Publications

Integration of high‑throughput proteomic data and complementary omics layers with PriOmics

Kosch R., Limm K., Staiger A.M., Kurz N.S., Seifert N.*, Oláh B., Solbrig S., Poesche V., Held G., Ziepert M., Schmitz N., Chteinberg E., Siebert R., Spang R., Zacharias H.U., Ott G., Oefne P.J., Altenbuchinger M. (2025) Genome Research: 10.1101/gr.279487.124.

HIDE: Hierarchical cell‑type Deconvolution 

Völkl D., Mensching‑Buhr M., Sterr T., Bolz S., Schäfer A., Seifert N.*, Tauschke J., Rayford A., Straume O., Zacharias H.U., Grellscheid S.N., Beissbarth T., Altenbuchinger M., Görtler F. (2025) Bioinformatics: 10.1093/bioinformatics/btaf179.

DynaMiCs – Dynamic cell‑type deconvolution ensembles for Mapping in mixed Conditions 

Seifert N., Engel L., Tauschke J, Sterr T., Demmer J, Mensching‑Buhr M., Völkl D., Grellscheid S.N., Beissbarth T., Görtler F., Zacharias H.U., Altenbuchinger M. (2025) bioRxiv: 10.1101/2025.05.08.652868.

TCRanalyzer: A user‑friendly tool for comprehensive analysis of T‑cell diversity, dynamics and
potential antigen targets 

Seifert N., Reinke S., Kurz N.S., Demmer J., Kornrumpf K., Beissbarth T., Klapper W., Altenbuchinger M. (2025) bioRxiv: 10.1101/2025.05.09.652820.

T‑cell diversity and exclusion of blood‑derived T‑cells in the tumor microenvironment of classical
Hodgkin Lymphoma 

Seifert N.*, Reinke S.*, Grund J., Müller‑Meinhard B., Heilmann T., Schlößer H., Kotrova M., Brüggemann M., Borchmann P., Bröckelmann P.J., Altenbuchinger M., Klapper W. (2024) Leukemia: 10.1038/s41375‑024‑02490‑6.

Deconvolution of omics data in Python with Deconomix – cellular compositions, cell‑type specific
gene regulation, and background contributions

Mensching‑Buhr M., Sterr T., Seifert N.*, Völkl D., Tauschke J., Rayford A., Zacharias H.U., Grellscheid S.N., Beissbarth T., Görtler F., Altenbuchinger M. (2024) bioRxiv: 10.1101/2024.11.28.625894.

Human leukocyte antigen (HLA) class I expression on Hodgkin‑Reed‑Sternberg cells is an
EBV‑independent major determinant of microenvironment composition in classic Hodgkin lymphoma

Müller‑Meinhard B.*, Seifert N.*, Grund J.*, Reinke S.*, Yalcin F., Kaul H., Borchmann S., von Tresckow B., Borchmann P., Plütschow A., Richter J., Engert A., Altenbuchinger M., Bröckelmann P.J., Klapper W. (2024) HemaSphere: 10.1002/hem3.84.

Contrasting Features of T‑Cell Expansion in Classical Hodgkin Lymphoma: Tumor Microenvironment Vs. Peripheral Blood and before Vs. during Anti‑PD1 Treatment

Seifert N., Reinke S., Grund J., Müller‑Meinhard B., Engert A., Borchmann P., Bröckelmann P.J., Altenbuchinger M., Klapper W. (2023) Blood: 10.1182/blood‑2023‑186527.

Treatment Strategies and Prognostic Factors in Secondary Central Nervous System Lymphoma: A
Multicenter Study of 124 Patients 

Treiber H.*, Nilius‑Eliliwi V.*, Seifert N., Vangala D., Wang M., Seidel S., Mika T., Marschner D., Zeremski V., Wurm‑Kuczera R., Caillé L., Chapuy C.I., Trümper L., Fischer T., Altenbuchinger M., Wulf G.G., Illerhaus G., Dietrich S., Schroers R., Chapuy B. (2023) HemaSphere: 10.1097/HS9.0000000000000926.

Augmenting the Immune Response against a Stabilized HIV‑1 Clade C Envelope Trimer by Silica
Nanoparticle Delivery 

Peterhoff D., Thalhauser S., Sobczak J.M., Mohsen M.O., Voigt C., Seifert N., Neckermann P., Hauser A., Ding S., Sattentau Q., et al. (2021) Vaccines: 10.3390/vaccines9060642.

A multi‑omics analysis reveals the unfolded protein response regulon and stress‑induced resistance to folate‑based antimetabolites 

Reich S., Nguyen C.D.L., Has C., Steltgens S., Soni H., Coman C., Freyberg M., Bichler A., Seifert N., Conrad D., Knobbe‑Thomsen C.B., Tews B., Toedt G., Ahrends R., Medenbach J. (2020) Nature Communications: 10.1038/s41467‑020‑16747‑y.

Previous Interspecific Courtship Impairs Female Receptivity to Conspecifics in the Parasitoid Wasp
Nasonia longicornis But Not in N. vitripennis 

Mair M.M., Seifert N., Ruther J. (2018) Insects: 10.3390/insects9030112.