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Dec 25

EXAONE Path 2.5: Pathology Foundation Model with Multi-Omics Alignment

Cancer progression arises from interactions across multiple biological layers, especially beyond morphological and across molecular layers that remain invisible to image-only models. To capture this broader biological landscape, we present EXAONE Path 2.5, a pathology foundation model that jointly models histologic, genomic, epigenetic and transcriptomic modalities, producing an integrated patient representation that reflects tumor biology more comprehensively. Our approach incorporates three key components: (1) multimodal SigLIP loss enabling all-pairwise contrastive learning across heterogeneous modalities, (2) a fragment-aware rotary positional encoding (F-RoPE) module that preserves spatial structure and tissue-fragment topology in WSI, and (3) domain-specialized internal foundation models for both WSI and RNA-seq to provide biologically grounded embeddings for robust multimodal alignment. We evaluate EXAONE Path 2.5 against six leading pathology foundation models across two complementary benchmarks: an internal real-world clinical dataset and the Patho-Bench benchmark covering 80 tasks. Our framework demonstrates high data and parameter efficiency, achieving on-par performance with state-of-the-art foundation models on Patho-Bench while exhibiting the highest adaptability in the internal clinical setting. These results highlight the value of biologically informed multimodal design and underscore the potential of integrated genotype-to-phenotype modeling for next-generation precision oncology.

  • 7 authors
·
Dec 15

EPOCHS Paper V. The dependence of galaxy formation on galaxy structure at z < 7 from JWST observations

We measure the broad impact of galaxy structure on galaxy formation by examining the ongoing star formation and integrated star formation history as revealed through the stellar masses of galaxies at z < 7 based on JWST CEERS data from the Extended Groth Strip (EGS). Using the morphological catalog of 3965 visually classified JWST galaxies from Ferreira et al. (2023), we investigate the evolution of stars, and when they form, as a function of morphological type as well as galaxies classified as passive and starburst through spectral energy distributions. Although disk galaxies dominate the structures of galaxies at z < 7, we find that these disks are in general either `passive', or on the main-sequence of star formation, and do not contain a large population of starburst galaxies. We also find no significant correlation between morphological type and the star formation rate or colours of galaxies at z < 7. In fact, we find that the morphologically classified `spheroids' tend to be blue and are not found to be predominately passive systems at z > 1.5. We also find that the stellar mass function for disk galaxies does not evolve significantly during this time, whereas other galaxy types, such as the peculiar population, evolve dramatically, declining at lower redshifts. This indicates that massive peculiars are more common at higher redshifts. We further find that up to z sim 7, the specific star formation rate (sSFR) does not vary with visual morphology, but strongly depends on stellar mass and internal galaxy mass density. This demonstrates that at early epochs galaxy assembly is a mass-driven, rather than a morphologically-driven, process. Quenching of star formation is therefore a mass-dominated process throughout the universe's history, likely due to the presence of supermassive black holes.

  • 14 authors
·
May 1, 2024

First Light And Reionisation Epoch Simulations (FLARES) XII: The consequences of star-dust geometry on galaxies in the EoR

Using the First Light And Reionisation Epoch Simulations ({rm F{small LARES}}), a suite of hydrodynamical simulations we explore the consequences of a realistic model for star--dust geometry on the observed properties of galaxies. We find that the UV attenuation declines rapidly from the central regions of galaxies, and bright galaxies have spatially extended star formation that suffers less obscuration than their fainter counterparts, demonstrating a non-linear relationship between the UV luminosity and the UV attenuation, giving a double power-law shape to the UVLF. Spatially distinct stellar populations within galaxies experience a wide range of dust attenuation due to variations in the dust optical depth along their line-of-sight; which can range from completely dust obscured to being fully unobscured. The overall attenuation curve of a galaxy is then a complex combination of various lines-of-sight within the galaxy. We explore the manifestation of this effect to study the reliability of line ratios to infer galaxy properties, in particular the Balmer decrement and the BPT diagram. We find the Balmer decrement predicted Balmer line attenuation to be higher (factor of 1 to gtrsim10) than expected from commonly used attenuation curves. The observed BPT line ratios deviate from their intrinsic values (median difference of 0.08 (0.02) and standard deviation of 0.2 (0.05) for log_{10}([N{small II}]lambda 6585/H_{alpha}) (log_{10}([O{small III}]lambda 5008/H_{beta})). Finally, we explore the variation in observed properties (UV attenuation, UV slope and Balmer decrement) with viewing angle, finding average differences of sim0.3 magnitudes in the UV attenuation.

  • 8 authors
·
Mar 7, 2023