Publications

• Joint inference of discrete cell types and continuous type-specific variability in single-cell datasets with MMIDAS
Y Marghi, R Gala, F Baftizadeh, U Sümbül
Nature Computational Science, 2024

• High-throughput analysis of dendrite and axonal arbors reveals transcriptomic correlates of neuroanatomy
O Gliko, M Mallory, R Dalley, R Gala, J Gornet, H Zeng, SA Sorensen, U Sümbül
Nature Communications, 2024

• Learning Time-Invariant Representations for Individual Neurons from Population Dynamics
L Mi, T Le, T He, E Shlizerman, U Sümbül
NeurIPS, 2023

• Predictive and robust gene selection for spatial transcriptomics
I Covert, R Gala, T Wang, K Svoboda, U Sümbül*, S-I Lee*
Nature Communications, 2023

• Biologically-plausible backpropagation through arbitrary timespans via local neuromodulators
YH Liu, SJ Smith, S Mihalas, E Shea-Brown, U Sümbül
NeurIPS, 2022

• Single-neuron models linking electrophysiology, morphology, and transcriptomics across cortical cell types
A Nandi, T Chartrand, W Van Geit, A Buchin, Z Yao, SY Lee, Y Wei, B Kalmbach, B Lee, E Lein, J Berg, U Sümbül, C Koch, B Tasic, C Anastassiou
Cell Reports, 2022

• Cell-type–specific neuromodulation guides synaptic credit assignment in a spiking neural network
YH Liu, SJ Smith, S Mihalas, E Shea-Brown, U Sümbül
PNAS, 2021

• Consistent cross-modal identification of cortical neurons with coupled autoencoders
R Gala, A Budzillo, F Baftizadeh, J Miller, N Gouwens, A Arkhipov, G Murphy, B Tasic, H Zeng, M Hawrylycz, U Sümbül
Nature Computational Science, 2021

• Integrated morphoelectric and transcriptomic classification of cortical GABAergic cells
NW Gouwens, SA Sorensen, F Baftizadeh, A Budzillo, BR Lee, T Jarsky, L Alfiler, K Baker, E Barkan, K Berry, D Bertagnolli, K Bickley, J Bomben, T Braun, K Brouner, T Casper, K Crichton, TL Daigle, R Dalley, RA de Frates, N Dee, T Desta, SD Lee, N Dotson, T Egdorf, L Ellingwood, R Enstrom, L Esposito, C Farrell, D Feng, O Fong, R Gala, C Gamlin, A Gary, A Glandon, J Goldy, M Gorham, L Graybuck, H Gu, K Hadley, MJ Hawrylycz, AM Henry, D Hill, M Hupp, S Kebede, TK Kim, L Kim, M Kroll, C Lee, KE Link, M Mallory, R Mann, M Maxwell, M McGraw, D McMillen, A Mukora, L Ng, L Ng, K Ngo, PR Nicovich, A Oldre, D Park, H Peng, O Penn, T Pham, A Pom, Z Popovic, L Potekhina, R Rajanbabu, S Ransford, D Reid, C Rimorin, M Robertson, K Ronellenfitch, A Ruiz, D Sandman, K Smith, J Sulc, SM Sunkin, A Szafer, M Tieu, A Torkelson, J Trinh, H Tung, W Wakeman, K Ward, G Williams, Z Zhou, JT Ting, A Arkhipov, U Sümbül, ES Lein, C Koch, Z Yao, B Tasic, J Berg, GJ Murphy, H Zeng
Cell, 2020

• New Light on Cortical Neuropeptides and Synaptic Network Plasticity
SJ Smith, M Hawrylycz, J Rossier, U Sümbül
Current Opinion in Neurobiology, 2020

• Whole-Neuron Synaptic Mapping Reveals Spatially Precise Excitatory/Inhibitory Balance Limiting Dendritic and Somatic Spiking
DM Iascone, Y Li, U Sümbül, M Doron, H Chen, V Andreu, F Goudy, I Segev, H Peng, F Polleux
Neuron, 2020

• A coupled autoencoder approach for multi-modal analysis of cell types
R Gala, N Gouwens, Z Yao, A Budzillo, O Penn, B Tasic, G Murphy, H Zeng, U Sümbül
NeurIPS, 2019

• Single-cell transcriptomic evidence for dense intracortical neuropeptide networks
SJ Smith, U Sümbül, LT Graybuck, F Collman, S Seshamani, R Gala, O Gliko, L Elabbady, J Miller, T Bakken, J Rossier, Z Yao, E Lein, H Zeng, B Tasic, M Hawrylycz
eLife, 2019

• Reconstructing neuronal anatomy from whole-brain images
J Gornet, KU Venkataraju, A Narasimhan, K Lee, N Turner, HS Seung, P Osten, U Sümbül
ISBI, 2019