Konstantin Riege

Fields of work and interest:

RNA-Seq analysis and workflow design (de.NBI/de.STAIR)
Aging and cancer related variant calling and annotation from WGS/WES experiments (Muvac)
Automated genomewide annotation of non-coding RNAs (GORAP)
Comparative genomics, assembly and phylogeny reconstruction
Investigating transcriptomes of pathogenic fungi and their hosts (FungiNet)

Software development:

GORAP – Genomewide ncRNA annotation pipeline (GitHub)
Muvac – Multiple variant caller and annotation pipeline for germline variants (GitHub)
de.STAIR@Galaxy – Structured Analysis and Integration of RNA-Seq experiments into Galaxy (GitHub)

Publications:

2017

SC, Lott; M, Wolfien; K, Riege; A, Bagnacani; O, Wolkenhauer; S, Hoffmann; WR, Hess

Customized workflow development and data modularization concepts for RNA-Sequencing and metatranscriptome experiments. (Journal Article)

Journal of Biotechnology, 2017.

(Abstract | Links | BibTeX)

K, Riege; M, Hölzer; E., Klassert; E, Barth; J, Bräuer; M, Collatz; F, Hufsky; N, Mostajo; M, Stock; B, Vogel; H, Slevogt; M, Marz

Massive Effect on LncRNAs in Human Monocytes During Fungal and Bacterial Infections and in Response to Vitamins A and D (Journal Article)

Scientific Reports (Nature PG), 7 (40598 ), 2017.

(Abstract | Links | BibTeX)

E., Klassert; J, Bräuer; M, Hölzer; M, Stock; K, Riege; C, Zubiria-Barrera; M., Müller; S, Rummler; C, Skerka; M, Marz; H, Slevogt

Differential Effects of Vitamins A and D on the Transcriptional Landscape of Human Monocytes during Infection (Journal Article)

Scientific Reports (Nature PG), 7 (40599), 2017.

(Abstract | Links | BibTeX)

2016

M, Hölzer; V, Krähling; F, Amman; E, Barth; H, Bernhart; O, Carmelo; M, Collatz; G, Doose; F, Eggenhofer; J, Ewald; J, Fallmann; M, Feldhahn; M, Fricke; J, Gebauer; J, Gruber; F, Hufsky; H, Indrischek; S, Kanton; J, Linde; N, Mostajo; R, Ochsenreiter; K, Riege; L, Rivarola-Duarte; H, Sahyoun; J, Saunders; E, Seemann; A, Tanzer; B, Vogel; S, Wehner; T, Wolfinger; R, Backofen; J, Gorodkin; I, Grosse; I, Hofacker; S, Hoffmann; C, Kaleta; F, Stadler; S, Becker; M, Marz

Differential transcriptional responses to Ebola and Marburg virus infection in bat and human cells (Journal Article)

Scientific Reports (Nature PG), 6 (34589 ), 2016.

(Abstract | Links | BibTeX)

2015

J, Linde; S, Duggan; M, Weber; F, Horn; P, Sieber; D, Hellwig; K, Riege; M, Marz; R, Martin; R, Guthke; O, Kurzai

Defining the transcriptomic landscape of Candida glabrata by RNA-Seq (Journal Article)

Nucleic Acids Res, 43 (3), pp. 1392-1406, 2015.

(Abstract | Links | BibTeX)

2014

U, Schwartze; S, Winter; E, Shelest; M, Marcet-Houben; F, Horn; S, Wehner; J, Linde; V, Valiante; M, Sammeth; K, Riege; M, Nowrousian; K, Kaerger; D, Jacobsen; M, Marz; A, Brakhage; T, Gabald'on; S, Böcker; K, Voigt

Gene expansion shapes genome architecture in the human pathogen Lichtheimia corymbifera: an evolutionary genomics analysis in the ancient terrestrial mucorales (Mucoromycotina) (Journal Article)

PLoS Genet, 10 (8), 2014.

(Abstract | Links | BibTeX)

K, Sachse; K, Laroucau; K, Riege; S, Wehner; M, Dilcher; H, Creasy; M, Weidmann; G, Myers; F, Vorimore; N, Vicari; S, Magnino; E, Liebler-Tenorio; A, Ruettger; M, Bavoil; T, Hufert; R, Rossell'o-M'ora; M, Marz

Evidence for the existence of two new members of the family Chlamydiaceae and proposal of Chlamydia avium sp. nov. and Chlamydia gallinacea sp. nov (Journal Article)

Syst Appl Microbiol, 37 (2), pp. 79-88, 2014.

(Abstract | Links | BibTeX)

M, Lechner; I, Nickel; S, Wehner; K, Riege; N, Wieseke; M, Beckmann; K, Hartmann; M, Marz

Genomewide comparison and novel ncRNAs of Aquificales (Journal Article)

BMC Genomics, 15 , pp. 522-522, 2014.

(Abstract | Links | BibTeX)