Tim Kehl
Employment:
Researcher
Personal:
My name is Tim Kehl and I am a researcher at the chair of Prof. Dr. Hans-Peter Lenhof. We are developing new algorithms, tools and databases for the analysis of human pathologies, especially cancer. In particular, I am interested in the analysis of deregulated biological processes and the identification of molecular factors that drive those processes.
Education:
- M.Sc. Computational Molecular Biology / Bioinformatics, Saarland University, May 2015
- B.Sc. Computational Molecular Biology / Bioinformatics, Saarland University, June 2013
Research:
- Cancer research
- Enrichment analysis
- miRNAs
- Network analysis
- Regulatory genomics
- Systems biology
Teaching:
Lectures:
- Bioinformatics I : WS15/16, WS16/17, WS17/18, WS18/19, WS19/20, WS20/21, WS21/22
- Bioinformatics II : SS15, SS16, SS17, SS18, SS19, SS20, SS21
- Effizientes Lernen : WS15/16, WS16/17, WS17/18, WS18/19, WS19/20, WS20/21, WS21/22
Seminars:
- Proseminar "Bioinformatic Approaches for Cancer Research" : SS15
- Proseminar "Bioinformatic Approaches for Personalized Cancer Treatment" : WS15/16, SS16, WS16/17, SS17, WS17/18, SS18, WS18/19, SS19, WS19/20
- Proseminar "Bioinformatic Approaches for Regulatory Genomics" : SS18, WS18/19
- Proseminar "Pathway and Network Analysis in Cancer Research " : WS16/17, SS17
- Proseminar "Computational Biomarker Discovery": SS20, WS20/21, SS21, WS21/22
- Seminar "Computational Systems Biology of Cancer" : WS16/17, SS17, WS17/18, SS18, WS18/19, SS19, WS19/20
- Seminar "Inferring Network Structure from Data" : SS15
- Seminar "Machine Learning" : SS18
- Seminar "Probabilistic graphical models in disease" : WS15/16, SS16,
- Seminar "Novel Methods for Modeling Gene Regulation": SS19, WS19/20, SS20, WS20/21
- Seminar "Bioinformatics Approaches for Single Cell Analysis": SS20, WS20/21, SS21
- Seminar "Machine Learning Applications in Bioinformatics": SS21, WS21/22
My Publications
2023
[22+DHK] Diener, C., Hart, M., Kehl, T., Becker-Dorison, A., Tänzer, T., Schub, D., Krammes, L., Sester, M., Keller, A., Unger, M., Walch-Rückheim, B., Lenhof, H.-P., Meese, E. Time-resolved RNA signatures of CD4+ T cells in Parkinson’s disease. Nature Cell Death Discovery, 2023. DOI: 10.1038/s41420-023-01333-0.
2022
[MNS+22] Menegatti, J., Nakel, J.,1, Stepanov, Y.K., Caban, K.M., Ludwig, N., Nord, R., Pfitzner, T., Yazdani, M., Vilimova, M., Kehl, T., Lenhof, H.-P., Philipp, S.E., Meese, E., Fröhlich, T., Grässer, F.A., 1, Hart, M. Changes of Protein Expression after CRISPR/Cas9 Knockout of miRNA-142 in Cell Lines Derived from Diffuse Large B-Cell Lymphoma. Cancers, 2022. DOI: 10.3390/cancers14205031.
[LEG+22] Lenhof, K., Eckhart, L., Gerstner, N., Kehl, T., Lenhof, H.-P. Simultaneous regression and classification for drug sensitivity prediction using an advanced random forest method. Scientific Reports, 2022. DOI: 10.1038/s41598-022-17609-x.
[VKK+22] Vardapour, R., Kehl, T., Kneitz; S., Ludwig, N., Meese, E., Lenhof, H.-P., Gessler, M. The DGCR8 E518K mutation found in Wilms tumors leads to a partial miRNA processing defect that alters gene expression patterns and biological processes, Oxford Academic Carcinogenesis, 2022. DOI: 10.1093/carcin/bgab110.
2021
[GKL+21] Gerstner, N., Kehl, T., Lenhof, K., Eckhart, L., Schneider, L., Stöckel, D., Backes, C., Meese, E., Keller, A., Lenhof, H.-P. GeneTrail: A Framework for the Analysis of High-Throughput Profiles. Frontiers in Molecular Biosciences, 2021. DOI: 10.3389/fmolb.2021.716544.
[LGK+21] Lenhof, K., Gerstner, N., Kehl, T., Eckhart, L., Schneider, L., Lenhof, H.-P. MERIDA: a novel Boolean logic-based integer linear program for personalized cancer therapy. Bioinformatics, btab 546, 2021. DOI: 10.1093/bioinformatics/btab546.
[KPL+21] Kern, F., Aparicio-Puerta, E., Li, Y., Fehlmann, T., Kehl, T., Wagner, V., Ray K., Ludwig N., Lenhof, H.-P., Meese, E., Keller A. miRTargetLink 2.0—interactive miRNA target gene and target pathway networks. Nucleic Acids Research, 2021. DOI: org/10.1093/nar/gkab297.
[KKD+21] Kern, F., Krammes, L., Danz, K., Diener, C., Kehl, T., Küchler, O., Fehlmann, T., Kahraman, M., Rheinheimer, S., Aparicio-Puerta, E., Wagner, S., Ludwig, N., Backes, C., Lenhof, H.-P., von Briesen, H., Hart, M., Keller, A., Meese, E. Validation of human microRNA target pathways enables evaluation of target prediction tools. Nucleic Acids Research, 2021. DOI: 10.1093/nar/gkaa1161.
2020
[HNW-R20] Hart, M., Nickl, L., Walch-Rueckheim, B., Krammes, L., Rheinheimer, S., Diener, C.,Taenzer, T., Kehl, T., Sester, M., Lenhof, H.-P., Keller, A., Meese, E. Wrinkle in the plan: miR-34a-5p impacts chemokine signaling by modulating CXCL10/CXCL11/CXCR3-axis in CD4+, CD8+ T cells, and M1 macrophages. Journal for ImmunoTherapy of Cancer, 2020. DOI: 10.1136/jitc-2020-001617.
[DHK+20] Diener, C., Hart, M., Kehl, T., Rheinheimer, S., Ludwig, N.,Krammes, L., Pawusch, S., Lenhof, K., Tänzer, T., Schub, D., Sester, M., Walch-Rückheim,B., Keller, A., Lenhof, H.-P., Meese, E. Quantitative and time-resolved miRNA pattern of early human T cell activation. Nucleic Acids Research, 2020. DOI: 10.1093/nar/gkaa788.
[GKL+20] Gerstner, N., Kehl, T., Lenhof, K., Müller, A., Mayer, C., Eckhart, L., Grammes, N.L., Diener, C., Hart, M., Hahn, O., Walter, J., Wyss-Coray, T., Meese, E., Keller, A., Lenhof, H.-P. GeneTrail 3: advanced high-throughput enrichment analysis. Nucleic Acids Research, 2020. DOI:10.1093/nar/gkaa306.
2019
[KKB+19] Kehl, T., Kern, F., Backes, C., Fehlmann, T., Stöckel, D., Meese, E., Lenhof, H.-P., Keller, A. miRPathDB 2.0: a novel release of the miRNA Pathway Dictionary Database. Nucleic Acids Research, Dezember 2019. DOI: 10.1093/nar/gkz1022.
[HWK+19] Hart, M., Walch-Rückheim, B., Krammes, K., Kehl, T., Rheinheimer, S., Tänzer, T., Glombitza, B., Sester, M., Lenhof, H.-P., Keller, A., Meese, E. miR-34a as hub of T cell regulation networks. Journal for Immunotherapy of Cancer 7 (1), 187, 2019. DOI: 10.1186/s40425-019-0670-5.
[SKT+19] Schneider, L., Kehl, T., Thedinga, K., Grammes, N. L., Backes, C., Mohr, C., Schubert, B., Lenhof, K., Gerstner, N., Hartkopf. A. D., Wallwiener, M., Kohlbacher, O., Keller, A., Meese, E., Graf, N., Lenhof, H.-P. ClinOmicsTrail bc: a visual analytics tool for breast cancer treatment stratification, Bioinformatics, btz302, 2019. DOI: 10.1093/bioinformatics/btz302.
[KSK+19] Kehl, T., Schneider, L., Kattler, K., Stöckel, D., Wegert, J., Gerstner, N., Ludwig, N., Distler, U., Tenzer, S., Gessler, M., Walter, J., Keller, A., Graf, N., Meese, E., Lenhof, H.-P. The role of TCF3 as potential master regulator in blastemal Wilms tumors. International Journal of Cancer 144 (6), 1432-1443, 2019. DOI: 10.1002/ijc.31834.
[FLB+19] Fehlmann, T., Laufer, T., Backes, C., Kahramann, M., Alles, J., Fischer, U., Minet, M., Ludwig, N., Kern, F., Kehl, T., Galata, V., Düsterloh, A., Schrörs, H., Kohlhaas, J., Bals, R., Huwer, H., Geffers, L., Krüger, R., Balling, B., Lenhof, H.-P., Meese, E., Keller, A. Large-scale validation of miRNAs by disease association, evolutionary conservation and pathway activity. RNA Biology 16 (1), 93-103, 2019. DOI: 10.1080/15476286.2018.1559689.
2018
[KSK+18] Kehl, T., Schneider, L., Kattler, K., Stöckel, D., Wegert, J., Gerstner, N., Ludwig, N., Distler, U., Schick, M., Keller, U., Tenzer, S., Gessler, M., Walter, J., Keller, A., Graf, N., Meese, E., Lenhof, H.-P. REGGAE: a novel approach for the identification of key transcriptional regulators. Bioinformatics. Bioinformatics 34 (20), 3503-3510, 2018. DOI: 10.1093/bioinformatics/bty372.
2017
[KBK+17] Kehl, T., Backes, C., Kern, F., Fehlmann, T., Ludwig, N., Meese, E., Lenhof, H.-P., Keller, A. About miRNAs, miRNA seeds, target genes and target pathways. Oncotarget 8 (63), 107167, 2017. DOI: 10.18632/oncotarget.22363.
[BFK+17] Backes, C., Fehlmann, T., Kern, F., Kehl, T., Lenhof, H.-P., Meese, E., Keller, A. miRCarta: a central repository for collecting miRNA candidates. Nucleic Acids Research 46 (D1), D160-D167, 2017. DOI: 10.1093/nar/gkx851.
[KSS+17] Kehl, T., Schneider, L., Schmidt, F., Stöckel, D., Gerstne,r N., Backes, C., Meese, E., Keller, A., Schulz, M.H., Lenhof, H.-P. RegulatorTrail: a web service for the identification of key transcriptional regulators. Nucleic Acids Research 45 (W1), W146-W153, 2017. DOI: 10.1093/nar/gkx350.
[BKS+17] Backes C., Kehl T., Stöckel D., Fehlmann T., Schneider L., Meese E., Lenhof H.-P., Keller A. miRPathDB: a new dictionary on microRNAs and target pathways. Nucleic Acids Res. 2017 Jan 4;45(D1):D90-D96. doi: 10.1093/nar/gkw926
2016
[SSK+16] Schneider, L., Stöckel, D., Kehl, T., Gerasch, A., Ludwig, N., Leidinger, P., Huwer, H., Tenzer, S., Kohlbacher, O., Hildebrandt, A., Kaufmann, M., Gessler, M., Keller, A., Meese, E., Graf, N., and Lenhof, H.-P.: DrugTargetInspector: An assistance tool for patient treatment stratification.
Int J Cancer. 2016 Apr 1;138(7):1765-76. doi: 10.1002/ijc.29897.
[SKT+16] Stöckel, D., Kehl, T., Trampert, P., Schneider, L., Backes, C., Ludwig, N., Gerasch, A., Kaufmann, M., Gessler, M., Graf, N., Meese, E., Keller, A., Lenhof, H.P.,: Multi-omics Enrichment Analysis using the GeneTrail2 Web Service. Bioinformatics 2016; doi: 10.1093/bioinformatics/btv770
2013
[SMK+13] Stöckel, D., Müller, O., Kehl, T., Gerasch, A., Backes, C., Rurainski, A., Keller, A., Kaufmann, M., and Lenhof, H.-P.: NetworkTrail - A web service for identifying and visualizing deregulated subnetworks. Bioinformatics 29 (13):1702-03, 2013.
