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Home » Archives for David Weaver
David Weaver

David Weaver

Senior Research Scientist, Microcircuit Emulation Center, Integrated Systems and Solutions
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Publications

Computational sensing-low-power processing publications March 28, 2019

Fast, Full Chip Image Stitching of Nanoscale Integrated Circuits

David Zhang, Gooitzen van der Wal, David Stoker, David Weaver

In this paper, we describe the algorithmic steps taken in the processing pipeline to quickly create a global image database of an entire advanced IC.

Artificial intelligence publications January 1, 2018

How accurate is automated gap filling of metabolic models?

Peter Karp, David Weaver, Mario Latendresse

Here we compare the results of applying an automated likelihood-based gap filler within the Pathway Tools software with the results of manually gap filling the same metabolic model.

Artificial intelligence publications January 1, 2017

The EcoCyc Database: Reflecting New Knowledge About Escherichia Coli K-12

Mario Latendresse, David Weaver, Peter Karp, Suzanne Paley

New experimental discoveries about gene products, their function and regulation, new metabolic pathways, enzymes and cofactors are regularly added to EcoCyc.

Publication January 1, 2016 Article

Pathway collages: personalized multi-pathway diagrams

Peter Karp, Suzanne Paley, Paul O’Maille, David Weaver

We define software for constructing personalized multi-pathway diagrams called pathway-collages using a combination of manual and automatic layouts.

Artificial intelligence publications January 1, 2016 Article

The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases.

Mario Latendresse, David Weaver, Peter Karp, Suzanne Paley

The MetaCyc database (MetaCyc.org) is a freely accessible comprehensive database describing metabolic pathways and enzymes from all domains of life.

Artificial intelligence publications May 1, 2015

Computational Metabolomics Operations at Biocyc.Org

Peter Karp, David Weaver, Suzanne Paley

BioCyc.org is a genome and metabolic pathway web portal covering 5500 organisms, including Homo sapiens, Arabidopsis thaliana, Saccharomyces cerevisiae and Escherichia coli.

National security publications June 1, 2014

A Framework for Application of Metabolic Modeling in Yeast to Predict the Effects of Nssnv in Human Orthologs

David Weaver, Peter Karp

Here we present the next step in the workflow toward using yeast metabolic modeling to predict human metabolic behavior resulting from nsSNV.

Information & computer science publications June 1, 2014

A Genome-Scale Metabolic Flux Model of Escherichia coli K-12 Derived from the EcoCyc Database

Peter Karp, David Weaver

We present EcoCyc–18.0–GEM, a genome-scale model of the E. coli K–12 MG1655 metabolic network.

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