Tootfinder

A Multi-Dataset Evaluation of Models for Automated Vulnerability Repair
Zanis Ali Khan, Aayush Garg, Qiang Tang
https://arxiv.org/abs/2506.04987 https://…

A Multi-Dataset Evaluation of Models for Automated Vulnerability Repair
Software vulnerabilities pose significant security threats, requiring effective mitigation. While Automated Program Repair (APR) has advanced in fixing general bugs, vulnerability patching, a security-critical aspect of APR remains underexplored. This study investigates pre-trained language models, CodeBERT and CodeT5, for automated vulnerability patching across six datasets and four languages. We evaluate their accuracy and generalization to unknown vulnerabilities. Results show that while bot…

Delayed photoisomerisation of the trans-PSB3 retinal toy model using on-the-fly quantum dynamics
Mar\'ia Mallo, Susana G\'omez-Carrasco, Sandra G\'omez
https://arxiv.org/abs/2506.03811

Delayed photoisomerisation of the trans-PSB3 retinal toy model using on-the-fly quantum dynamics
We explore the trans-cis photoisomerisation process in a representative retinal protonated Schiff base known as trans-PSB3, employing the quantum dynamics method direct dynamics variational multiconfigurational gaussian -- DD-vMCG -- in full dimensionality, i.e., 36 degrees of freedom on potential energy surfaces computed on-the-fly using the SA(2)-CAS(6,6)SCF electronic structure method with the 6-31G basis set. Although the toy molecule has been extensively studied using trajectory methods su…

How would NFL star Micah Parsons fare against MLB pitching? https://www.mlb.com/news/justin-tuck-micah-parsons-hitting-mlb-pitching

Not racist or xenophobic. Samples of a #Fusarium species not native to the hemisphere. It *could* absolutely be a non-malicious stupid grad student trick, but it was a dangerous one with incalculable risk.
Crop pathogens make history.

Scott MacFarlane
ALERT: Detention hearing scheduled for 1pm tomorrow for University of Michigan researcher Yunqing Jian, who is accused of conspiracy to smuggle potential "agroterrorism weapon" into the US Jian's co-defendant, a Chinese national, in NOT in custody

President Pathogen
bot by @…
No laws were broken in the making of this bot: no waterboarding please and thank you.
#satire #potus45

Potassium Decoration on Graphenyldiene Monolayer for Advanced Reversible Hydrogen Storage
Jose A. S. Laranjeira, Nicolas F. Martins, Kleuton A. L. Lima, Bill. D. Aparicio-Huacarpuma, Luiz A. Ribeiro Junior, Xihao Chen, Douglas S. Galvao, Julio R. Sambrano
https://arxiv.org/abs/2506.00604…

Potassium Decoration on Graphenyldiene Monolayer for Advanced Reversible Hydrogen Storage
Potassium-decorated graphenyldiene (K@GPD) is investigated as a promising two-dimensional material for reversible hydrogen storage using first-principles density functional theory calculations. Potassium atoms bind strongly to the GPD monolayer, and ab initio molecular dynamics (AIMD) simulations confirm the thermal stability of the functionalized system at 300 K. Hydrogen adsorption energies range from -0.11 to -0.14 eV per H$_2$, denoting reversible storage. At full coverage (18 H$_2$ molecul…

This https://arxiv.org/abs/2411.13669 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_qu…

Quantum Algorithm for Vibronic Dynamics: Case Study on Singlet Fission Solar Cell Design
Vibronic interactions between nuclear motion and electronic states are critical for the accurate modeling of photochemistry. However, accurate simulations of fully quantum non-adiabatic dynamics are often prohibitively expensive for classical methods beyond small systems. In this work, we present a quantum algorithm based on product formulas for simulating time evolution under a general vibronic Hamiltonian in real space, capable of handling an arbitrary number of electronic states and vibratio…

PoCGen: Generating Proof-of-Concept Exploits for Vulnerabilities in Npm Packages
Deniz Simsek, Aryaz Eghbali, Michael Pradel
https://arxiv.org/abs/2506.04962

PoCGen: Generating Proof-of-Concept Exploits for Vulnerabilities in Npm Packages
Security vulnerabilities in software packages are a significant concern for developers and users alike. Patching these vulnerabilities in a timely manner is crucial to restoring the integrity and security of software systems. However, previous work has shown that vulnerability reports often lack proof-of-concept (PoC) exploits, which are essential for fixing the vulnerability, testing patches, and avoiding regressions. Creating a PoC exploit is challenging because vulnerability reports are info…

A planning tool for neutron powder diffraction experiments
Joseph A. M. Paddison, Stuart Calder, Danielle R. Yahne, Malcolm J. Cochran, Si Athena Chen, Matthias D. Frontzek, Yuanpeng Zhang
https://arxiv.org/abs/2506.03201

A planning tool for neutron powder diffraction experiments
We introduce a computer program to simulate the results of neutron powder-diffraction experiments at the High Flux Isotope Reactor at Oak Ridge National Laboratory. The program is freely available as a web application at http://addie.ornl.gov/hfirestimate, and is designed to be straightforward to use for researchers who are new to neutron diffraction. The input includes the crystal structure of the proposed sample, the sample mass, and the instrument configuration. The results include a plot of…

GeneBreaker: Jailbreak Attacks against DNA Language Models with Pathogenicity Guidance
Zaixi Zhang, Zhenghong Zhou, Ruofan Jin, Le Cong, Mengdi Wang
https://arxiv.org/abs/2505.23839

GeneBreaker: Jailbreak Attacks against DNA Language Models with Pathogenicity Guidance
DNA, encoding genetic instructions for almost all living organisms, fuels groundbreaking advances in genomics and synthetic biology. Recently, DNA Foundation Models have achieved success in designing synthetic functional DNA sequences, even whole genomes, but their susceptibility to jailbreaking remains underexplored, leading to potential concern of generating harmful sequences such as pathogens or toxin-producing genes. In this paper, we introduce GeneBreaker, the first framework to systematic…