The Zebrafish GenomeWiki: a crowdsourcing approach to connect the long tail for zebrafish gene annotation. - Meghna Singh; Deeksha Bhartiya; Jayant Maini; Meenakshi Sharma; Angom Ramcharan Singh; Subburaj Kadarkaraisamy; Rajiv Rana; Ankit Sabharwal; Srishti Nanda; Aravindhakshan Ramachandran; Ashish Mittal; Shruti Kapoor; et al. (Database J. Biol. Databases Curation, 2014)

deepTools2: a next generation web server for deep-sequencing data analysis. - Fidel Ramírez; Devon Patrick Ryan; Björn A. Grüning; Vivek Bhardwaj 002; Fabian Kilpert; Andreas S. Richter; Steffen Heyne; Friederike Dündar; Thomas Manke (Nucleic Acids Res., 2016)

DHX9 suppresses RNA processing defects originating from the Alu invasion of the human genome. - Tugçe Aktas; Ibrahim Avsar Ilik; Daniel Maticzka; Vivek Bhardwaj 002; Cecilia Pessoa Rodrigues; Gerhard Mittler; Thomas Manke; Rolf Backofen; Asifa Akhtar (Nat., 2017)

Galaxy HiCExplorer: a web server for reproducible Hi-C data analysis, quality control and visualization. - Joachim Wolff; Vivek Bhardwaj 002; Stephan Nothjunge; Gautier Richard; Gina Renschler; Ralf Gilsbach; Thomas Manke; Rolf Backofen; Fidel Ramírez; Björn A. Grüning (Nucleic Acids Res., 2018)

snakePipes: facilitating flexible, scalable and integrative epigenomic analysis. - Vivek Bhardwaj 002; Steffen Heyne; Katarzyna Sikora; Leily Rabbani; Michael Rauer; Fabian Kilpert; Andreas S. Richter; Devon Patrick Ryan; Thomas Manke (Bioinform., 2019)

pyGenomeTracks: reproducible plots for multivariate genomic datasets. - Lucille Lopez-Delisle; Leily Rabbani; Joachim Wolff; Vivek Bhardwaj 002; Rolf Backofen; Björn A. Grüning; Fidel Ramírez; Thomas Manke (Bioinform., 2021)