Aafke van den Berg
Data Analyst at LUMICKS
Data expert/Biophysicist at LUMICKS
LUMICKS
https://nl.linkedin.com/company/lumicks
Data Analyst
As an expert on the analysis and modelling of single-molecule data, I support customers in their scientific journey. My responsibilities include:

1) Analyzing single-molecule and single-cell data recorded on the C-Trap, using Python.
2) Advising customers on data analysis 
3) Training customers and colleagues on the analysis software developed by LUMICKS
4) Advising the software development team on the development of new features
5) Developing automation scripts
Waltham, Massachusetts, United States
https://media-exp1.licdn.com/dms/image/C560BAQE-zp8DyqhOgA/company-logo_100_100/0/1602229507778?e=1655942400&v=beta&t=1nUaElaE8jxgyxFLoBh9vN1KXpI5-nbbC5bayIBiLNk
Massachusetts Institute of Technology
https://nl.linkedin.com/company/mit
Postdoctoral Researcher, IMES, Mirny lab
The Mirny lab is part of the 4DN consortium that studies the organization of DNA in space and time. The lab consists of theorists and collaborates with top experimental labs from all over the world. Using approaches from bioinformatics (data analysis) and polymer physics (computational modelling), I studied the interplay between DNA organization and transcription.
Cambridge, MA
https://media-exp1.licdn.com/dms/image/C4E0BAQHBK7qvTvtkZA/company-logo_100_100/0/1519856414204?e=1655942400&v=beta&t=xvpk-8NszpdxH2KGIkfjGXTexySIgxpbbRfeIJST1FQ
Delft University of Technology
https://nl.linkedin.com/company/tudelft
PhD student, Department of Bionanoscience, Depken group
During my PhD I used computer simulations and mathematical models to study traffic flows on the DNA, using models that can also be applied to actual urban traffic flows.
Delft Area, Netherlands
https://media-exp1.licdn.com/dms/image/C4D0BAQF47O_hsjJnpg/company-logo_100_100/0/1639217383649?e=1655942400&v=beta&t=ThPa3IUE8_RsU9uUDMlEN4tYrg8MMcowGaTLecmF1P0
TU Delta
https://nl.linkedin.com/company/tudelta
Freelance Journalist
During my master in Applied physics, I was a freelance journalist for the English pages of the TU Delta, the newspaper of Delft University of Technology.
Delft, Netherlands
https://media-exp1.licdn.com/dms/image/C4D0BAQHnwWFTDMtpLw/company-logo_100_100/0/1639210955390?e=1655942400&v=beta&t=yX667Qs1jMdthFFlFmlIYNGMM9Aen76eEcaQ7Fd0jw0
Delft University of Technology
https://nl.linkedin.com/company/tudelft
Research Assistant, Department of Bionanoscience, Nynke Dekker lab
I performed experiments in a single-molecule lab to study mechanical properties of DNA.

Using magnetic tweezers I investigated how the fluorescent dye YOYO-1 alters the length and stiffness of DNA. YOYO-1 is frequently used to visualize DNA.
Delft, Netherlands
https://media-exp1.licdn.com/dms/image/C4D0BAQF47O_hsjJnpg/company-logo_100_100/0/1639217383649?e=1655942400&v=beta&t=ThPa3IUE8_RsU9uUDMlEN4tYrg8MMcowGaTLecmF1P0
Stichting Studiebegeleiding Leiden
https://nl.linkedin.com/company/stichting-studiebegeleiding-leiden
Mathematics Tutor
https://media-exp1.licdn.com/dms/image/C4E0BAQHK-whjkR5Zew/company-logo_100_100/0/1519891542329?e=1655942400&v=beta&t=G4wSq0U3yYU-jMjQKx7vD7sDcXmRi67P1dK2Czg5C-w
Biophysics
Doctor of Philosophy - PhD
Delft University of Technology
https://nl.linkedin.com/school/tudelft/
https://media-exp1.licdn.com/dms/image/C4D0BAQF47O_hsjJnpg/company-logo_100_100/0/1639217383649?e=1655942400&v=beta&t=ThPa3IUE8_RsU9uUDMlEN4tYrg8MMcowGaTLecmF1P0
Applied Physics
Master of Science (MSc)
Delft University of Technology
https://nl.linkedin.com/school/tudelft/
https://media-exp1.licdn.com/dms/image/C4D0BAQF47O_hsjJnpg/company-logo_100_100/0/1639217383649?e=1655942400&v=beta&t=ThPa3IUE8_RsU9uUDMlEN4tYrg8MMcowGaTLecmF1P0
Applied Physics
Bachelor of Applied Science (BASc)
Delft University of Technology
https://nl.linkedin.com/school/tudelft/
With Honors
https://media-exp1.licdn.com/dms/image/C4D0BAQF47O_hsjJnpg/company-logo_100_100/0/1639217383649?e=1655942400&v=beta&t=ThPa3IUE8_RsU9uUDMlEN4tYrg8MMcowGaTLecmF1P0
Chromosome organization by one-sided and two-sided loop extrusion
eLife
https://elifesciences.org/articles/53558
RNA polymerases as moving barriers to condensin loop extrusion
Proceedings of the National Academy of Sciences
https://www.pnas.org/content/early/2019/09/19/1907009116
Crowding-induced transcriptional bursts dictate polymerase and nucleosome density profiles along genes
Nucleic Acids Research
https://doi.org/10.1093/nar/gkx513
Single pairs of time-bin-entangled photons
Physical Review A
Abstract: "Time-bin-entangled photons are ideal for long-distance quantum communication via optical fibers. Here we present a source where, even at high creation rates, each excitation pulse generates, at most, one time-bin-entangled pair. This is important for the accuracy and security of quantum communication. Our site-controlled quantum dot generates single polarization-entangled photon pairs, which are then converted, without loss of entanglement strength, into single time-bin-entangled photon pairs."
Slow unloading leads to DNA-bound beta-2-sliding clamp accumulation in live Escherichia coli cells
Nature Communications
Abstract: "The ubiquitous sliding clamp facilitates processivity of the replicative polymerase and acts as a platform to recruit proteins involved in replication, recombination and repair. While the dynamics of the E. coli b2-sliding clamp have been characterized in vitro, its in vivo stoichiometry and dynamics remain unclear. To probe both b2-clamp dynamics and stoichiometry in live E. coli cells, we use custom-built microfluidics in combination with single- molecule fluorescence microscopy and photoactivated fluorescence microscopy. We analyzed the experimental data,  quantify the recruitment, binding and turnover of b2-sliding clamps on DNA during replication. These quantitative in vivo results demonstrate that numerous b2-clamps in E. coli remain on the DNA behind the replication fork for a protracted period of time, allowing them to form a docking platform for other enzymes involved in DNA metabolism."

I analyzed the experimental data using maximum likelihood fitting and bootstrapping.
1st Poster Price
Dutch Biophysical Society
Henrik Casimir prize
Casimir research school
Prize awarded to promising master students from Delft University of Technology and Leiden University
VNCI stimuleringsprijs
VNCI, the Association of the Dutch Chemical Industry
Prize to stimulate chemistry students, this prize is awarded to Dutch secondary school student's with an excellent chemistry mark on their exam.
Master Thesis
Goal of the project was to create time-bin entangled photons with a single quantum dot. Time-bin entangled photons are in a superposition of two positions or emission times and are a good choice for quantum communication. My activities during the project were:
-Design, build and test a new (optical) setup
-A theoretical analysis for the influence of dephasing on the time-bin entangled state
Internship at Stockholm University
Develop a package to pigtail a single mode fiber to a superconducting single photon detector (SSPD).
Bachelor Thesis
During the project I used the commercial software program Nextnano to model existing quantum cascade laser structures and to design a quantum cascade laser with a specific emission frequency.
https://nl.linkedin.com/in/max-liptiay-669b8a9
Max Liptiay
Finance Consultant bij Lumicks
Middelburg
https://nl.linkedin.com/in/deborah-dekker2000
Deborah Dekker
Student Civiele Techniek aan TU Delft
Delft
https://nl.linkedin.com/in/annelies-commandeur-a1015a155
Annelies Commandeur
Front office manager at Netraco Garments
Amsterdam
https://nl.linkedin.com/in/vincent-croes-9884a3224
Vincent Croes
Young Digital Marketeer - SchaalX
Soest
https://nl.linkedin.com/in/julia-kuijs
Julia Kuijs
Student MSc Finance and Technology & MSc Real Estate Finance
Amsterdam
https://nl.linkedin.com/in/jerkeeisma
Jerke Eisma
Rolling Forecast Aannemerij  at Enexis Groep
Den Haag
https://nl.linkedin.com/in/aidallauro
Aida Llauró Portell
EMEAI Business Development and Application Scientist Manager at LUMICKS
Randstad
https://www.linkedin.com/in/patrick-wright-315769b
Patrick Wright
account manager at Thermo Fisher
Methuen, MA
https://www.linkedin.com/in/jens-eberlein-3a37164
Jens Eberlein
Lead Applications Manager - West, Immuno-Oncology at LUMICKS
Denver en omgeving
https://nl.linkedin.com/in/willem-peutz-0ba8681a
Willem Peutz
Head of Sales & Customer Success at LUMICKS
Amsterdam
https://www.linkedin.com/in/will-singleterry-phd-2106a733
Will Singleterry, PhD
Commercial Director - Immuno-Oncology at LUMICKS
Jackson en omgeving
https://www.linkedin.com/in/jitske-swagemakers-4827aaa9
Jitske Swagemakers
Master of Architecture Candidate at Massachusetts Institute of Technology
Cambridge, MA
https://nl.linkedin.com/in/rob-lommerse-02247b17
rob lommerse
Transitie & transformatie van gebouwen, gebouwde omgeving en gebied
Uden
https://dk.linkedin.com/in/mirandamitrovic
Miranda Mitrovic
Senior Research And Development Engineer at OFS
Kopenhagen
https://dk.linkedin.com/in/krzysztof-iwaszczuk-26364259
Krzysztof Iwaszczuk
Development Engineer
Kopenhagen
https://dk.linkedin.com/in/lene-gammelgaard-dk
Lene Gammelgaard
R&D Engineer at ROCKWOOL
Kopenhagen
https://dk.linkedin.com/in/mukesh-murali-81425a4b
Mukesh Murali
PhD Researcher at DTU-Nanolab & DTU-NanoPhoton : Center for Nanophotonics
Kopenhagen
https://www.linkedin.com/in/faezeh-ghaderi-37a913147
Faezeh Ghaderi
Data Scientist at Conduent
Dallas-Fort Worth en omgeving
https://www.linkedin.com/in/lizzy-rono-b55a00100
Lizzy Rono
Assistant Vice President Data Analytics
Minneapolis, MN
https://www.linkedin.com/in/olufemi-bolarinwa-5a22aa46
Olufemi Bolarinwa
Researcher/Data Analyst at Research
Tampa, FL
No one beats LUMICKS with their details! 🤗 Thank you guys!
https://www.linkedin.com/signup/cold-join
Gemarkeerd als interessant door Aafke van den Berg
What are the prime factors of the number 15? That might seem like a simple question, even for a middle school student, but factoring is surprisingly…
https://www.linkedin.com/signup/cold-join
Gemarkeerd als interessant door Aafke van den Berg
🔔Attention biophysicists, biochemists, and molecular biologists! We’ve just launched a new, free-to-enter competition, with two winners to be…
https://www.linkedin.com/signup/cold-join
Gemarkeerd als interessant door Aafke van den Berg
Aafke van den Berg
https://nl.linkedin.com/in/aafke-van-den-berg-979551192
Fysiotherapeut bij Fysiotherapie de Valuwe
Arnhem-Nijmegen en omgeving
Aafke Van Den Berg
https://nl.linkedin.com/in/aafke-van-den-berg-12355721b
interieurverzorgster AMC bij Hago Zorg B.V.
Amsterdam
https://media-exp1.licdn.com/dms/image/C4D07AQHi2qEFJh5FiA/group-logo_image-shrink_200x200/0/1631365904837?e=1647691200&v=beta&t=OsrMXVJlcn2e8jmVETU5Ss69aZPnwHcabQBwtw3cJp8
Nanomedicine Network
https://www.linkedin.com/groups/4224128
https://media-exp1.licdn.com/dms/image/C5607AQHZAFEp6P7iWQ/group-logo_image-shrink_92x92/0/1646069674893?e=1647691200&v=beta&t=zkp503IW3F7NDl-KZmQNWcimYG77OdBv0u-uO159Jzc
MIT Spouses & Partners Connect
https://www.linkedin.com/groups/2150058
https://media-exp1.licdn.com/dms/image/C5607AQH_cixB-_Me4g/group-logo_image-shrink_200x200/0/1631410323780?e=1647691200&v=beta&t=yTwJoL7BkV5zIaIeu6wGQWO2uo34TP8Ati5GuMX52as
Delft University of Technology
https://www.linkedin.com/groups/52037
https://media-exp1.licdn.com/dms/image/C5607AQFJwPdRlXJntg/group-logo_image-shrink_200x200/0/1631402643702?e=1647691200&v=beta&t=FmxkBhDqHZVVCr1m2VH5yZsSmhRfE7XzB9pbn6l7rcY
MIT Postdoc
https://www.linkedin.com/groups/2506720
https://media-exp1.licdn.com/dms/image/C5607AQHYq1LzccYnYg/group-logo_image-shrink_200x200/0/1631428264574?e=1647691200&v=beta&t=Q_SIcxljFYX-wOLPZydQwbw2ttbBOdk819eL3nVK3CM
Boston Postdocs
https://www.linkedin.com/groups/8475287