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- 13:24, 3 March 2021 (diff | hist) . . (+366) . . Key master regulators of co-expressed genes (→Fast muscle (EDL)) (current)
- 13:18, 3 March 2021 (diff | hist) . . (+142) . . N File:Master regulators - Figure11.png (Figure 11. Alternative cell cycle regulators cluster, fast muscle. Top 5 master regulators and their effectors (intermediate nodes not shown).) (current)
- 13:12, 3 March 2021 (diff | hist) . . (+364) . . Key master regulators of co-expressed genes (→Fast muscle (EDL))
- 13:10, 3 March 2021 (diff | hist) . . (+131) . . N File:Master regulators - Figure10.png (Figure 10. Proteasomal degradation cluster, EDL muscle. Top 5 master regulators and their effectors (intermediate nodes not shown).) (current)
- 13:08, 3 March 2021 (diff | hist) . . (+315) . . Key master regulators of co-expressed genes
- 12:59, 3 March 2021 (diff | hist) . . (+86) . . N File:Master regulators - Figure9.png (Figure 9. Cell cycle cluster, EDL muscle.. Network of top 5 keynode master regulators.) (current)
- 12:47, 3 March 2021 (diff | hist) . . (+2,875) . . Key master regulators of co-expressed genes
- 12:42, 3 March 2021 (diff | hist) . . (+897) . . Key master regulators of co-expressed genes
- 12:40, 3 March 2021 (diff | hist) . . (+101) . . N File:Master regulators - Figure8.png (Figure 8. Alternative cell cycle related cluster, soleus muscle. Network of top 5 master regulators.) (current)
- 12:32, 3 March 2021 (diff | hist) . . (+1,766) . . Key master regulators of co-expressed genes
- 12:31, 3 March 2021 (diff | hist) . . (+203) . . N File:Master regulators - Figure7.png (Figure 7. Proteasomal degradation (regeneration) cluster, soleus muscle. Network of top 5 master regulators. See SF for complete view with intermediate transducers of proteasomal degradation signal shown) (current)
- 21:45, 2 March 2021 (diff | hist) . . (+1,828) . . Key master regulators of co-expressed genes
- 21:40, 2 March 2021 (diff | hist) . . (-3) . . Key master regulators of co-expressed genes (→Description of master regulators in slow and fast muscles)
- 21:33, 2 March 2021 (diff | hist) . . (+43) . . Key master regulators of co-expressed genes (→Description of master regulators in slow and fast muscles)
- 21:33, 2 March 2021 (diff | hist) . . (+71) . . N File:Master regulators - FigureMR1.png (Proteasomal cluster, soleus muscle. Network of top 5 master regulators.) (current)
- 21:25, 2 March 2021 (diff | hist) . . (+65) . . Key master regulators of co-expressed genes
- 21:23, 2 March 2021 (diff | hist) . . (+1,725) . . N Key master regulators of co-expressed genes (Created page with "Using advantages of the design of the experiment allowing time-series style analysis, we identified master regulators and key-nodes (master regulators with positive feedback l...")
- 21:21, 2 March 2021 (diff | hist) . . (+54) . . Main Page (→CAGE-seq analysis)
- 21:16, 2 March 2021 (diff | hist) . . (+206) . . Enhancers (current)
- 20:46, 2 March 2021 (diff | hist) . . (+173) . . Enhancers
- 20:29, 2 March 2021 (diff | hist) . . (+201) . . Alternative usage of dominating TSS (current)
- 20:20, 2 March 2021 (diff | hist) . . (+566) . . Unique intergenic TSS (current)
- 20:05, 2 March 2021 (diff | hist) . . (+452) . . Gene set enrichment analysis (GSEA) (current)
- 20:04, 2 March 2021 (diff | hist) . . (+56) . . Gene set enrichment analysis (GSEA)
- 19:42, 2 March 2021 (diff | hist) . . (+358) . . Gene set enrichment analysis (GSEA)
- 19:35, 2 March 2021 (diff | hist) . . (+479) . . TSS and DEGs (current)
- 16:49, 2 March 2021 (diff | hist) . . (+208) . . Enhancers
- 16:47, 2 March 2021 (diff | hist) . . (+103) . . N File:Enhancers - Figure5.png (Tissue-specific enhancers of soleus and EDL muscles Strandless coordinate intersection with 1nt cutoff) (current)
- 16:43, 2 March 2021 (diff | hist) . . (+232) . . Alternative usage of dominating TSS
- 16:34, 2 March 2021 (diff | hist) . . (+102) . . N File:Alternative usage of dominating TSS - Figure4.png (Alternative TSS in genes Myh4 (A) and Rtkn (B) shown in GTRD web browser. See SF4 for the full figure.) (current)
- 16:15, 2 March 2021 (diff | hist) . . (+685) . . TSS and DEGs
- 15:29, 2 March 2021 (diff | hist) . . (+602) . . N File:TSS and DEGs - Figure3.png (Differentially expressed genes (DEGs) and differentially expressed enhancers in soleus and EDL muscles. A. Number of DEGs. B. Number of differentially expressed enhancers. C. DEGs in the fast and slow muscles (as compared to control) on days 1, 3 and 7...) (current)
- 15:20, 2 March 2021 (diff | hist) . . (+529) . . TSS and DEGs
- 14:59, 2 March 2021 (diff | hist) . . (0) . . TSS and DEGs
- 14:43, 2 March 2021 (diff | hist) . . (0) . . TSS and DEGs
- 14:38, 2 March 2021 (diff | hist) . . (+28) . . TSS and DEGs
- 14:19, 2 March 2021 (diff | hist) . . (0) . . Main Page
- 14:07, 2 March 2021 (diff | hist) . . (+93) . . TSS and DEGs
- 12:44, 2 March 2021 (diff | hist) . . (+147) . . N File:Figure2b.png (Common and unique differentially expressed peaks between phase-control (Ph-Ct) and time course (TC) comparisons. Soleus muscle. FDR threshold 5e-04) (current)
- 12:28, 2 March 2021 (diff | hist) . . (+339) . . N File:TSS and DEGs - Figure2a.png (Clusterization of differentially expressed peaks (both genic and intergenic) common to both phase-control and time-course comparisons. FDR threshold 5e-04. Clusters of the metabolism regulation through MAP kinase activity, actin biosynthesis, nucleosom...) (current)
- 19:40, 1 March 2021 (diff | hist) . . (+3,638) . . N Enhancers (Created page with "We followed enhancers pipeline [15] to determine bidirectionally expressed permissive DPI1 clusters which were considered as enhancers. Less than 30% of fast muscle enhancers...")
- 19:38, 1 March 2021 (diff | hist) . . (+1,781) . . N Alternative usage of dominating TSS (Created page with "We found that promoter switches play a substantial role in gene expression associated with atrophy processes in both types of muscles. For example, on the first day of recov...")
- 19:36, 1 March 2021 (diff | hist) . . (+2,057) . . N Unique intergenic TSS (Created page with "After identification of TSS profile in both muscles, we found that substantial part of identified peakes does not intersect neither with Ensembl 99 nor with RefSeq 106 or 6.0...")
- 19:34, 1 March 2021 (diff | hist) . . (+2) . . TSS and DEGs
- 19:33, 1 March 2021 (diff | hist) . . (+3,289) . . N Gene set enrichment analysis (GSEA) (Created page with "To dissect genetic processes specific for each phase of atrophy-recovery process, we conducted analogous Gene Set Enrichment Analysis (GSEA) for DEGs unique in each phase (D1-...")
- 19:22, 1 March 2021 (diff | hist) . . (0) . . TSS and DEGs
- 19:21, 1 March 2021 (diff | hist) . . (+2,183) . . N TSS and DEGs (Created page with "To aggregate the CAGE tag start sites (CTSS) into peaks of TSS we employed the DPI1 clustering tool. After applying a permissive threshold (see Methods section and Supplementa...")
- 18:46, 1 March 2021 (diff | hist) . . (+16) . . Main Page (→Bioinformatic analysis)
- 18:43, 1 March 2021 (diff | hist) . . (+70) . . Main Page (→Bioinformatic analysis)
- 18:40, 1 March 2021 (diff | hist) . . (+61) . . Main Page (→Bioinformatic analysis)
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