Nature 2020 01 30 Part.02

Article Extended Data Fig. 1 | DNA supercoil accumulation across the genome in wild-type conditions. a, Schematic representation ...

Extended Data Fig. 2 | See next page for caption. ...

Article Extended Data Fig. 2 | Negative and positive supercoil distribution in DNA topoisomerase mutants. a, Pol II-coding genes ...

Extended Data Fig. 3 | Negative and positive supercoil accumulation in hmo1 mutants. a, Positive supercoil accumulation in wild- ...

Article Extended Data Fig. 4 | See next page for caption. ...

Extended Data Fig. 4 | RNA–DNA hybrid accumulation in wild-type and mutant cells. a, Meta-gene profiles for RNA–DNA hybrid compa ...

Article Extended Data Fig. 5 | Ablation of negative supercoil at boundaries causes topological alterations and nucleosome reposi ...

Extended Data Fig. 6 | Top2 mediates chromatin–chromatin interactions. a, Heat map showing PET clusters in all of the chromosome ...

Article Extended Data Fig. 7 | See next page for caption. ...

Extended Data Fig. 7 | A model for Hmo1, Top2 and Top1-mediated topological dynamics at Pol II genes. a, Schematic representatio ...

Article Extended Data Fig. 8 | bTMP titration. a, b, By using a biotin-labelled oligo as a reference point, we titrated in vivo ...

Extended Data Fig. 9 | bTMP binding normalization and dispersion prof ile f o r bT M P. a, To avoid bias, normalization was perf ...

Article Extended Data Table 1 | List of S. cerevisiae strains ...

1 nature research | reporting summary October 2018 Corresponding author(s): Yathish Jagadheesh Achar Marco Foiani Last updated b ...

2 nature research | reporting summary October 2018 Data Policy information about availability of data All manuscripts must inclu ...

3 nature research | reporting summary October 2018 ChIP-seq Data deposition Confirm that both raw and final processed data have ...

4 nature research | reporting summary October 2018 Software SAMTOOLS (v 1.9) DEEPTOOLS (Ramirez et al., 2014) (v3.2.0) DANPOS to ...

706 | Nature | Vol 577 | 30 January 2020 Article Improved protein structure prediction using potentials from deep learning Andre ...

Nature | Vol 577 | 30 January 2020 | 707 The most-successful FM approaches thus far^9 –^11 have relied on frag- ment assembly. I ...

708 | Nature | Vol 577 | 30 January 2020 Article (see Methods). We parameterized protein structures by the backbone torsion angl ...