T-bet suppresses proliferation of malignant B cells in chronic lymphocytic leukemia.

Roessner PM, Seufert I, Chapaprieta V, Jayabalan R, Briesch H, Massoni-Badosa R, Boskovic P, Beckendorff J, Roider T, Arseni L, Coelho M, Chakraborty S, Vaca A, Sivina M, Muckenhuber M, Rodriguez-Rodriguez S, Bonato A, Herbst SA, Zapatka M, Sun C, Kretzmer H, Naake T, Bruch PM, Czernilofsky F, Ten Hacken E, Schneider M, Helm D, Yosifov DY, Kauer J, Danilov AV, Bewarder M, Heyne K, Schneider C, Stilgenbauer S, Wiestner A, Mallm JP, Burger JA, Efremov DG, Lichter P, Dietrich S, Martín-Subero JI, Rippe K, Seiffert M

Blood, 2024

doi:10.1182/blood.2023021990.

MsQuality - an interoperable open-source package for the calculation of standardized quality metrics of mass spectrometry data.

Naake T, Rainer J, Huber W

Bioinformatics , 2023

doi:10.1093/bioinformatics/btad618.

Networks and Graphs Discovery in Metabolomics Data Analysis and Interpretation.

Amara A, Frainay C, Jourdan F, Naake T, Neumann S, Novoa-Del-Toro EM, Salek RM, Salzer L, Scharfenberg S, Witting M

Frontiers in molecular biosciences, 2022

doi:10.3389/fmolb.2022.841373.

Pre-analytical processing of plasma and serum samples for combined proteome and metabolome analysis.

Gegner HM, Naake T, Dugourd A, Müller T, Czernilofsky F, Kliewer G, Jäger E, Helm B, Kunze-Rohrbach N, Klingmüller U, Hopf C, Müller-Tidow C, Dietrich S, Saez-Rodriguez J, Huber W, Hell R, Poschet G, Krijgsveld J

Frontiers in molecular biosciences, 2022

doi:10.3389/fmolb.2022.961448.

MatrixQCvis: shiny-based interactive data quality exploration for omics data.

Naake T, Huber W

Bioinformatics (Oxford, England), 2021

doi:10.1093/bioinformatics/btab748.

Annotation of specialized metabolites from high-throughput and high-resolution mass spectrometry metabolomics.

Naake T, Gaquerel E, Fernie AR

Methods in molecular biology (Clifton, N.J.), 2020

doi:10.1007/978-1-0716-0239-3_12.

Coordinating sulfur pools under sulfate deprivation.

Aarabi F, Naake T, Fernie AR, Hoefgen R

Trends in plant science, 2020

doi:10.1016/j.tplants.2020.07.007.

Plant mitochondrial carriers: molecular gatekeepers that help to regulate plant central carbon metabolism.

Toleco MR, Naake T, Zhang Y, Heazlewood JL, Fernie AR

Plants (Basel, Switzerland), 2020

doi:10.3390/plants9010117.

Mass spectrometry-based untargeted plant metabolomics.

Perez de Souza L, Alseekh S, Naake T, Fernie A

Current protocols in plant biology, 2019

doi:10.1002/cppb.20100.

The metaRbolomics toolbox in Bioconductor and beyond.

Stanstrup J, Broeckling CD, Helmus R, Hoffmann N, Mathé E, Naake T, Nicolotti L, Peters K, Rainer J, Salek RM, Schulze T, Schymanski EL, Stravs MA, Thévenot EA, Treutler H, Weber RJM, Willighagen E, Witting M, Neumann S

Metabolites, 2019

doi:10.3390/metabo9100200.