This repository is divided into several directories and subdirectories that contain scripts for analyzing data associated with the paper "RNA-mediated symmetry breaking enables singular olfactory receptor choice" (Pourmorady et al., 2023).
https://www.nature.com/articles/s41586-023-06845-4
All analysis, with the exception of pymol generated models, was performed in RStudio.
Directories are divided by methodology and may contain subdirectories that are specific to certain panels within figures.
To independently analyze this data, we provide all input and annotation files which are attached to the GEO superseries generated for this paper.
| Figure | Panel | Parent Directory | Folder |
|---|---|---|---|
| Fig. 1 | A | multiome | multiome_partI.input_processing |
| Fig. 1 | B | multiome | multiome_partII.pseudotime_projection |
| Fig. 1 | C | multiome | multiome_partII.pseudotime_projection |
| Fig. 1 | D | multiome | multiome_partIII.pseudotime_plots |
| Fig. 1 | E | multiome | multiome_partIV.accessibility_perGI_tileplot |
| Fig. 1 | F | multiome | multiome_partIII.pseudotime_plots |
| Fig. 1 | G | multiome | multiome_partIII.pseudotime_plots |
| Fig. 1 | H | multiome | multiome_partIII.pseudotime_plots |
| Fig. 1 | I | multiome | multiome_partIII.pseudotime_plots |
| Fig. 1 | J | multiome | multiome_partIII.pseudotime_plots |
| Fig. 1 | K | multiome | multiome_partI.input_processing |
| Fig. 1 | L | multiome | multiome_partV.GI_Determinism |
| Fig. 1 | M | multiome | multiome_partV.GI_Determinism |
| Fig. 1 | N | multiome | multiome_partV.GI_Determinism |
| Fig. 2 | B | dipc | dipc.ptII.enhancer.preferences |
| Fig. 2 | C | dipc | dipc.ptIV.inactive.hub.extraction |
| Fig. 2 | E | dipc | dipc.ptVII.GIH_ORcomp_contact_specificity |
| Fig. 2 | F | dipc | dipc.ptVII.GIH_ORcomp_contact_specificity |
| Fig. 2 | G | dipc | dipc.ptVII.GIH_ORcomp_contact_specificity |
| Fig. 2 | H | dipc | dipc.ptVII.GIH_ORcomp_contact_specificity |
| Fig. 3 | A | liquidhic | liquid.hic.heatmaps |
| Fig. 3 | B | liquidhic | liquid.hic.heatmaps.replicates |
| Fig. 3 | C | hichip | |
| Fig. 3 | D | hichip | |
| Fig. 4 | B | rna | rna.final |
| Fig. 4 | hic | hic | |
| Fig. 4 | C | rna | rna.final |
| Fig. 4 | hic | hic | |
| Fig. 4 | H | rna | ompttatetop2.mor28icretdt.rna |
| Fig. 4 | I | hic | ompttatetop2.mor28icretdt.hic |
| Fig. 4 | J | hic | ompttatetop2.mor28icretdt.hic |
| Fig. 4 | K | hic | ompttatetop2.mor28icretdt.hic |
| Fig. 4 | L | hic | ompttatetop2.mor28icretdt.hic |
| Fig. 4 | M | hic | ompttatetop2.mor28icretdt.hic |
| Fig. 4 | N | hic | ompttatetop2.mor28icretdt.hic |
| Fig. 5 | A | rna | rna.final |
| Fig. 5 | hic | hic | |
| Fig. 5 | B | rna | rna.final |
| Fig. 5 | hic | hic | |
| Supp Fig. 1 | A | multiome_P2nc | multiome_partI.input_processing |
| Supp Fig. 1 | B | multiome_P2nc | multiome_partII.pseudotime_projection |
| Supp Fig. 1 | C | multiome_P2nc | multiome_partII.pseudotime_projection |
| Supp Fig. 1 | D | multiome_P2nc | multiome_partIII.pseudotime_plots |
| Supp Fig. 1 | E | multiome_P2nc | multiome_partIV.accessibility_perGI_tileplot |
| Supp Fig. 1 | F | multiome_P2nc | multiome_partIII.pseudotime_plots |
| Supp Fig. 1 | G | multiome_P2nc | multiome_partIII.pseudotime_plots |
| Supp Fig. 1 | H | multiome_P2nc | multiome_partIII.pseudotime_plots |
| Supp Fig. 1 | I | multiome_P2nc | multiome_partIII.pseudotime_plots |
| Supp Fig. 1 | J | multiome_P2nc | multiome_partIII.pseudotime_plots |
| Supp Fig. 1 | K | multiome_P2nc | multiome_partI.input_processing |
| Supp Fig. 1 | L | multiome_P2nc | multiome_partV.GI_Determinism |
| Supp Fig. 1 | M | multiome_P2nc | multiome_partV.GI_Determinism |
| Supp Fig. 1 | N | multiome_P2nc | multiome_partV.GI_Determinism |
| Supp. Fig. 2 | A | rna | rna.final |
| Supp. Fig. 2 | B | rna | rna.final |
| Supp. Fig. 2 | C | rna | rna.final |
| Supp. Fig. 2 | D | multiome | multiome_partI.input_processing |
| Supp. Fig. 2 | E | multiome | multiome_partI.input_processing |
| Supp. Fig. 4 | C | dipc | dipc.ptI.counting.enhancers.by.distance |
| Supp. Fig. 4 | D | dipc | dipc.ptI.counting.enhancers.by.distance |
| Supp. Fig. 5 | B | dipc | dipc.ptII.enhancer.preferences |
| Supp. Fig. 5 | C | dipc | dipc.ptIII.GIHDeterminism |
| Supp. Fig. 5 | D | dipc | dipc.ptV.hubs.per.cell |
| Supp. Fig. 5 | E | dipc | dipc.ptIV.inactive.hub.extraction |
| Supp. Fig. 6 | B | dipc | dipc.ptVI.EqualHubComparison.QC |
| Supp. Fig. 6 | C | dipc | dipc.ptVI.EqualHubComparison.QC |
| Supp. Fig. 6 | D | dipc | dipc.ptVII.GIH_ORcomp_contact_specificity |
| Supp. Fig. 6 | E | dipc | dipc.ptVII.GIH_ORcomp_contact_specificity |
| Supp. Fig. 6 | F | dipc | dipc.ptVII.GIH_ORcomp_contact_specificity |
| Supp. Fig. 7 | B | liquidhic | liquid.hic.LOS |
| Supp. Fig. 7 | C | liquidhic | liquid.hic.LOS |
| Supp. Fig. 7 | E | hichip | |
| Supp. Fig. 7 | F | hichip | |
| Supp. Fig. 7 | G | hichip | |
| Supp. Fig. 7 | H | hichip | |
| Supp. Fig. 8 | A | hic | hic |
| Supp. Fig. 8 | B | hic | hic |
| Supp. Fig. 8 | C | hic | hic |
| Supp. Fig. 8 | D | hic | hic |
| Supp. Fig. 8 | E | dipc | dipc.ptVIII.inactive.hub.extraction.tan/dipc.ptIX.tanPCAandGIHsize |
| Supp. Fig. 8 | F | dipc | dipc.ptVIII.inactive.hub.extraction.tan/dipc.ptIX.tanPCAandGIHsize |
| Supp. Fig. 9 | A | hic | ompttatetop2.mor28icretdt.hic |
| Supp. Fig. 9 | B | hic | ompttatetop2.mor28icretdt.hic |
| Supp. Fig. 10 | B | rna | rna.final |
| Supp. Fig. 10 | C | rna | rna.final |
| Supp. Fig. 10 | D | hic | hic |
| Supp. Fig. 10 | G | rna | rna.OMPM71nc_v_OMPtTAtetOGFP |
| Supp. Fig. 10 | H | rna | rna.OMPM71nc_v_OMPGFP |
| Supp. Fig. 10 | I | rna | rna.OMPM71nc_v_OMPGFPOMPtTA |
Raw NGS Data: https://www.ncbi.nlm.nih.gov/geo/download/?acc=GSE230380&format=file