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Michael Cooper

Michael Cooper contributes to research discovery and scholarly infrastructure.

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Published work

10 published item(s)

preprint2026arXiv

SurvivalPFN: Amortizing Survival Prediction via In-Context Bayesian Inference

Survival analysis provides a powerful statistical framework for modeling time-to-event outcomes in the presence of censoring. However, selecting an appropriate estimator from the many specialized survival approaches often requires substantial methodological and domain expertise. We introduce SurvivalPFN, a prior-data fitted network that amortizes Bayesian inference for censored observations through in-context learning. SurvivalPFN is pretrained on a diverse family of synthetic, identifiable, and right-censored data-generating processes, enabling it to amortize survival analysis in a single forward pass during inference. As a result, the model adapts to the effective complexity of each dataset without task-specific training or hyperparameter tuning, avoids restrictive parametric assumptions, and produces calibrated survival distributions. In a large-scale benchmark spanning 61 datasets, 21 methods, and 5 evaluation metrics, SurvivalPFN achieves strong predictive performance and often improves upon established survival models. These results suggest that SurvivalPFN offers a principled and practical foundation model for survival analysis, with potential applications in high-impact domains such as healthcare, finance, and engineering (https://github.com/rgklab/SurvivalPFN).

preprint2022arXiv

Measurement and simulation of charge diffusion in a small-pixel charge-coupled device

Future high-resolution imaging X-ray observatories may require detectors with both fine spatial resolution and high quantum efficiency at relatively high X-ray energies (>5keV). A silicon imaging detector meeting these requirements will have a ratio of detector thickness to pixel size of six or more, roughly twice that of legacy imaging sensors. This implies greater diffusion of X-ray charge packets. We investigate consequences for sensor performance, reporting charge diffusion measurements in a fully-depleted, 50um thick, back-illuminated CCD with 8um pixels. We are able to measure the size distributions of charge packets produced by 5.9 keV and 1.25 keV X-rays in this device. We find that individual charge packets exhibit a gaussian spatial distribution, and determine the frequency distribution of event widths for a range of internal electric field strength levels. We find a standard deviation for the largest charge packets, which occur near the entrance window, of 3.9um. We show that the shape of the event width distribution provides a clear indicator of full depletion and infer the relationship between event width and interaction depth. We compare measured width distributions to simulations. We compare traditional, 'sum-above-threshold' algorithms for event amplitude determination to 2D gaussian fitting of events and find better spectroscopic performance with the former for 5.9 keV events and comparable results at 1.25 keV. The reasons for this difference are discussed. We point out the importance of read noise driven detection thresholds in spectral resolution, and note that the derived read noise requirements for mission concepts such as AXIS and Lynx may be too lax to meet spectral resolution requirements. While we report measurements made with a CCD, we note that they have implications for the performance of high aspect-ratio silicon active pixel sensors as well.

preprint2022arXiv

Single electron Sensitive Readout (SiSeRO) X-ray detectors: Technological progress and characterization

Single electron Sensitive Read Out (SiSeRO) is a novel on-chip charge detector output stage for charge-coupled device (CCD) image sensors. Developed at MIT Lincoln Laboratory, this technology uses a p-MOSFET transistor with a depleted internal gate beneath the transistor channel. The transistor source-drain current is modulated by the transfer of charge into the internal gate. At Stanford, we have developed a readout module based on the drain current of the on-chip transistor to characterize the device. Characterization was performed for a number of prototype sensors with different device architectures, e.g. location of the internal gate, MOSFET polysilicon gate structure, and location of the trough in the internal gate with respect to the source and drain of the MOSFET (the trough is introduced to confine the charge in the internal gate). Using a buried-channel SiSeRO, we have achieved a charge/current conversion gain of >700 pA per electron, an equivalent noise charge (ENC) of around 6 electrons root mean square (RMS), and a full width half maximum (FWHM) of approximately 140 eV at 5.9 keV at a readout speed of 625 Kpixel/s. In this paper, we discuss the SiSeRO working principle, the readout module developed at Stanford, and the characterization test results of the SiSeRO prototypes. We also discuss the potential to implement Repetitive Non-Destructive Readout (RNDR) with these devices and the preliminary results which can in principle yield sub-electron ENC performance. Additional measurements and detailed device simulations will be essential to mature the SiSeRO technology. However, this new device class presents an exciting technology for next generation astronomical X-ray telescopes requiring fast, low-noise, radiation hard megapixel imagers with moderate spectroscopic resolution.

preprint2022arXiv

The GOGREEN Survey: Constraining the Satellite Quenching Timescale in Massive Clusters at $\boldsymbol{z} \gtrsim 1$

We model satellite quenching at $z \sim 1$ by combining $14$ massive ($10^{13.8} < M_{\mathrm{halo}}/\mathrm{M}_{\odot} < 10^{15}$) clusters at $0.8 < z < 1.3$ from the GOGREEN and GCLASS surveys with accretion histories of $56$ redshift-matched analogs from the IllustrisTNG simulation. Our fiducial model, which is parameterized by the satellite quenching timescale ($τ_{\rm quench}$), accounts for quenching in our simulated satellite population both at the time of infall by using the observed coeval field quenched fraction and after infall by tuning $τ_{\rm quench}$ to reproduce the observed satellite quenched fraction versus stellar mass trend. This model successfully reproduces the observed satellite quenched fraction as a function of stellar mass (by construction), projected cluster-centric radius, and redshift and is consistent with the observed field and cluster stellar mass functions at $z \sim 1$. We find that the satellite quenching timescale is mass dependent, in conflict with some previous studies at low and intermediate redshift. Over the stellar mass range probed ($M_{\star}> 10^{10}~\mathrm{M}_{\odot}$), we find that the satellite quenching timescale decreases with increasing satellite stellar mass from $\sim1.6~{\rm Gyr}$ at $10^{10}~\mathrm{M}_{\odot}$ to $\sim 0.6 - 1~{\rm Gyr}$ at $10^{11}~\mathrm{M}_{\odot}$ and is roughly consistent with the total cold gas (H{\scriptsize I}+H$_{2}$) depletion timescales at intermediate $z$, suggesting that starvation may be the dominant driver of environmental quenching at $z < 2$. Finally, while environmental mechanisms are relatively efficient at quenching massive satellites, we find that the majority ($\sim65-80\%$) of ultra-massive satellites ($M_{\star} > 10^{11}~\mathrm{M}_{\odot}$) are quenched prior to infall.

preprint2021arXiv

First results on SiSeRO (Single electron Sensitive Read Out) devices -- a new X-ray detector for scientific instrumentation

We present an evaluation of a novel on-chip charge detector, called the Single electron Sensitive Read Out (SiSeRO), for charge-coupled device (CCD) image sensor applications. It uses a p-MOSFET transistor at the output stage with a depleted internal gate beneath the p-MOSFET. Charge transferred to the internal gate modulates the source-drain current of the transistor. We have developed a drain current readout module to characterize the detector. The prototype sensor achieves a charge/current conversion gain of 700 pA per electron, an equivalent noise charge (ENC) of 15 electrons (e-) root mean square (RMS), and a full width half maximum (FWHM) of 230 eV at 5.9 keV. In this paper, we discuss the SiSeRO working principle, the readout module developed at Stanford, and the first characterization test results of the SiSeRO prototypes. While at present only a proof-of-concept experiment, in the near future we plan to use next generation sensors with improved noise performance and an enhanced readout module. In particular, we are developing a readout module enabling Repetitive Non-Destructive Readout (RNDR) of the charge, which can in principle yield sub-electron ENC performance. With these developments, we eventually plan to build a matrix of SiSeRO amplifiers to develop an active pixel sensor with an on-chip ASIC-based readout system. Such a system, with fast readout speeds and sub-electron noise, could be effectively utilized in scientific applications requiring fast and low-noise spectro-imagers.

preprint2020arXiv

CompLex: A New Corpus for Lexical Complexity Prediction from Likert Scale Data

Predicting which words are considered hard to understand for a given target population is a vital step in many NLP applications such as text simplification. This task is commonly referred to as Complex Word Identification (CWI). With a few exceptions, previous studies have approached the task as a binary classification task in which systems predict a complexity value (complex vs. non-complex) for a set of target words in a text. This choice is motivated by the fact that all CWI datasets compiled so far have been annotated using a binary annotation scheme. Our paper addresses this limitation by presenting the first English dataset for continuous lexical complexity prediction. We use a 5-point Likert scale scheme to annotate complex words in texts from three sources/domains: the Bible, Europarl, and biomedical texts. This resulted in a corpus of 9,476 sentences each annotated by around 7 annotators.

preprint2020arXiv

The GOGREEN Survey: A deep stellar mass function of cluster galaxies at 1.0<z<1.4 and the complex nature of satellite quenching

We study the stellar mass functions (SMFs) of star-forming and quiescent galaxies in 11 galaxy clusters at 1.0<z<1.4, drawn from the Gemini Observations of Galaxies in Rich Early Environments (GOGREEN) survey. Based on more than 500 hours of Gemini/GMOS spectroscopy, and deep multi-band photometry taken with a range of observatories, we probe the SMFs down to a stellar mass limit of 10^9.7 Msun (10^9.5 Msun for star-forming galaxies). At this early epoch, the fraction of quiescent galaxies is already highly elevated in the clusters compared to the field at the same redshift. The quenched fraction excess (QFE) represents the fraction of galaxies that would be star-forming in the field, but are quenched due to their environment. The QFE is strongly mass dependent, and increases from ~30% at Mstar=10^9.7 Msun, to ~80% at Mstar=10^11.0 Msun. Nonetheless, the shapes of the SMFs of the two individual galaxy types, star-forming and quiescent galaxies, are identical between the clusters and the field - to high statistical precision. Yet, along with the different quiescent fractions is the total galaxy SMF environmentally dependent, with a relative deficit of low-mass galaxies in the clusters. These results are in stark contrast with findings in the local Universe, and thus require a substantially different quenching mode to operate at early times. We discuss these results in the light of several popular quenching models.

preprint2020arXiv

The GOGREEN survey: Post-infall environmental quenching fails to predict the observed age difference between quiescent field and cluster galaxies at z>1

We study the star formation histories (SFHs) and mass-weighted ages of 331 UVJ-selected quiescent galaxies in 11 galaxy clusters and in the field at 1<z<1.5 from the Gemini Observations of Galaxies in Rich Early ENvironments (GOGREEN) survey. We determine the SFHs of individual galaxies by simultaneously fitting rest-frame optical spectroscopy and broadband photometry to stellar population models. We confirm that the SFHs are consistent with more massive galaxies having on average earlier formation times. Comparing galaxies found in massive clusters with those in the field, we find galaxies with $M_\ast<10^{11.3}$ M$_{\odot}$ in the field have more extended SFHs. From the SFHs we calculate the mass-weighted ages, and compare age distributions of galaxies between the two environments, at fixed mass. We constrain the difference in mass-weighted ages between field and cluster galaxies to $0.31_{^{-0.33}}^{_{+0.51}}$ Gyr, in the sense that cluster galaxies are older. We place this result in the context of two simple quenching models and show that neither environmental quenching based on time since infall (without pre-processing) nor a difference in formation times alone can reproduce both the average age difference and relative quenched fractions. This is distinctly different from local clusters, for which the majority of the quenched population is consistent with having been environmentally quenched upon infall. Our results suggest that quenched population in galaxy clusters at z>1 has been driven by different physical processes than those at play at z=0.

preprint2019arXiv

Evidence for Non-smooth Quenching in Massive Galaxies at $z\sim1$

We investigate a large sample of massive galaxies at $z\sim1$ with combined $HST$ broad-band and grism observations to constrain the star-formation histories of these systems as they transition from a star-forming state to quiescence. Among our sample of massive $(M_*>10^{10}~{\rm M_\odot})$ galaxies at $0.7<z<1.2$, dust-corrected H$α$ and UV star-formation indicators agree with a small dispersion ($\sim0.2$~dex) for galaxies on the main sequence, but diverge and exhibit substantial scatter ($\sim0.7$~dex) once they drop significantly below the star-forming main sequence. Significant H$α$ emission is present in galaxies with low dust-corrected UV SFR values as well as galaxies classified as quiescent using the $UVJ$ diagram. We compare the observed H$α$ flux distribution to the expected distribution assuming bursty or smooth star-formation histories, and find that massive galaxies at $z\sim1$ are most consistent with a quick, bursty quenching process. This suggests that mechanisms such as feedback, stochastic gas flows, and minor mergers continue to induce low-level bursty star formation in massive galaxies at moderate redshift, even as they quench.

preprint2019arXiv

The Stellar Population of Metal-Poor Galaxies at z $\approx$ 0.8 and the Evolution of the Mass-Metallicity Relation

We present results from deep Spitzer/Infrared Array Camera (IRAC) observations of 28 metal-poor, strongly star-forming galaxies selected from the DEEP2 Galaxy Survey. By modelling infrared and optical photometry, we derive stellar masses and other stellar properties. We determine that these metal-poor galaxies have low stellar masses, $M_{\star}$ $\approx10^{8.1}$-$10^{9.5}$ $M_{\odot}$. Combined with the Balmer-derived star formation rates (SFRs), these galaxies have average inverse SFR/$M_{\star}$ of $\approx$100 Myr. The evolution of stellar mass-gas metallicity relation to $z\approx0.8$ is measured by combining the modelled masses with previously obtained spectroscopic measurements of metallicity from [O III] $λ$4363 detections. Here, we include measurements for 79 galaxies from the Metal Abundances across Cosmic Time Survey. Our mass-metallicity relation is lower at a given stellar mass than at $z=0.1$ by 0.27 dex. This demonstrates a strong evolution in the mass-metallicity relation, $(1+z)^{-1.45^{+0.61}_{-0.76}}$. We find that the shape of the $z\approx0.8$ mass-metallicity relation, a steep rise in metallicity at low stellar masses, transitioning to a plateau at higher masses, is consistent with $z\sim0.1$ studies. We also compare the evolution in metallicity between $z\approx0.8$ and $z\sim0.1$ against recent strong-line diagnostic studies at intermediate redshifts and find good agreement. Specifically, we find that lower mass galaxies ($4\times10^8$ $M_{\odot}$) built up their metal content 1.6 times more rapidly than higher mass galaxies ($10^{10}$ $M_{\odot}$). Finally, we examine whether the mass-metallicity relation has a secondary dependence on SFR, and statistically concluded that there is no strong secondary dependence for $z\approx0.8$ low-mass galaxies.