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Freie Uni­ver­si­tät Ber­lin - Fachbereich Physik - Insti­tut für The­or­et­ische Physik AG Clem­enti - The­or­et­ische und rech­nergestützte Bio­physik

The Clem­enti's group in the Phys­ics Depart­ment at Freie Uni­versität Ber­lin seeks a postdoc­toral researcher to work on the devel­op­ment and applic­a­tion of coarse-grain­ing meth­od­o­lo­gies to study mac­ro­molec­u­lar dynam­ics with machine learn­ing and exper­i­mental data.

Our group works on the defin­i­tion and imple­ment­a­tion of strategies to study com­plex bio­phys­ical pro­cesses on long times­cales. We use data-driven meth­ods for sys­tem­atic coarse-grain­ing of mac­ro­molec­u­lar sys­tems, to bridge molecu­lar and cel­lu­lar scales. We work on a the­or­et­ical for­mu­la­tion to exploit the com­ple­ment­ary inform­a­tion that can be obtained in sim­u­la­tion and exper­i­ment, to com­bine the approx­im­ate but high-res­ol­u­tion struc­tural and dynam­ical inform­a­tion from com­pu­ta­tional mod­els with the “exact” but lower res­ol­u­tion inform­a­tion avail­able from exper­i­ments.

Research assist­ant (postdoc) (m/f/d)

full-time job
lim­ited to 30.11.2023
Ent­gelt­gruppe 13 TV-L FU
ref­er­ence code: WiMi_Ein­stein_Clem­enti_2021

Work­ing field:

  • Incor­por­a­tion of NMR data into coarse-grained pro­tein mod­els, by extend­ing the ODEM frame­work developed by Clem­enti’s group (WP1).

  • Incor­por­a­tion of FRET single molecule exper­i­mental data into coarse-grained pro­tein mod­els, by using the ODEM frame­work (WP2).

  • Com­bin­a­tion of dif­fer­ent sources of exper­i­mental data (e.g., muta­gen­esis and FRET) into a single coarse-grained model for a pro­tein sys­tem. Defin­i­tion of the the­or­et­ical frame­work and prac­tical applic­a­tion (WP4).

The pro­ject is part of the research of Clem­enti's group sup­por­ted by the Ein­stein Found­a­tion Ber­lin. The can­did­ate will use machine learn­ing approaches to design trans­fer­able energy mod­els for large bio­mulec­u­lar com­plexes. Dif­fer­ent res­ol­u­tions will be explored. The mod­els will then be used to study spe­cific sys­tems in col­lab­or­a­tion with exper­i­mental groups.


Can­did­ates must have a Ph.D. in Phys­ics, Chem­istry, Chem­ical Engin­eer­ing, or related fields.


Pre­vi­ous exper­i­ence with mac­ro­molec­u­lar mod­el­ing, stat­ist­ical mech­an­ics meth­ods, and molecu­lar dynam­ics sim­u­la­tions.

Excel­lent the­or­et­ical and prac­tical exper­i­ence with nuc­leic acid mod­el­ing and sim­u­la­tion of nuc­leic acids in a coun­terion atmo­sphere is desir­able. Excel­lent the­or­et­ical and prac­tical exper­i­ence with machine learn­ing meth­ods is desir­able.

Eng­lish lan­guage flu­ent, spoken and writ­ten.

How to ap­ply:

All applic­a­tions quot­ing the ref­er­ence code should be dir­ec­ted prefer­ably elec­tron­ic­ally in one PDF-file no later than June 28th, 2021 to Mrs. Prof. Dr. Cecilia Clem­enti: .
On the given occa­sion and for the dur­a­tion of the essen­tial on-site oper­a­tions by Freie Uni­versität Ber­lin, we kindly ask you to apply elec­tron­ic­ally by e-mail. The pro­cessing of a postal applic­a­tion can­not be guar­an­teed.

Freie Uni­versität Ber­lin
Fachbereich Physik
Insti­tut für The­or­et­ische Physik
AG Clem­enti - The­or­et­ische und rech­nergestützte Bio­physik
Mrs. Prof. Dr. Cecilia Clem­enti
Arn­im­al­lee 14
14195 Ber­lin (Dah­lem)

With an elec­tronic applic­a­tion, you acknow­ledge that FU Ber­lin saves and pro­cesses your data. FU Ber­lin can­not guar­an­tee the secur­ity of your per­sonal data if you send your applic­a­tion over an unen­cryp­ted con­nec­tion.

Freie Uni­versität Ber­lin is an equal oppor­tun­ity employer.