from Massive Text Corpora
• Github: github-C++

ToPMine : September 4th 2015

• Paper: Scalable Topical Phrase Mining from Text Corpora
• Talk: On the Power of Big Data: Mining Structures from Massive, Unstructured Text Data
• Github: github-1-Python, github-2-Spark

LINE : 12 Mar 2015

• Paper: LINE: Large-scale Information Network Embedding
• Paper: Automatic Entity Recognition and Typing from Massive Text Corpora: A Phrase and Network Mining Approach
• Github: github-C++

DeepWalk : 27 Jun 2014

• Paper : Online Learning of Social Representations
• Paper: Learning Word Vectors in Deep Walk Using Convolution
• Github: github-Python

LifeNet : 2017

• Paper: LifeNet: A Structured Network-Based Knowledge Exploration and Analytics System for Life Sciences
• Github: github-JavaScript

Neural Joint Model : 1 November 2016

• Paper: A neural joint model for entity and relation extraction from biomedical text
• Github: github-C++

Structured Prediction Model (LSTM-CRF-models): 1 Aug 2016

• Paper: Structured prediction models for RNN based sequence labeling in clinical text
• Github: github-Python

Sentiment Analysis

• Paper: Dimensional Sentiment Analysis Using a Regional CNN-LSTM Model

• Paper: A Deep Neural Architecture for Sentence-level Sentiment Classification in Twitter Social Networking

• Paper: Tensor Fusion Network for Multimodal Sentiment Analysis

Network

• Talk : Complex networks: an introduction

• Book: Networks: An Introduction

Lectures

• Jiawei Han: Knowledge Discovery and Data Mining, Database Systems
• Course: UIUC CS412: An Introduction to Data Warehousing and Data Mining (Fall 2017)
• Course: UIUC CS512: Data Mining: Principles and Algorithms (Spring 2017)
• Text MIning: Part-1: Phrase Mining & Entity Typing
• Text MIning: Part-2: Embedding, Information Extraction & Text Cube
• Text MIning: Part-3: ?

Coursera -Data Mining Specialization

• Data Visualization
• Text Retrieval and Search Engines
• Text Mining and Analytics
• Pattern Discovery in Data Mining
• Cluster Analysis in Data Mining
• Data Mining Project

Misc Papers

• Paper: De-identification of medical records using conditional random fields and long short-term memory networks

IMP links

• CoNLL 2003 shared task (NER) data
• NHLBI - National Heart Loung, and Blood Institute
• LM-LSTM-CRF-github
• Graphical Model for sequence Modeling
• A sequence labeling approach to link medications and their attributes in clinical notes and clinical trial announcements for information extraction
• LSP - MLP
• Graph-Aware
• Universal Dependencies Tool

nlp References:

1. https://nlp.stanford.edu/courses/NAACL2013/NAACL2013-Socher-Manning-DeepLearning.pdf
2. http://web.science.mq.edu.au/~mjohnson/papers/Johnson14MLSS-talk.pdf
3. http://cse.proj.ac.il/leaders/computationallinguistics.pdf
4. http://linguistics.ucla.edu/people/stabler/185-03.pdf
5. http://cs.brown.edu/courses/csci2951-k/papers/cl-intro.pdf
6. http://stp.lingfil.uu.se/~santinim/sais/ClarkEtAl2010_HandbookNLP.pdf
7. https://web.stanford.edu/class/cs124/lec/languagemodeling.pdf
8. https://web.stanford.edu/~jurafsky/slp3/4.pdf
9. https://homepages.inf.ed.ac.uk/lzhang10/slm.html
10. https://arxiv.org/abs/1602.02410 (https://arxiv.org/pdf/1602.02410.pdf)
11. https://arxiv.org/pdf/1703.10724.pdf
12. http://www.wildml.com/category/language-modeling/
13. http://www.wildml.com/2016/01/attention-and-memory-in-deep-learning-and-nlp/
14. http://www.cs.cmu.edu/~aberger/lm.html
15. http://citeseerx.ist.psu.edu/viewdoc/download?doi=10.1.1.128.2969&rep=rep1&type=pdf
16. http://citeseerx.ist.psu.edu/viewdoc/download;jsessionid=CF0000F3B15F98250611D430D594F3B3?doi=10.1.1.58.4846&rep=rep1&type=pdf
17. http://www.cambridge.org/US/academic/subjects/psychology/educational-psychology/automated-evaluation-text-and-discourse-coh-metrix#Ymfgv8mKp0YIQKJg.97
18. https://link.springer.com/content/pdf/10.3758%2FBF03195564.pdf