arXiv subjects

Will E. Thompson

Publications and source records attributed to Will E. Thompson.

8 recordsLinked to original sources

arXiv2026

JWST Edge-on Disk Ice (JEDIce): Vibrationally hot, rotationally cold H$_2$ in the outer disk of Oph 163131 non-thermally excited by UV and cosmic rays

Constraining ionization and excitation processes in protoplanetary disks is essential for understanding the chemical structure and evolution of disk material, shaping planet formation pathways. We present JWST/NIRSpec IFU observations of the edge-on disk Oph 163131, which reveal a unusual ro-vibrational H$_2$ spectrum dominated by the 1--0 O(2) line (2.627 $μ$m), with suppressed higher-$J$ emission despite excitation to $v=2$ and $3$. This vibrationally hot, rotationally cold H$_2$ emission is spatially extended, broadly following the molecular disk traced by CO($J{=}2$--1), with emission increasing above and below a thin midplane dark lane and extending radially beyond $\sim$200 au, where near-IR scattered-light emission is no longer dominant. We interpret the observed H$_2$ emission as arising from non-thermal excitation in cold, dense outer-disk gas, where collisions depopulate higher-$J$ rotational levels within each vibrational manifold prior to emission, producing the characteristic ``$v$-hot, $J$-cold" spectrum. We consider both ultraviolet irradiation and cosmic-ray excitation as contributors to the H$_2$ emission and find that their combined action, together with collisional de-excitation of high-$J$ level populations, broadly reproduces the observed line ratios and morphology. Within this framework, we infer a rather high effective cosmic-ray ionization rate of $\sim(1$-$10)\times10^{-15}$ s$^{-1}$ in the presence of a moderate UV field ($χ_{UV}=100-1000$, in Draine units). These results for disks, together with the recent findings by Bialy et al. 2025 for the lower-density starless core B68, highlight the potential of ro-vibrational H$_2$ emission as a novel probe of cosmic-ray ionization.

astro-ph.SR↗

arXiv2026

CORINOS V: Radiative transfer effects in protostellar ice observations

Recent observations of protostars with the James Webb Space Telescope have revealed unprecedented chemical complexity from their ice absorption features. However, these spectra are likely influenced by radiative transfer effects, and there is little understanding of how this impacts our ability to identify, quantify, and interpret the observed ice features. We have developed a new modeling framework to investigate the radiative transfer through icy protostellar envelopes, and apply this to the IRAS 15398-3359 protostar observed by the JWST CORINOS program. The modeled H$_2$O and CO column densities are similar to previous empirical studies, but we require a high CO$_2$/H$_2$O ratio of 76% to match the optical depth of the 15 $μ$m band. We use our modeled continuum to calculate a 6-10 $μ$m optical depth spectrum, and see considerable differences compared to a simple polynomial continuum model, underscoring the challenges with quantifying trace ice species in this range. For this source, we find that the observed absorption predominantly originates along the viewing line of sight between 1000 - 2000 au, peaking at the transition from the outflow cavity to the envelope; the spectra are largely insensitive to absorption from ices in the outer envelope, which extends out to 20,000 au. Lastly, we show that depending on how the line of sight intersects the cavity, the apparent CO$_2$/H$_2$O and CO/H$_2$O column density ratios can be underestimated compared to the underlying ice abundance ratios. Together this provides important context for interpreting the ice constraints derived from JWST observations of protostars.

astro-ph.SR↗

arXiv2026

JWST Edge-on Disk Ice (JEDIce): Program overview and ice survey results

The icy material within protoplanetary disks plays a central role in planet formation, yet remains poorly characterized by observations. We present 1.6-28$μ$m spectra of five disks obtained as part of the JWST Edge-on Disk Ice (JEDIce) program, representing the largest survey of disk ices to date. The major ice species H$_2$O, CO$_2$, and CO are detected towards all disks, and exhibit a wide range of absolute optical depths and optical depth ratios across the sample. This is suggestive of a range of ice abundances and compositions, but quantitative constraints will require radiative transfer modeling. All disks exhibit ice features across the entire spatial region where the IR continuum is detected; vertically elevated ice grains therefore seem to be ubiquitous in disks. The CO ice is consistently dominated by apolar CO:CO$_2$ mixtures, implying that the disk ice compositions are neither completely reset nor pristinely inherited from the protostellar stage. The presence of these mixtures also suggests that entrapment may be important in shaping the spatial distribution of CO within the disks. Small molecules commonly seen in protostellar ices (CH$_4$, CH$_3$OH, NH$_3$) are generally not detected in our sample, though tracers of ammonium salts (OCN$^-$ and the 6.85 $μ$m band) are common, potentially reflecting an evolution towards comet-like ice compositions. The spectra also contain a wealth of information about the micron-sized dust, atomic and molecular gas, and PAH content, which together with the ice constraints will provide a comprehensive picture of the chemical, physical, and dynamical state of these systems.

astro-ph.EP↗

arXiv2025

The Flying Saucer edge-on disc's Near Infrared silhouette revealed by the JWST JEDIce program

Edge-on discs offer a unique opportunity to probe radial and vertical dust and gas distributions in the protoplanetary phase. This study aims to investigate the distribution of micron-sized dust particles in the Flying Saucer (BKLT J162813-243139) in Rho Ophiuchi, leveraging the unique observational conditions of a bright infrared background that enables the edge-on disc to be seen in both silhouette and scattered light at certain, specific wavelengths. As part of the JWST Edge-on Disc Ice program ('JEDIce'), we use NIRSpec IFU observations of the Flying Saucer, serendipitously observed against a PAH-emitting background, to constrain the dust distribution and grain sizes through radiative transfer modelling. Observation of the Flying Saucer in silhouette at 3.29 microns reveals that the midplane radial extent of small dust grains is ~235 au, larger than the large-grain disc extent previously determined to be 190 au from millimetre data. The scattered light observed in emission probes micron sized icy grains at large vertical distances above the midplane. The vertical extent of the disc silhouette is similar at visible, near-IR, and mid-IR wavelengths, corroborating the conclusion that dust settling is inefficient for grains as large as tens of microns, vertically and radially.

astro-ph.EP↗

arXiv2025

Spatial and Chemical Complexity in the W75N Star-Forming Region

We present the analysis of NOEMA interferometric observations of the high-mass star-forming region W75N(B) with a focus on molecular composition and distribution of prebiotic molecules in the source's multiple cores. Over twenty molecules are identified across the region, with many being fit for column density, rotational temperature, spectral line full width half maximum, and v$_{lsr}$. This work includes the first known detection and initial analysis of complex organic molecules in the MM2 and MM3 regions. Furthermore, parameter maps were created from the six molecules that were well fit across multiple regions. The molecular emission was imaged and correlated across different molecules and the continuum to reveal structural features. From the spatial and spectral analysis of the MM1 region, these results concur with those from other studies showing that there is a difference in chemical composition between the MM1a and MM1b regions, with sulfur-bearing molecules tracing MM1a and organic molecules tracing MM1b. The molecular emission imaged toward the MM3 region reveals two peaks, possibly indicating the presence of multiple young stellar objects. These results provide detailed quantitative information about the physical parameters and distributions of molecules in this source. Additionally, these results are part of a follow-up of a single-dish survey of multiple star-forming regions and are discussed in this context.

astro-ph.GA↗

arXiv2023

Large Language Models with Retrieval-Augmented Generation for Zero-Shot Disease Phenotyping

Identifying disease phenotypes from electronic health records (EHRs) is critical for numerous secondary uses. Manually encoding physician knowledge into rules is particularly challenging for rare diseases due to inadequate EHR coding, necessitating review of clinical notes. Large language models (LLMs) offer promise in text understanding but may not efficiently handle real-world clinical documentation. We propose a zero-shot LLM-based method enriched by retrieval-augmented generation and MapReduce, which pre-identifies disease-related text snippets to be used in parallel as queries for the LLM to establish diagnosis. We show that this method as applied to pulmonary hypertension (PH), a rare disease characterized by elevated arterial pressures in the lungs, significantly outperforms physician logic rules ($F_1$ score of 0.62 vs. 0.75). This method has the potential to enhance rare disease cohort identification, expanding the scope of robust clinical research and care gap identification.

cs.AI↗

arXiv2023

Mapping Physical Conditions in Neighboring Hot Cores: NOEMA Studies of W3(H$_2$O) and W3(OH)

The complex chemistry that occurs in star-forming regions can provide insight into the formation of prebiotic molecules at various evolutionary stages of star formation. To study this process, we present millimeter-wave interferometric observations of the neighboring hot cores W3(H$_2$O) and W3(OH) carried out using the NOEMA interferometer. We have analyzed distributions of six molecules that account for most observed lines across both cores and have constructed physical parameter maps for rotational temperature, column density, and velocity field with corresponding uncertainties. We discuss the derived spatial distributions of these parameters in the context of the physical structure of the source. We propose the use of HCOOCH$_3$ as a new temperature tracer in W3(H$_2$O) and W3(OH) in addition to the more commonly used CH$_3$CN. By analyzing the physically-derived parameters for each molecule across both W3(H$_2$O) and W3(OH), the work presented herein further demonstrates the impact of physical environment on hot cores at different evolutionary stages.

astro-ph.GA↗

arXiv2023

Comparing Complex Chemistry in Neighboring Hot Cores: NOEMA Studies of W3(H$_{2}$O) and W3(OH)

Presented here are NOEMA interferometric observations of the neighboring hot cores W3(H$_{2}$O) and W3(OH). The presence of two star-forming cores at different evolutionary stages within the same parent cloud presents a unique opportunity to study how the physics of the source and its evolutionary stage impact the chemistry. Through spectral analysis and imaging, we identify over twenty molecules in these cores. Most notably, we have detected HDO and CH$_{3}$CH$_{2}$CN in W3(OH), which were previously not detected in this core. We have imaged the molecular emission, revealing new structural features within these sources. W3(OH) shows absorption in a "dusty cocoon" surrounded by molecular emission. These observations also reveal extended emission that is potentially indicative of a low-velocity shock. From the information obtained herein, we have constructed column density and temperature maps for methanol and compared this information to the molecular images. By comparing the spatial distribution of molecules which may be destroyed at later stages of star formation, this work demonstrates the impact of physical environment on chemistry in star-forming regions at different evolutionary stages.

astro-ph.GA↗