Chenghui Zhou

Divya Tadimeti, Shawn Pan, Sameera Lanka et al.

Short-form text rewriting is a constrained variant of paraphrasing in which limited context and high semantic density leave little room for variation. While large language models perform well on general paraphrasing, small language models (SLMs) often struggle with semantic fidelity and hallucination robustness in short-form settings. In this work, we present an empirical study of adapting an SLM, Phi Silica, for short-form rewrite through dataset curation, prompt distillation, parameter-efficient fine-tuning, and evaluation. We curate a dataset of short presentation-style text from public slide decks and use GPT-5-chat both to generate rewrite supervision and to conduct LLM-as-a-judge evaluation. Our results show that finetuning improves semantic fidelity, reduces hallucinations, and increases preference win rate against GPT-5-chat rewrites. The findings suggest that targeted adaptation for SLMs can substantially narrow the gap to cloud models and provide practical guidance for adapting SLMs to precision-critical rewrite tasks.

Chenghui Zhou, Barnabas Poczos

Variational autoencoder (VAE) is a popular method for drug discovery and various architectures and pipelines have been proposed to improve its performance. However, VAE approaches are known to suffer from poor manifold recovery when the data lie on a low-dimensional manifold embedded in a higher dimensional ambient space [Dai and Wipf, 2019]. The consequences of it in drug discovery are somewhat under-explored. In this paper, we explore applying a multi-stage VAE approach, that can improve manifold recovery on a synthetic dataset, to the field of drug discovery. We experimentally evaluate our multi-stage VAE approach using the ChEMBL dataset and demonstrate its ability to improve the property statistics of generated molecules substantially from pre-existing methods without incorporating property predictors into the training pipeline. We further fine-tune our models on two curated and much smaller molecule datasets that target different proteins. Our experiments show an increase in the number of active molecules generated by the multi-stage VAE in comparison to their one-stage equivalent. For each of the two tasks, our baselines include methods that use learned property predictors to incorporate target metrics directly into the training objective and we discuss complications that arise with this methodology.

Chenghui Zhou, Barnabas Poczos

Variational autoencoder (VAE) is a popular method for drug discovery and there had been a great deal of architectures and pipelines proposed to improve its performance. But the VAE model itself suffers from deficiencies such as poor manifold recovery when data lie on low-dimensional manifold embedded in higher dimensional ambient space and they manifest themselves in each applications differently. The consequences of it in drug discovery is somewhat under-explored. In this paper, we study how to improve the similarity of the data generated via VAE and the training dataset by improving manifold recovery via a 2-stage VAE where the second stage VAE is trained on the latent space of the first one. We experimentally evaluated our approach using the ChEMBL dataset as well as a polymer datasets. In both dataset, the 2-stage VAE method is able to improve the property statistics significantly from a pre-existing method.

Frederic Koehler, Viraj Mehta, Chenghui Zhou et al.

Variational Autoencoders are one of the most commonly used generative models, particularly for image data. A prominent difficulty in training VAEs is data that is supported on a lower-dimensional manifold. Recent work by Dai and Wipf (2020) proposes a two-stage training algorithm for VAEs, based on a conjecture that in standard VAE training the generator will converge to a solution with 0 variance which is correctly supported on the ground truth manifold. They gave partial support for that conjecture by showing that some optima of the VAE loss do satisfy this property, but did not analyze the training dynamics. In this paper, we show that for linear encoders/decoders, the conjecture is true-that is the VAE training does recover a generator with support equal to the ground truth manifold-and does so due to an implicit bias of gradient descent rather than merely the VAE loss itself. In the nonlinear case, we show that VAE training frequently learns a higher-dimensional manifold which is a superset of the ground truth manifold.

Chenghui Zhou, Chun-Liang Li, Barnabas Poczos

Program synthesis has emerged as a successful approach to the image parsing task. Most prior works rely on a two-step scheme involving supervised pretraining of a Seq2Seq model with synthetic programs followed by reinforcement learning (RL) for fine-tuning with real reference images. Fully unsupervised approaches promise to train the model directly on the target images without requiring curated pretraining datasets. However, they struggle with the inherent sparsity of meaningful programs in the search space. In this paper, we present the first unsupervised algorithm capable of parsing constructive solid geometry (CSG) images into context-free grammar (CFG) without pretraining via non-differentiable renderer. To tackle the \emph{non-Markovian} sparse reward problem, we combine three key ingredients -- (i) a grammar-encoded tree LSTM ensuring program validity (ii) entropy regularization and (iii) sampling without replacement from the CFG syntax tree. Empirically, our algorithm recovers meaningful programs in large search spaces (up to $3.8 \times 10^{28}$). Further, even though our approach is fully unsupervised, it generalizes better than supervised methods on the synthetic 2D CSG dataset. On the 2D computer aided design (CAD) dataset, our approach significantly outperforms the supervised pretrained model and is competitive to the refined model.