Kipoi - Seminar

The monthly virtual seminar series is designed as a platform for interested Kipoi users and developers and will host talks on the applications of deep learning on biological data. The seminar is held on every first Wednesday of the month at 5:30 p.m. - 6:30 p.m. CET. We are also happy to share the recordings of the seminar on YouTube.

How to take part

The Virtual Seminar Series takes place via Zoom. To take part in the seminar, you can register for the online Zoom conference. Your personal join link will be valid for all upcoming lectures of the series.

Register

How to apply as a speaker

The seminar is a great opportunity to present your recent work to a large international audience. If you want to apply as a speaker, please use the contact in the registration confirmation email.

Next seminar

Title: Single-cell multi-scale footprinting reveals the organization of cis-regulatory elements

4 September 2024 5:30 p.m. - 6:30 p.m. Central European Time

Speaker: Max Horlbeck and Ruochi Zhang (Buenrostro lab), Harvard University and Broad Institute

Abstract:

Cis-regulatory elements (CREs) control gene expression and are dynamic in their structure and function, reflecting changes to the composition of diverse effector proteins over time1–3. However, methods for measuring the organization of effector proteins at CREs across the genome are limited, hampering efforts to connect CRE structure to their function in cell fate and disease. Here, we developed PRINT, a computational method that identifies footprints of DNA-protein interactions from bulk and single-cell chromatin accessibility data across multiple scales of protein sizes. Using these multi-scale footprints, we created the seq2PRINT framework, which employs deep-learning to allow precise inference of transcription factor and nucleosome binding and interprets regulatory logic at CREs. Applying seq2PRINT to single-cell chromatin accessibility data from human bone marrow, we observe sequential establishment and widening of CREs centered on pioneer factors across hematopoiesis. We further discover age-associated alterations in the structure of CREs in murine hematopoietic stem cells, including widespread loss of nucleosomes and gain of de novo-identified Ets composite motifs. Collectively, we establish a method for obtaining rich insights into DNA-binding protein dynamics from chromatin accessibility data and reveal the architecture of regulatory elements across differentiation and aging.

Upcoming speakers

Previous speakers

The scientific committee