Back

Fast, whole-cell DNA-PAINT imaging with dual-labeled self-quenched imager probes

Sauer, M.; Ghosh, A.; Meub, M.; Helmerich, D. A.; Doose, S.

2023-10-10 biophysics
10.1101/2023.10.09.561472 bioRxiv
Show abstract

Elucidating the interaction between membrane proteins and antibodies requires fast whole-cell imaging at high spatiotemporal resolution. Lattice light-sheet (LLS) microscopy offers fast volumetric imaging but suffers from limited spatial resolution. DNA-PAINT achieves molecular resolution but is practically restricted to two-dimensional imaging due to long acquisition times. Here, we introduce two-dye imager (TDI) probes, manifesting negligible background and amplified fluorescence signal upon transient binding, enabling [~]15-fold faster imaging. Using a combination of TDI-DNA-PAINT and LLS microscopy on B cells, we reveal the oligomeric states and interaction of endogenous CD20 with the therapeutic monoclonal antibody rituximab (RTX), unperturbed by surface effects. Our results demonstrate that B cells become polarized, and microvilli stabilized by RTX binding. These findings, we believe, will aid rational design of improved immunotherapies targeting tumor-associated antigens.

Matching journals

The top 5 journals account for 50% of the predicted probability mass.

1
Proceedings of the National Academy of Sciences
● 2444 papers in training set
Top 3%
11.6%
Similar papers in this journal
2
Nature Methods
○ 385 papers in training set
Top 0.9%
11.6%
Similar papers in this journal
3
Nature Communications
○ 5641 papers in training set
Top 16%
11.6%
Similar papers in this journal
4
Science Advances
● 1243 papers in training set
Top 1%
9.4%
Similar papers in this journal
5
Nano Letters
● 71 papers in training set
Top 0.1%
7.7%
Similar papers in this journal
50% of probability mass above
6
Science
● 477 papers in training set
Top 2%
3.9%
7
Nature Nanotechnology
○ 32 papers in training set
Top 0.2%
3.9%
8
Journal of the American Chemical Society
● 217 papers in training set
Top 1%
3.4%
9
eLife
● 5828 papers in training set
Top 38%
3.0%
10
ACS Nano
● 113 papers in training set
Top 0.8%
2.7%
11
Cell
○ 431 papers in training set
Top 5%
2.3%
12
Communications Biology
○ 993 papers in training set
Top 15%
1.7%
13
Cell Reports Methods
○ 165 papers in training set
Top 2%
1.7%
14
ACS Photonics
● 13 papers in training set
Top 0.1%
1.7%
15
Advanced Science
○ 286 papers in training set
Top 5%
1.6%
16
Small
○ 78 papers in training set
Top 1.0%
1.6%
17
Nucleic Acids Research
◐ 1281 papers in training set
Top 10%
1.3%
18
iScience
○ 1154 papers in training set
Top 24%
1.3%
19
Biophysical Journal
○ 631 papers in training set
Top 4%
1.1%
20
ACS Central Science
● 71 papers in training set
Top 1%
1.1%
21
Small Methods
○ 29 papers in training set
Top 0.5%
1.0%
22
PNAS Nexus
◐ 159 papers in training set
Top 3%
1.0%
23
Nature Photonics
○ 10 papers in training set
Top 0.1%
0.9%
24
Nature Biotechnology
○ 172 papers in training set
Top 4%
0.8%
25
Biophysical Reports
○ 37 papers in training set
Top 0.6%
0.6%
26
Light: Science & Applications
○ 16 papers in training set
Top 0.4%
0.6%
27
The Journal of Physical Chemistry Letters
● 63 papers in training set
Top 0.9%
0.6%
28
Angewandte Chemie International Edition
○ 93 papers in training set
Top 2%
0.6%

"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.