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 Rv0305c/PPE6:

update plot	correlation	link to info on gene
Rv1917c/PPE34	(cc=0.6677)	info on Rv1917c/PPE34
Rv1918c/PPE35	(cc=0.6401)	info on Rv1918c/PPE35
Rv2735c/-	(cc=0.6291)	info on Rv2735c/-
Rv1500/-	(cc=0.6116)	info on Rv1500/-
Rv2338c/moeW	(cc=0.6041)	info on Rv2338c/moeW
Rv3796/-	(cc=0.5975)	info on Rv3796/-
Rv2430c/PPE41	(cc=0.5849)	info on Rv2430c/PPE41
Rv3382c/lytB1	(cc=0.584)	info on Rv3382c/lytB1
Rv0469/umaA	(cc=0.5786)	info on Rv0469/umaA
Rv1585c/-	(cc=0.5774)	info on Rv1585c/-

Correlation of Rv0305c/PPE6 with Rv1585c/-

Normalized LFCs for Rv0305c/PPE6:
(description and provenance of datasets)

	Rv0305c/PPE6	Rv1585c/-
Fe_supp_jason_reseq	0.584	1.121
low_pH_jason_reseq	-0.248	0.169
NO_jason_reseq	-0.333	0.391
B6_jason_reseq	-0.199	-0.723
MHCII_jason_reseq	0.274	-0.485
Isoniazid02	-0.374	0.131
Rifampicin4	0.133	0.796
Ethambutol3	0.022	-0.117
Meropenem3	0.488	1.022
Vancomycin16	-0.255	0.878
Rv2680_day32	-0.065	0.249
H37Rv_KO_MarP	-0.106	0.127
hypoxia_3wks	0.195	-0.235
hypoxia_6wks	-0.104	-0.526
glycerol	-0.252	-0.809
cholesterol	-0.306	0.193
AJ	0.506	0.983
Bibs02	0.13	-1.507
Bibs02c	0.247	-0.102
BL6	0.258	0.569
BL6a	0.373	0.092
BXD01	0.345	0.278
BXD010	0.176	-0.345
BXD011	0.352	-0.51
BXD03	0.263	1.103
BXD04	0.162	-0.495
BXD05	0.679	1.934
BXD06	0.201	0.122
BXD07	0.145	-0.138
BXD08	0.476	0.994
BXD09	0.364	-0.216
CAST	0.611	-0.112
CCcont	0.096	0.069
DS01	0.558	0.683
DS02	0.501	0.629
DS04	0.401	0.696
DS0c	0.46	-0.333
GP01	0.546	-0.625
GP02	0.609	-0.393
GP0c	0.212	0.911
NOD	1.365	2.94
NZO	0.4	-1.097
PWK	0.166	0.494
H37Rv_KO_CtpC	0.431	2.372
H37Rv_KO_CtpD	1.852	3.324
H37Rv_KO_Rv1272	1.229	1.597
H37Rv_KO_SugABC	1.067	1.362
H37Rv_KO_MbtN	0.798	0.644
Trans05	0.903	0.423
macrophage_unactivated	0.846	2.547
IL1	-0.208	-1.231
Rapamycin	0.0	-0.921
Tcell	0.925	0.554
GMCSF	0.275	0.0
IFNab	-0.151	-1.255
IFNg	0.561	-1.109
IFNg_GMCSF1	0.06	1.012
Rv1432_day32	0.026	0.0
Rv1565c_day32	-0.13	0.455
secA2_input	-0.621	-1.077
delta_Rv3594	0.0	-2.071
delta_Rv3717	-0.39	-1.396
delta_Rv3811	-0.097	-1.456
delta_Rv0954	-0.465	-0.677
PonA1	0.045	-0.503
EccD1_KO	-0.743	0.125
EspI_KO	-0.627	-1.001
PE35_KO	-0.642	-0.117
PPE68_KO	-0.598	0.8
glycerol2	-0.136	-0.161
lignocerate	-0.078	-0.375
oleate	-0.138	0.152
phosphatidylcholine	0.011	0.15
acetate	-0.474	0.263
glucAc	-0.345	0.485
Rv0950ko	0.911	1.839
Rv1096ko	-0.208	0.332
Rv3684ko	0.098	0.904
delta_otsA_trehalose	-0.191	0.039