The Hypothesis Web

The Hypothesis Web

What is the Hypothesis Web?

A major obstacle to interdisciplinary research is the formulation of hypotheses that span multiple fields of expertise. This is particularly true for scientific research, which can involve aspects of very diverse disciplines at many physical scales. In neuroscience, for example, combined efforts involving multiple disciplines can be necessary in order to make any substantial progress.

The Hypothesis Web is a project at UCLA investigating the development of a software platform that permits collaborative formulation of complex scientific hypotheses. It represents a novel approach to the way these hypotheses are conceived and tested, in which: The Hypothesis Web is being developed as an extension of existing software systems for web-based collaboration, data management, modeling, and access of online scientific literature.

This project is one of eight projects within the new Consortium for Neuropsychiatric Phenomics (CNP), an NIH Interdisciplinary Research Center at UCLA emphasizing integrative research spanning multiple levels of science.

2007 Press Release about the Consortium for Neuropsychiatric Phenomics

Hypothesis Web Software Systems

Three sets of systems were developed during this project: HypWeb, HypMap, and PhenoMining. These systems are all implemented as servers/web services that integrate many functions, and are complex: Related systems here -- HypSpace, dot2vue, PubReview, etc. -- also were sizeable and developed in Python.

LA2K Explorer Interactive visualization of the data from CNP's LA2K six-year study     Parker    2011-
LA2K Viewer Rapid exploration of the LA2K dataset using a battery of visualization methods     Parker    2013  
LA2K Atlas Gallery-like pre-produced visualization for the LA2K dataset     Parker    2010  
HypSpace Interactive query of a database of CNP initial hypotheses about LA2K data     Parker    2009
PubMap Literature Mapping and Theme-expression Analysis for PubMed/MEDLINE     Parker    2013  
MemeXP Meme-expression analysis for PubMed/MEDLINE     Parker    2012-
PubReview Systematic review generation for PubMed/MEDLINE     Parker    2012
PubAtlas Interactive Literature Mapping and Analysis for PubMed/MEDLINE     Parker    2008-
PubCorpus Full-text Corpus generation using PubMed Central     Parker    2010
HyPoint / dot2vue Hypothesis graph/PowerPoint generation (using the VUE graph editor)     Parker    2009
PubGraph Graph-baed Literature Mapping for PubMed/MEDLINE     Parker    2007
PhenoWiki+ Integration of PhenoWiki with all PhenoMining tools and RDF       Chu      2011-
Path Mining Exploration of concepts in a corpus having strong co-occurrence with a given concept       Chu      2011-
Document Content Explorer Interactive query of full-text document elements in a corpus       Chu      2011-
Assertion Mining Query of Assertions in a corpus of scientific documents       Chu      2010-
Figure & Table Mining Query of Tables & Figures in a corpus of scientific documents       Chu      2011
Cross Species Explorer Alignment of concepts that translate across organisms ("cross-species")       Chu      2010
Top Concept Explorer Exploration of concepts in a corpus with strong co-occurrence to a given concept       Chu  2009

Sample Results from these Systems:


Grant Progress Reports, 2008-2013

Progress reports summarize development over the grant period (from end of each award year):


Consortium for Neuropsychiatric Phenomics

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