Peter L. M. Jansen
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View article: Matter-of-Fact: A Benchmark for Verifying the Feasibility of Literature-Supported Claims in Materials Science
Matter-of-Fact: A Benchmark for Verifying the Feasibility of Literature-Supported Claims in Materials Science Open
Contemporary approaches to assisted scientific discovery use language models to automatically generate large numbers of potential hypothesis to test, while also automatically generating code-based experiments to test those hypotheses. Whil…
View article: Self-Supervised Behavior Cloned Transformers are Path Crawlers for Text Games
Self-Supervised Behavior Cloned Transformers are Path Crawlers for Text Games Open
In this work, we introduce a self-supervised behavior cloning transformer for text games, which are challenging benchmarks for multi-step reasoning in virtual environments. Traditionally, Behavior Cloning Transformers excel in such tasks b…
View article: ByteSized32: A Corpus and Challenge Task for Generating Task-Specific World Models Expressed as Text Games
ByteSized32: A Corpus and Challenge Task for Generating Task-Specific World Models Expressed as Text Games Open
In this work, we investigate the capacity of language models to generate explicit, interpretable, and interactive world models of scientific and common-sense reasoning tasks. We operationalize this as a task of generating text games, expre…
View article: From Words to Wires: Generating Functioning Electronic Devices from Natural Language Descriptions
From Words to Wires: Generating Functioning Electronic Devices from Natural Language Descriptions Open
In this work, we show that contemporary language models have a previously unknown skill -- the capacity for electronic circuit design from high-level textual descriptions, akin to code generation. We introduce two benchmarks: Pins100, asse…
View article: Behavior Cloned Transformers are Neurosymbolic Reasoners
Behavior Cloned Transformers are Neurosymbolic Reasoners Open
In this work, we explore techniques for augmenting interactive agents with information from symbolic modules, much like humans use tools like calculators and GPS systems to assist with arithmetic and navigation. We test our agent’s abiliti…
View article: From Words to Wires: Generating Functioning Electronic Devices from Natural Language Descriptions
From Words to Wires: Generating Functioning Electronic Devices from Natural Language Descriptions Open
In this work, we show that contemporary language models have a previously unknown skill – the capacity for electronic circuit design from high-level textual descriptions, akin to code generation. We introduce two benchmarks: PINS100, asses…
View article: ByteSized32: A Corpus and Challenge Task for Generating Task-Specific World Models Expressed as Text Games
ByteSized32: A Corpus and Challenge Task for Generating Task-Specific World Models Expressed as Text Games Open
In this work we investigate the capacity of language models to generate explicit, inter pretable, and interactive world models of sci entific and common-sense reasoning tasks. We operationalize this as a task of generating text games, expr…
View article: Self-Supervised Behavior Cloned Transformers are Path Crawlers for Text Games
Self-Supervised Behavior Cloned Transformers are Path Crawlers for Text Games Open
In this work, we introduce a self-supervised behavior cloning transformer for text games, which are challenging benchmarks for multi-step reasoning in virtual environments. Traditionally, Behavior Cloning Transformers excel in such tasks b…
View article: TextWorldExpress: Simulating Text Games at One Million Steps Per Second
TextWorldExpress: Simulating Text Games at One Million Steps Per Second Open
Text-based games offer a challenging test bed to evaluate virtual agents at language understanding, multi-step problem-solving, and common-sense reasoning. However, speed is a major limitation of current text-based games, capping at 300 st…
View article: Development of a mouse model for postresectional liver failure
Development of a mouse model for postresectional liver failure Open
Background Postresectional liver failure (PLF) is a dreaded complication after extended liver resection. Post-operative hyperbilirubinemia suggests that impaired hepatobiliary transport with intrahepatic accumulation of harmful cholephiles…
View article: The FXR agonist obeticholic acid does not stimulate liver regeneration in hepatectomized mice
The FXR agonist obeticholic acid does not stimulate liver regeneration in hepatectomized mice Open
Background Postresectional liver failure (PLF) is a dreaded complication after partial hepatectomy (PH). Data from animal experiments indicate that endogenous ligands ( i.e . bile salts) can stimulate liver regeneration and prevent liver i…
View article: Behavior Cloned Transformers are Neurosymbolic Reasoners
Behavior Cloned Transformers are Neurosymbolic Reasoners Open
In this work, we explore techniques for augmenting interactive agents with information from symbolic modules, much like humans use tools like calculators and GPS systems to assist with arithmetic and navigation. We test our agent's abiliti…
View article: Extracting Space Situational Awareness Events from News Text
Extracting Space Situational Awareness Events from News Text Open
Space situational awareness typically makes use of physical measurements from radar, telescopes, and other assets to monitor satellites and other spacecraft for operational, navigational, and defense purposes. In this work we explore using…
View article: A Systematic Survey of Text Worlds as Embodied Natural Language Environments
A Systematic Survey of Text Worlds as Embodied Natural Language Environments Open
Text Worlds are virtual environments for embodied agents that, unlike 2D or 3D environments, are rendered exclusively using textual descriptions. These environments offer an alternative to higher-fidelity 3D environments due to their low b…
View article: On the Challenges of Evaluating Compositional Explanations in Multi-Hop\n Inference: Relevance, Completeness, and Expert Ratings
On the Challenges of Evaluating Compositional Explanations in Multi-Hop\n Inference: Relevance, Completeness, and Expert Ratings Open
Building compositional explanations requires models to combine two or more\nfacts that, together, describe why the answer to a question is correct.\nTypically, these "multi-hop" explanations are evaluated relative to one (or a\nsmall numbe…
View article: Graphene, Carbon Nanotube and Plasmonic Nanosensors for Detection of Viral Pathogens: Opportunities for Rapid Testing in Pandemics like COVID-19
Graphene, Carbon Nanotube and Plasmonic Nanosensors for Detection of Viral Pathogens: Opportunities for Rapid Testing in Pandemics like COVID-19 Open
With the emergence of global pandemics such as the Black Death (Plague), 1918 influenza, smallpox, tuberculosis, HIV/AIDS, and currently the COVID-19 outbreak caused by the SARS-CoV-2 virus, there is an urgent, pressing medical need to dev…
View article: Picard understanding Darmok: A Dataset and Model for Metaphor-Rich Translation in a Constructed Language
Picard understanding Darmok: A Dataset and Model for Metaphor-Rich Translation in a Constructed Language Open
Tamarian, a fictional language introduced in the Star Trek episode Darmok, communicates meaning through utterances of metaphorical references, such as "Darmok and Jalad at Tanagra" instead of "We should work together." This work assembles …
View article: On the Mechanisms of Biliary Flux
On the Mechanisms of Biliary Flux Open
Since the late 1950s, transport of bile in the liver has been described by the “osmotic concept,” according to which bile flows into the canaliculi toward the ducts, countercurrent to the blood flow in the sinusoids. However, because of th…
View article: Bile Salt and FGF19 Signaling in the Early Phase of Human Liver Regeneration
Bile Salt and FGF19 Signaling in the Early Phase of Human Liver Regeneration Open
The involvement of bile salt–fibroblast growth factor 19 (FGF19) signaling in human liver regeneration (LR) is not well studied. Therefore, we studied aspects of bile salt–FGF19 signaling shortly after liver resection in patients. We compa…
View article: Intravital Dynamic and Correlative Imaging of Mouse Livers Reveals Diffusion‐Dominated Canalicular and Flow‐Augmented Ductular Bile Flux
Intravital Dynamic and Correlative Imaging of Mouse Livers Reveals Diffusion‐Dominated Canalicular and Flow‐Augmented Ductular Bile Flux Open
Background and Aims Small‐molecule flux in tissue microdomains is essential for organ function, but knowledge of this process is scant due to the lack of suitable methods. We developed two independent techniques that allow the quantificati…
View article: Editorial: Systems Biology and Bioinformatics in Gastroenterology and Hepatology
Editorial: Systems Biology and Bioinformatics in Gastroenterology and Hepatology Open
EDITORIAL article Front. Physiol., 22 November 2019Sec. Gastrointestinal Sciences Volume 10 - 2019 | https://doi.org/10.3389/fphys.2019.01438
View article: Intravital dynamic and correlative imaging reveals diffusion-dominated canalicular and flow-augmented ductular bile flux
Intravital dynamic and correlative imaging reveals diffusion-dominated canalicular and flow-augmented ductular bile flux Open
Small-molecule flux in tissue-microdomains is essential for organ function, but knowledge of this process is scant due to the lack of suitable methods. We developed two independent techniques that allow the quantification of advection (flo…
View article: Glyco-conjugated bile acids drive the initial metaplastic gland formation from multi-layered glands through crypt-fission in a murine model
Glyco-conjugated bile acids drive the initial metaplastic gland formation from multi-layered glands through crypt-fission in a murine model Open
Bile acid reflux is known to be associated with the development of Barrett's esophagus and esophageal adenocarcinoma (EAC), yet the role of specific bile acids and the mechanism behind the metaplastic changes is unclear. Here, we demonstra…
View article: Gallbladder Dyskinesia Is Associated With an Impaired Postprandial Fibroblast Growth Factor 19 Response in Critically Ill Patients
Gallbladder Dyskinesia Is Associated With an Impaired Postprandial Fibroblast Growth Factor 19 Response in Critically Ill Patients Open
Critical illness is associated with a disturbed regulation of gastrointestinal hormones resulting in functional and metabolic anomalies. Fibroblast growth factor 19 (FGF19) is an ileum‐derived metabolic hormone induced by bile salts upon g…
View article: The cholic acid extension study in Zellweger spectrum disorders: Results and implications for therapy
The cholic acid extension study in Zellweger spectrum disorders: Results and implications for therapy Open
Introduction Currently, no therapies are available for Zellweger spectrum disorders (ZSDs), a group of genetic metabolic disorders characterised by a deficiency of functional peroxisomes. In a previous study, we showed that oral cholic aci…