Publications

Below is a list of our selected publications. ( `*` = equal contribution )

Single-cell sortChIC identifies hierarchical chromatin dynamics during hematopoiesis

Zeller* P, Yeung* J, Gaza HV, de Barbanson BA, Bhardwaj V, Florescu M, van der Linden R, van Oudenaarden A.

2023 Nat. Genetics

pyGenomeTracks: reproducible plots for multivariate genomic datasets.

Lopez-Delisle, L., Rabbani, L., Wolff, J., Bhardwaj, V., Backofen, R., Grüning, B., Ramírez, F., & Manke, T.

2021 Bioinformatics

MAPCap allows high-resolution detection and differential expression analysis of transcription start sites.

Bhardwaj V*, Semplicio G*, Erdogdu NU, Manke T & Akhtar A

2019 Nat. Commun.

snakePipes: facilitating flexible, scalable and integrative epigenomic analysis.

Bhardwaj V*, Heyne S*, Sikora K, Rabbani L, Rauer M, Kilpert F, Richter AS, Ryan DP & Manke T

2019 Bioinformatics

High-resolution TADs reveal DNA sequences underlying genome organization in flies.

Ramírez F*, Bhardwaj V*, Arrigoni L, Lam KC, Grüning BA, Villaveces J, Habermann B, Akhtar A & Manke T

2018 Nat. Commun.

DHX9 suppresses RNA processing defects originating from the Alu invasion of the human genome.

Aktaş T, Avşar Ilık İ, Maticzka D, Bhardwaj V, Pessoa Rodrigues C, Mittler G, Manke T, Backofen R & Akhtar A

2017 Nature

deepTools2: a next generation web server for deep-sequencing data analysis.

Ramírez F, Ryan DP, Grüning B, Bhardwaj V, Kilpert F, Richter AS, Heyne S, Dündar F & Manke T

2016 Nucleic Acids Res.

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