TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv2985/mutT1:

update plot	correlation	link to info on gene
Rv0505c/serB1	(cc=0.4991)	info on Rv0505c/serB1
Rv1059/-	(cc=0.4928)	info on Rv1059/-
Rv1752/-	(cc=0.478)	info on Rv1752/-
Rv1505c/-	(cc=0.4747)	info on Rv1505c/-
Rv1806/PE20	(cc=0.4625)	info on Rv1806/PE20
Rv2160c/-	(cc=0.46)	info on Rv2160c/-
Rv1422/-	(cc=0.4477)	info on Rv1422/-
Rv2650c/-	(cc=0.4405)	info on Rv2650c/-
Rv1239c/corA	(cc=0.4376)	info on Rv1239c/corA
Rv2134c/-	(cc=0.4372)	info on Rv2134c/-

Correlation of Rv2985/mutT1 with Rv2134c/-

Normalized LFCs for Rv2985/mutT1:
(description and provenance of datasets)

	Rv2985/mutT1	Rv2134c/-
Fe_supp_jason_reseq	0.066	0.297
low_pH_jason_reseq	0.765	1.402
NO_jason_reseq	0.221	-0.142
B6_jason_reseq	-1.397	-0.671
MHCII_jason_reseq	-1.508	-1.365
Isoniazid02	0.876	1.529
Rifampicin4	-0.29	0.07
Ethambutol3	0.122	-0.032
Meropenem3	-0.34	-0.25
Vancomycin16	-0.069	-0.361
Rv2680_day32	-0.83	0.576
H37Rv_KO_MarP	0.419	0.164
hypoxia_3wks	0.327	0.79
hypoxia_6wks	0.282	0.449
glycerol	0.784	1.514
cholesterol	-0.773	0.072
AJ	-0.541	2.664
Bibs02	-0.368	0.135
Bibs02c	0.444	0.053
BL6	0.939	1.098
BL6a	0.907	1.845
BXD01	-0.143	1.944
BXD010	0.749	0.894
BXD011	0.583	1.787
BXD03	0.597	2.13
BXD04	0.34	2.684
BXD05	0.639	1.601
BXD06	0.677	1.723
BXD07	-0.074	1.997
BXD08	1.096	1.765
BXD09	0.356	1.672
CAST	0.853	-0.06
CCcont	0.317	2.265
DS01	0.648	-0.123
DS02	-0.978	-0.635
DS04	-1.211	0.738
DS0c	-0.116	0.707
GP01	0.996	1.676
GP02	0.511	0.119
GP0c	1.231	1.772
NOD	0.0	2.185
NZO	0.701	2.438
PWK	0.539	0.526
H37Rv_KO_CtpC	0.85	0.646
H37Rv_KO_CtpD	1.239	2.104
H37Rv_KO_Rv1272	0.669	0.767
H37Rv_KO_SugABC	0.623	0.539
H37Rv_KO_MbtN	-0.31	2.6
Trans05	0.131	2.043
macrophage_unactivated	-0.303	0.297
IL1	0.641	-1.089
Rapamycin	0.601	-0.417
Tcell	-0.153	0.052
GMCSF	-0.671	-0.129
IFNab	-0.142	1.376
IFNg	-0.393	-0.818
IFNg_GMCSF1	-0.625	-0.657
Rv1432_day32	-0.428	-0.442
Rv1565c_day32	-0.13	-0.518
secA2_input	-1.016	-1.199
delta_Rv3594	1.366	1.104
delta_Rv3717	0.337	0.985
delta_Rv3811	0.128	1.38
delta_Rv0954	1.154	1.147
PonA1	0.57	-1.337
EccD1_KO	0.204	-0.276
EspI_KO	0.667	-0.653
PE35_KO	0.123	-0.586
PPE68_KO	-0.208	-0.921
glycerol2	-0.069	-0.214
lignocerate	-1.61	-0.725
oleate	-0.216	-1.345
phosphatidylcholine	-1.541	-1.246
acetate	0.155	0.118
glucAc	-0.847	-0.055
Rv0950ko	-0.16	0.0
Rv1096ko	0.449	-1.71
Rv3684ko	0.0	-2.122
delta_otsA_trehalose	-0.486	-0.164