| deepTools2: a next generation web server for deep-sequencing data analysis F Ramírez, DP Ryan, B Grüning, V Bhardwaj, F Kilpert, AS Richter, ... Nucleic acids research 44 (Web Server issue), W160, 2016 | 6069 | 2016 |
| High-resolution TADs reveal DNA sequences underlying genome organization in flies F Ramírez*, V Bhardwaj*, L Arrigoni, KC Lam, BA Grüning, J Villaveces, ... Nature communications 9 (1), 189, 2018 | 770 | 2018 |
| DHX9 suppresses RNA processing defects originating from the Alu invasion of the human genome T Aktaş, İ Avşar Ilık, D Maticzka, V Bhardwaj, C Pessoa Rodrigues, ... Nature 544 (7648), 115-119, 2017 | 495 | 2017 |
| pyGenomeTracks: reproducible plots for multivariate genomic datasets L Lopez-Delisle, L Rabbani, J Wolff, V Bhardwaj, R Backofen, B Grüning, ... Bioinformatics 37 (3), 422-423, 2021 | 315 | 2021 |
| Galaxy HiCExplorer: a web server for reproducible Hi-C data analysis, quality control and visualization J Wolff, V Bhardwaj, S Nothjunge, G Richard, G Renschler, R Gilsbach, ... Nucleic acids research 46 (W1), W11-W16, 2018 | 203 | 2018 |
| Community-driven data analysis training for biology B Batut, S Hiltemann, A Bagnacani, D Baker, V Bhardwaj, C Blank, ... Cell systems 6 (6), 752-758. e1, 2018 | 200 | 2018 |
| snakePipes: facilitating flexible, scalable and integrative epigenomic analysis V Bhardwaj, S Heyne, K Sikora, L Rabbani, M Rauer, F Kilpert, AS Richter, ... Bioinformatics 35 (22), 4757-4759, 2019 | 137 | 2019 |
| MOF maintains transcriptional programs regulating cellular stress response BN Sheikh, W Bechtel-Walz, J Lucci, O Karpiuk, I Hild, B Hartleben, ... Oncogene 35 (21), 2698-2710, 2016 | 69 | 2016 |
| Creating clear and informative image-based figures for scientific publications H Jambor, A Antonietti, B Alicea, TL Audisio, S Auer, V Bhardwaj, ... PLoS biology 19 (3), e3001161, 2021 | 55 | 2021 |
| Large expert-curated database for benchmarking document similarity detection in biomedical literature search P Brown, Y Zhou Database 2019, baz085, 2019 | 40 | 2019 |
| Neural metabolic imbalance induced by MOF dysfunction triggers pericyte activation and breakdown of vasculature BN Sheikh, S Guhathakurta, TH Tsang, M Schwabenland, G Renschler, ... Nature cell biology 22 (7), 828-841, 2020 | 35 | 2020 |
| Single-cell sortChIC identifies hierarchical chromatin dynamics during hematopoiesis P Zeller, J Yeung, H Viñas Gaza, BA de Barbanson, V Bhardwaj, ... Nature Genetics 55 (2), 333-345, 2023 | 30 | 2023 |
| Alu-miRNA interactions modulate transcript isoform diversity in stress response and reveal signatures of positive selection R Pandey, A Bhattacharya*, V Bhardwaj*, V Jha, AK Mandal, M Mukerji Scientific reports 6 (1), 1-18, 2016 | 26 | 2016 |
| The NSL complex-mediated nucleosome landscape is required to maintain transcription fidelity and suppression of transcription noise KC Lam, HR Chung, G Semplicio, SS Iyer, A Gaub, V Bhardwaj, H Holz, ... Genes & Development 33 (7-8), 452-465, 2019 | 18 | 2019 |
| MAPCap allows high-resolution detection and differential expression analysis of transcription start sites V Bhardwaj, G Semplicio, NU Erdogdu, T Manke, A Akhtar Nature Communications 10 (1), 3219, 2019 | 17 | 2019 |
| Draft genome sequence of urease-producing Sporosarcina pasteurii with potential application in biocement production PK Tiwari, K Joshi, R Rehman, V Bhardwaj, KV Shamsudheen, ... Genome announcements 2 (1), 10.1128/genomea. 01256-13, 2014 | 11 | 2014 |
| The Zebrafish GenomeWiki: a crowdsourcing approach to connect the long tail for zebrafish gene annotation M Singh, D Bhartiya, J Maini, M Sharma, AR Singh, S Kadarkaraisamy, ... Database 2014, bau011, 2014 | 9 | 2014 |
| Acute multi-level response to defective de novo chromatin assembly in S-phase J Dreyer, G Ricci, J van den Berg, V Bhardwaj, J Funk, C Armstrong, ... Molecular Cell, 2024 | 2 | 2024 |
| Stem cell culture conditions affect in vitro differentiation potential and efficiency of mouse gastruloid development M Blotenburg, L Suurenbroek, V Bhardwaj, P Zeller bioRxiv, 2024.05. 09.593319, 2024 | 1 | 2024 |
| Single-cell multi-omic analysis reveals principles of transcription-chromatin interaction during embryogenesis V Bhardwaj, A Griffa, HV Gaza, P Zeller, A van Oudenaarden bioRxiv, 2024.09. 23.614335, 2024 | | 2024 |
Thomas MankeHead of Bioinformatics and Deep-Sequencing Unit, Max Planck Institute for Immunobiology andEmail verificata su ie-freiburg.mpg.de