IICD Newsletter May 2024

May 06, 2024
May 6th, 2024

Faces of IICD: Hannah Khanshali,
SRP Alumna

Hannah Khanshali is a senior in the Macaulay Honors College at The City College of New York. She participated in the 2023 IICD Summer Research Program (SRP) through the Institute's collaboration with the S Jay Levy Fellowship at CCNY. In the latest "Faces of IICD" blog series, Hannah shares her experience taking part in the SRP and how the program was a turning point when deciding her career goals. 

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IICD Highlights


David Blei: 2024 Lenfest Distinguished Faculty Award Winner. Professor of Statistics and Computer Science David Blei has been awarded the 2024 Lenfest Distinguished Faculty Award for his groundbreaking work in machine learning and artificial intelligence. Read here.



Brian Trippe Joins New Faculty Role at Stanford University. We are excited to announce that Brian Trippe, postdoctoral researcher in Simon Tavaré's and David Blei's groups, will join Stanford University as an Assistant Professor in Statistics in Fall 2024.



Elham Azizi Receives Recognition for the 2024 Innovators in Science AwardAdministered by The New York Academy of Sciences and sponsored by Takeda, Dr. Azizi received her well-deserved accolade at the celebratory event held in April. Read here



Henry Kotkin was Honored with Dual Awards for Academic Excellence. Henry Kotkin (SRP '23) received the ACS Columbus Section Award for Outstanding Senior Chemistry Major and the Kenyon Department of Chemistry Carl Djerassi Award. Read here.



Hannah Khanshali Achieves CCNY's Salutatorian Honor. Join us in celebrating Hannah's achievement as Salutatorian at the CCNY graduation! Her dedication and academic excellence have earned her this recognition. Read here.


Meet Our Newest Members

Alessandro Grande is a postdoc at Memorial Sloan Kettering and IICD with Drs. Sohrab Shah and David Blei. Alessandro is interested in statistical machine learning for large-scale data. He is currently working on inferring the determinants of chemoresistance from single-cell multi-omic data.

Claire Ming-Yi He is a PhD student in the Department of Statistics. She is interested in statistical methodology for applied problems in biology, ecology, and, since joining Bianca Dumitrascu's group, genomics.

Harry Kabodha is pursuing an MS in Biomedical Engineering in Dr. Bianca Dumitrascu’s lab. He is currently researching how to use generative models for differential sampling to reconstruct the spatial location of genes in scRNA-seq data. 

Recent Publications from IICD Researchers

A Heterogeneous Pharmaco-Transcriptomic Landscape Induced by Targeting a Single Oncogenic Kinase.  Giglio, R. M.; Hou, N.; Wyatt, A.; Hong, J.; Shi, L.; Vaikunthan, M.; Fuchs, H.; Nima, J. P.; Malinowski, S. W.; Ligon, K. L.; McFaline-Figueroa, J. R.; Yosef, N.; Azizi, E.; McFaline-Figueroa, J. L. bioRxiv 2024

Allele-Specific Transcriptional Effects of Subclonal Copy Number Alterations Enable Genotype-Phenotype Mapping in Cancer Cells. Shi, H.; Williams, M. J.; Satas, G.; Weiner, A. C.; McPherson, A.; Shah, S. P. Nat Commun 2024, 15 (1), 2482.

CINner: Modeling and Simulation of Chromosomal Instability in Cancer at Single-Cell Resolution. Dinh, K. N.; Vázquez-García, I.; Chan, A.; Malhotra, R.; Weiner, A.; Mcpherson, A.; Tavaré, S. bioRxiv 2024.

GAS41 Modulates Ferroptosis by Anchoring NRF2 on Chromatin. Wang, Z.; Yang, X.; Chen, D.; Liu, Y.;Li, Z.;  Duan, S.; Zhang, Z.; Jiang, X.; Stockwell, B. R.; Gu, W. Nat Commun 2024, 15 (1), 2531.

Inference of Chromosome Selection Parameters and Missegregation Rate in Cancer from DNA-Sequencing Data. Xiang, Z.; Liu, Z.; Dinh, K. N. bioRxiv 2024.

Inferring Allele-Specific Copy Number Aberrations and Tumor Phylogeography from Spatially Resolved Transcriptomics. Ma, C.; Balaban, M.; Liu, J.; Chen, S.; Ding, L.; Raphael, B. J. bioRxiv 2024.

Multiomics-Based Feature Extraction and Selection for the Prediction of Lung Cancer Survival. Jaksik, R.; Szumała, K.; Dinh, K. N.; Śmieja, J. International Journal of Molecular Sciences 2024, 25 (7), 3661.

Wasserstein Wormhole: Scalable Optimal Transport Distance with Transformers. Haviv, D.; Kunes, R. Z.; Dougherty, T.; Burdziak, C.; Nawy, T.; Gilbert, A.; Pe’er, D. arXiv 2024.

WENDY: Gene Regulatory Network Inference with Covariance Dynamics. Wang, Y.; Zheng, P.; Cheng, Y.-C.; Wang, Z.; Aravkin, A. bioRxiv 2024.

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