NEWS
2023-08-28
"The complete sequence of a human Y chromosome” by T2T Consortium
has been published by Nature
View
2022-10-28
"The new uORFdb: integrating literature, sequence, and variation
data in a central hub for uORF research” by Felix Manske, Lynn Ogoniak,
Norbert Grundmann and Wojciech Makałowski has been published by
Nucleic Acids Research.
View
2022-07-08
"A Map of 3' DNA Transduction Variants Mediated by Non-LTR
Retroelements on 3202 Human Genomes” by Reza Halabian and Wojciech
Makałowski has been published by Biology.
View
2022-06
"paPAML: An Improved Computational Tool to Explore Selection
Pressure on Protein-Coding Sequences" by Lynn Ogoniak, Norbert
Grundmann and others
View
2022-05-14
"Mobilome of Apicomplexa Parasites" by Rodriguez and Makalowski
has been published by Genes.
View
2022-04-27
"Software evaluation for de novo detection of transposons" by
Rodriguez and Makalowski has been published by Mobile DNA.
View
2022-04-01
"From telomere to telomere: The transcriptional and epigenetic
state of human repeat elements” by T2T consortium has been
published by Science.
Goto
2022-02-12
"Global research alliance in infectious disease: a collaborative
effort to combat infectious diseases through dissemination of
portable sequencing” by GRAID consortium that IoB is part of has
been published by BMC Research Notes.
Goto
2021-08-05
Congratulations to Reza and Matias on the excellent contribution on
TE-driven DNA transductions in the human genome
Goto
2021-05-29
"Somatic Functional Deletions of Upstream Open Reading
Frame-Associated Initiation and Termination Codons in Human
Cancer" was published by MDPI
Goto
Contact
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Education
- since 2014: Member of the Münster Graduate School of Evolution (MGSE), Münster, Germany
- Personal Profile: Tabea Kischka
- since 2014: PhD student Institute of Bioinformatics at Univeristy of Münster, Germany
- Advisor: Wojciech Makalowski
- 2011-2014: Studies of Biology (M.Sc.), Univeristy of Münster, Germany
- Thesis: "Ancient Exonisations of Transposed Elements in Retropseudogenes", supervisor: Jürgen Schmitz
- 2008-2011: Studies of Biology (B.Sc.), Univeristy of Münster, Germany
- Thesis: "Comparative Metagenomics along a Temperature and Nutrient Gradient: A Lesson from Bison Pool Hot Spring, YNP", supervisor: Claudia Acquisti
Research projects
- upstream open reading frames (uORFs) and cancer
Publications
- Shabardina, V, Kischka, T, Kmita, H, Suzuki, Y, Makalowski, W "Environmental adaptation of Acanthamoeba castellanii and Entamoeba histolytica at genome level as seen by comparative genomic analysis." (2018) International Journal of Biological Sciences
- Schulz, J, Mah, N, Neuenschwander, M, Kischka, T, Ratei, R, Schlag, P M, ... Wethmar, K "Loss-of-function uORF mutations in human malignancies." (2018) Scientific Reports
- Makalowski W, Kischka T, Makalowska I "Contribution of Transposable Elements to Human Proteins" (2017) eLS
- Kuritzin A, Kischka T, Schmitz J, Churakov G "Incomplete Lineage Sorting and Hybridization Statistics for Large-Scale Retroposon Insertion Data." (2016) PLoS Computation Biol 12:e1004812
- Jakalski M, Wakaguri H, Kischka TG, Nishikawa Y, Kawazu S, Matsubayashi M, Kawahara F, ... Yamagishi J "DB-AT: a 2015 update to the Full-parasites database brings a multitude of new transcriptomic data for apicomplexan parasites" (2015) Nucleic Acids Res. 2015 Jan;43(Database issue):D631-6
Attended Conferences and Workshops
- June 27-July 1st, 2016:
EMBL-EBI Cancer Genomics Workshop, Hinxton, United Kingdom
- Participant
- March 9-11, 2015:
ISCB Africa ASBCB Conference on Bioinformatics, Dar es Salaam, Tanzania
- Participant
- June 30-July 1, 2014:
Fifth annual Münster Graduate School of Evolution Symposium, Münster
- Talk: "Analysing data from the MinION nanopore sequencer for tropical disease diagnostics"
- June 30-July 1, 2014:
Fourth annual Münster Graduate School of Evolution Symposium, Münster
- Participant
- May 12-15, 2014: 10th Annual BioMalPar Conference "Biology and Pathology of the
Malaria Parasite", Heidelberg
- Participant
- June 12-13, 2013:
Third annual Münster Graduate School of Evolution Symposium, Münster
- Participant
- September 10-14, 2012:
Jahrestagung der Gesellschaft für Ökologie (GfÖ) 2012, Lüneburg
- Participant
- Poster: "Hot spring metagenome reveals the impact of environmental nitrogen limitation on the elemental composition of proteins" (Höhmann T, Dick J, Acquisti C)
- July 27-29, 2012:
Workshop "Protein Evolution", München
- Participant and help with organization
- July 22-27, 2012:
Summer School "Protein Evolution", Frauenchiemsee
- Participant and help with organization
- June 27-28, 2012:
First EVOLGEN Conference 2012, Ciążeń, Poland
- Participant
- Talk (with Florian Wünnemann): „ACTransDB: An online database for Acanthamoeba castellanii transcripts“
- June 18-19, 2012:
Second annual Münster Graduate School of Evolution Symposium, Münster
- Participant
- Talk (with Florian Wünnemann): "Biogeochemistry meets molecular evolution via metagenomics: tracing nitrogen fluxes from ecosystems to genomes in microbial communities"
Teaching
- December 8-10, 2015: Bioinformatics practicals course teaching assistant
- October 28-31, 2014: Bioinformatics practicals course teaching assistant
- November 19-22, 2013: Bioinformatics practicals course teaching assistant
2018-05-22 14:29
