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Source code and data for WWW'17 paper CoType: Joint Extraction of Typed Entities and Relations with Knowledge Bases.

Given a text corpus with entity mentions detected and heuristically labeled by distant supervision, this code determine the entity types for each entity mention, and identify relationships between entities and their relation types.

Code for producing the JSON files from a raw corpus for running CoType is here.

An end-to-end tool (corpus to typed entities/relations) is under development. Please keep track of our updates.

Performance comparison with several relation extraction systems over KBP 2013 dataset (sentence-level extraction).

We will take Ubuntu for example.

• python 2.7
• Python library dependencies

$ pip install pexpect ujson tqdm

• stanford coreNLP 3.7.0 and its python wrapper. Please put the library under `CoType/code/DataProcessor/'.

$ cd code/DataProcessor/
$ git clone [email protected]:stanfordnlp/stanza.git
$ cd stanza
$ pip install -e .
$ wget http://nlp.stanford.edu/software/stanford-corenlp-full-2016-10-31.zip
$ unzip stanford-corenlp-full-2016-10-31.zip

• eigen 3.2.5 (already included).

We process (using our data pipeline) three public datasets to our JSON format. We ran Stanford NER on training set to detect entity mentions, and performed distant supervision using DBpediaSpotlight to assign type labels:

• BioInfer: 100k PubMed paper abstracts as training data and 1,530 manually labeled biomedical paper abstracts from BioInfer (Pyysalo et al., 2007) as test data. It consists of 94 relation types and over 2,000 entity types. (Download JSON)
• NYT (Riedel et al., 2011): 1.18M sentences sampled from 294K New York Times news articles. 395 sentences are manually annotated with 24 relation types and 47 entity types. (Download JSON)
• Wiki-KBP: the training corpus contains 1.5M sentences sampled from 780k Wikipedia articles (Ling & Weld, 2012) plus ~7,000 sentences from 2013 KBP corpus. Test data consists of 14k mannually labeled sentences from 2013 KBP slot filling assessment results. It has 13 relation types and 126 entity types after filtering of numeric value-related relations. (Download JSON)

Please put the data files in corresponding subdirectories under CoType/data/source

We have included compilied binaries. If you need to re-compile retype.cpp under your own g++ environment

$ cd CoType/code/Model/retype; make

Run CoType for the task of Relation Extraction on the Wiki-KBP dataset

Start the Stanford corenlp server for the python wrapper.

$ java -mx4g -cp "code/DataProcessor/stanford-corenlp-full-2016-10-31/*" edu.stanford.nlp.pipeline.StanfordCoreNLPServer

Feature extraction, embedding learning on training data, and evaluation on test data.

$ ./run.sh  

For relation classification, the "none"-labeled instances need to be first removed from train/test JSON files. The hyperparamters for embedding learning are included in the run.sh script.

Dataset to run on.

Data="KBP"

• Hyperparameters for relation extraction:

- KBP: -negative 3 -iters 400 -lr 0.02 -transWeight 1.0
- NYT: -negative 5 -iters 700 -lr 0.02 -transWeight 7.0
- BioInfer: -negative 5 -iters 700 -lr 0.02 -transWeight 7.0

Hyperparameters for relation classification are included in the run.sh script.

Evaluates relation extraction performance (precision, recall, F1): produce predictions along with their confidence score; filter the predicted instances by tuning the thresholds.

$ python code/Evaluation/emb_test.py extract KBP retype cosine 0.0
$ python code/Evaluation/tune_threshold.py extract KBP emb retype cosine

The last command in run.sh generates json file for predicted results, in the same format as test.json in data/source/$DATANAME, except that we only output the predicted relation mention labels. Replace the second parameter with whatever threshold you would like.

$ python code/Evaluation/convertPredictionToJson.py $Data 0.0

Please cite the following paper if you find the codes and datasets useful:

@inproceedings{ren2017cotype,
 author = {Ren, Xiang and Wu, Zeqiu and He, Wenqi and Qu, Meng and Voss, Clare R. and Ji, Heng and Abdelzaher, Tarek F. and Han, Jiawei},
 title = {CoType: Joint Extraction of Typed Entities and Relations with Knowledge Bases},
 booktitle = {Proceedings of the 26th International Conference on World Wide Web},
 year = {2017},
 pages = {1015--1024},
}