Comparative analysis of single-cell RNA sequencing methods C Ziegenhain, B Vieth, S Parekh, B Reinius, A Guillaumet-Adkins, ... Molecular cell 65 (4), 631-643. e4, 2017 | 1437 | 2017 |
Single-cell RNA counting at allele and isoform resolution using Smart-seq3 M Hagemann-Jensen, C Ziegenhain, P Chen, D Ramsköld, GJ Hendriks, ... Nature biotechnology 38 (6), 708-714, 2020 | 507 | 2020 |
Evolutionary routes and KRAS dosage define pancreatic cancer phenotypes S Mueller, T Engleitner, R Maresch, M Zukowska, S Lange, ... Nature 554 (7690), 62-68, 2018 | 386 | 2018 |
Benchmarking single-cell RNA-sequencing protocols for cell atlas projects E Mereu, A Lafzi, C Moutinho, C Ziegenhain, DJ McCarthy, ... Nature biotechnology 38 (6), 747-755, 2020 | 359 | 2020 |
zUMIs-A fast and flexible pipeline to process RNA sequencing data with UMIs S Parekh, C Ziegenhain, B Vieth, W Enard, I Hellmann Gigascience 7 (6), giy059, 2018 | 321 | 2018 |
Characterization of rare, dormant, and therapy-resistant cells in acute lymphoblastic leukemia S Ebinger, EZ Özdemir, C Ziegenhain, S Tiedt, CC Alves, M Grunert, ... Cancer cell 30 (6), 849-862, 2016 | 271 | 2016 |
The impact of amplification on differential expression analyses by RNA-seq S Parekh, C Ziegenhain, B Vieth, W Enard, I Hellmann Scientific reports 6 (1), 25533, 2016 | 260 | 2016 |
A systematic evaluation of single cell RNA-seq analysis pipelines B Vieth, S Parekh, C Ziegenhain, W Enard, I Hellmann Nature communications 10 (1), 4667, 2019 | 257 | 2019 |
Sensitive and powerful single-cell RNA sequencing using mcSCRB-seq JW Bagnoli, C Ziegenhain, A Janjic, LE Wange, B Vieth, S Parekh, ... Nature communications 9 (1), 2937, 2018 | 242 | 2018 |
powsimR: power analysis for bulk and single cell RNA-seq experiments B Vieth, C Ziegenhain, S Parekh, W Enard, I Hellmann Bioinformatics 33 (21), 3486-3488, 2017 | 148 | 2017 |
GATA2/3-TFAP2A/C transcription factor network couples human pluripotent stem cell differentiation to trophectoderm with repression of pluripotency C Krendl, D Shaposhnikov, V Rishko, C Ori, C Ziegenhain, S Sass, ... Proceedings of the National Academy of Sciences 114 (45), E9579-E9588, 2017 | 135 | 2017 |
Chromatin-remodeling factor SMARCD2 regulates transcriptional networks controlling differentiation of neutrophil granulocytes M Witzel, D Petersheim, Y Fan, E Bahrami, T Racek, M Rohlfs, J Puchałka, ... Nature genetics 49 (5), 742-752, 2017 | 106 | 2017 |
Scalable single-cell RNA sequencing from full transcripts with Smart-seq3xpress M Hagemann-Jensen, C Ziegenhain, R Sandberg Nature Biotechnology 40 (10), 1452-1457, 2022 | 72* | 2022 |
Non-canonical Wnt/PCP signalling regulates intestinal stem cell lineage priming towards enteroendocrine and Paneth cell fates A Böttcher, M Büttner, S Tritschler, M Sterr, A Aliluev, L Oppenländer, ... Nature cell biology 23 (1), 23-31, 2021 | 65 | 2021 |
Quantitative single-cell transcriptomics C Ziegenhain, B Vieth, S Parekh, I Hellmann, W Enard Briefings in functional genomics 17 (4), 220-232, 2018 | 57 | 2018 |
Recent evolution of a TET-controlled and DPPA3/STELLA-driven pathway of passive DNA demethylation in mammals CB Mulholland, A Nishiyama, J Ryan, R Nakamura, M Yiğit, IM Glück, ... Nature communications 11 (1), 5972, 2020 | 55 | 2020 |
Niche WNT5A regulates the actin cytoskeleton during regeneration of hematopoietic stem cells C Schreck, R Istvánffy, C Ziegenhain, T Sippenauer, F Ruf, L Henkel, ... Journal of experimental medicine 214 (1), 165-181, 2017 | 48 | 2017 |
Prime-seq, efficient and powerful bulk RNA sequencing A Janjic, LE Wange, JW Bagnoli, J Geuder, P Nguyen, D Richter, B Vieth, ... Genome biology 23 (1), 88, 2022 | 46 | 2022 |
Low spatial structure and selection against secreted virulence factors attenuates pathogenicity in Pseudomonas aeruginosa ET Granato, C Ziegenhain, RL Marvig, R Kümmerli The ISME journal 12 (12), 2907-2918, 2018 | 44 | 2018 |
Transcriptional kinetics and molecular functions of long noncoding RNAs P Johnsson, C Ziegenhain, L Hartmanis, GJ Hendriks, ... Nature Genetics 54 (3), 306-317, 2022 | 39 | 2022 |