3 papers
q-bio.GN2019
A multi-modal neural network for learning cis and trans regulation of stress response in yeast
Boxiang Liu, Nadine Hussami, Avanti Shrikumar +5
Deciphering gene regulatory networks is a central problem in computational biology. Here, we explore the use of multi-modal neural networks to learn predictive models of gene expre…
cs.LG2019
Maximum Likelihood with Bias-Corrected Calibration is Hard-To-Beat at Label Shift Adaptation
Amr Alexandari, Anshul Kundaje, Avanti Shrikumar
Label shift refers to the phenomenon where the prior class probability p(y) changes between the training and test distributions, while the conditional probability p(x|y) stays fixe…
cs.LG2018
Technical Note on Transcription Factor Motif Discovery from Importance Scores (TF-MoDISco) version 0.5.6.5
Avanti Shrikumar, Katherine Tian, Žiga Avsec +5
TF-MoDISco (Transcription Factor Motif Discovery from Importance Scores) is an algorithm for identifying motifs from basepair-level importance scores computed on genomic sequence d…