Search Results for author: Fabian J. Theis

Found 9 papers, 2 papers with code

Conditional out-of-sample generation for unpaired data using trVAE

1 code implementation4 Oct 2019 Mohammad Lotfollahi, Mohsen Naghipourfar, Fabian J. Theis, F. Alexander Wolf

While generative models have shown great success in generating high-dimensional samples conditional on low-dimensional descriptors (learning e. g. stroke thickness in MNIST, hair color in CelebA, or speaker identity in Wavenet), their generation out-of-sample poses fundamental problems.

Benchmarking

Beyond Predictions in Neural ODEs: Identification and Interventions

no code implementations23 Jun 2021 Hananeh Aliee, Fabian J. Theis, Niki Kilbertus

Spurred by tremendous success in pattern matching and prediction tasks, researchers increasingly resort to machine learning to aid original scientific discovery.

Time Series Time Series Analysis

SystemMatch: optimizing preclinical drug models to human clinical outcomes via generative latent-space matching

no code implementations14 May 2022 Scott Gigante, Varsha G. Raghavan, Amanda M. Robinson, Robert A. Barton, Adeeb H. Rahman, Drausin F. Wulsin, Jacques Banchereau, Noam Solomon, Luis F. Voloch, Fabian J. Theis

Translating the relevance of preclinical models ($\textit{in vitro}$, animal models, or organoids) to their relevance in humans presents an important challenge during drug development.

Training Transitive and Commutative Multimodal Transformers with LoReTTa

no code implementations NeurIPS 2023 Manuel Tran, Yashin Dicente Cid, Amal Lahiani, Fabian J. Theis, Tingying Peng, Eldad Klaiman

We introduce LoReTTa (Linking mOdalities with a tRansitive and commutativE pre-Training sTrAtegy) to address this understudied problem.

Conditionally Invariant Representation Learning for Disentangling Cellular Heterogeneity

no code implementations2 Jul 2023 Hananeh Aliee, Ferdinand Kapl, Soroor Hediyeh-Zadeh, Fabian J. Theis

Specifically, the proposed approach helps to disentangle biological signals from data biases that are unrelated to the target task or the causal explanation of interest.

Benchmarking Data Integration +1

Causal machine learning for single-cell genomics

no code implementations23 Oct 2023 Alejandro Tejada-Lapuerta, Paul Bertin, Stefan Bauer, Hananeh Aliee, Yoshua Bengio, Fabian J. Theis

Advances in single-cell omics allow for unprecedented insights into the transcription profiles of individual cells.

Experimental Design

To Transformers and Beyond: Large Language Models for the Genome

no code implementations13 Nov 2023 Micaela E. Consens, Cameron Dufault, Michael Wainberg, Duncan Forster, Mehran Karimzadeh, Hani Goodarzi, Fabian J. Theis, Alan Moses, Bo wang

In the rapidly evolving landscape of genomics, deep learning has emerged as a useful tool for tackling complex computational challenges.

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