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 Rv1422/-

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

	Rv2985/mutT1	Rv1422/-
Fe_supp_jason_reseq	0.066	1.358
low_pH_jason_reseq	0.765	-0.234
NO_jason_reseq	0.221	0.068
B6_jason_reseq	-1.397	-1.947
MHCII_jason_reseq	-1.508	-1.4
Isoniazid02	0.876	-0.579
Rifampicin4	-0.29	0.138
Ethambutol3	0.122	0.753
Meropenem3	-0.34	-0.383
Vancomycin16	-0.069	-1.61
Rv2680_day32	-0.83	-0.19
H37Rv_KO_MarP	0.419	2.572
hypoxia_3wks	0.327	-2.237
hypoxia_6wks	0.282	-1.8
glycerol	0.784	-2.06
cholesterol	-0.773	-0.114
AJ	-0.541	-1.262
Bibs02	-0.368	-1.191
Bibs02c	0.444	-0.233
BL6	0.939	1.148
BL6a	0.907	0.199
BXD01	-0.143	0.852
BXD010	0.749	1.191
BXD011	0.583	-0.186
BXD03	0.597	0.191
BXD04	0.34	0.518
BXD05	0.639	1.044
BXD06	0.677	1.083
BXD07	-0.074	0.961
BXD08	1.096	0.636
BXD09	0.356	0.617
CAST	0.853	-0.546
CCcont	0.317	0.531
DS01	0.648	0.0
DS02	-0.978	-1.676
DS04	-1.211	-1.32
DS0c	-0.116	-1.413
GP01	0.996	1.051
GP02	0.511	0.406
GP0c	1.231	1.159
NOD	0.0	-1.956
NZO	0.701	-0.757
PWK	0.539	-0.465
H37Rv_KO_CtpC	0.85	0.525
H37Rv_KO_CtpD	1.239	0.276
H37Rv_KO_Rv1272	0.669	0.218
H37Rv_KO_SugABC	0.623	-0.293
H37Rv_KO_MbtN	-0.31	0.959
Trans05	0.131	-0.386
macrophage_unactivated	-0.303	-0.578
IL1	0.641	-1.163
Rapamycin	0.601	-0.632
Tcell	-0.153	-0.485
GMCSF	-0.671	0.356
IFNab	-0.142	-0.03
IFNg	-0.393	-0.428
IFNg_GMCSF1	-0.625	-0.097
Rv1432_day32	-0.428	-0.039
Rv1565c_day32	-0.13	-2.854
secA2_input	-1.016	-0.762
delta_Rv3594	1.366	2.034
delta_Rv3717	0.337	1.443
delta_Rv3811	0.128	1.377
delta_Rv0954	1.154	1.081
PonA1	0.57	-1.154
EccD1_KO	0.204	2.625
EspI_KO	0.667	0.918
PE35_KO	0.123	1.488
PPE68_KO	-0.208	1.561
glycerol2	-0.069	0.191
lignocerate	-1.61	-3.01
oleate	-0.216	-1.591
phosphatidylcholine	-1.541	-3.013
acetate	0.155	0.043
glucAc	-0.847	-0.38
Rv0950ko	-0.16	0.488
Rv1096ko	0.449	-0.217
Rv3684ko	0.0	0.033
delta_otsA_trehalose	-0.486	1.62