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 Rv0476/-:

update plot	correlation	link to info on gene
Rv0346c/ansP2	(cc=0.5573)	info on Rv0346c/ansP2
Rv0644c/mmaA2	(cc=0.5531)	info on Rv0644c/mmaA2
Rv3821/-	(cc=0.5217)	info on Rv3821/-
Rv0473/-	(cc=0.4926)	info on Rv0473/-
Rv3487c/lipF	(cc=0.4905)	info on Rv3487c/lipF
Rv1861/-	(cc=0.4767)	info on Rv1861/-
Rv1871c/-	(cc=0.4761)	info on Rv1871c/-
Rv1386/PE15	(cc=0.4739)	info on Rv1386/PE15
Rv2618/-	(cc=0.4739)	info on Rv2618/-
Rv2184c/-	(cc=0.464)	info on Rv2184c/-

Correlation of Rv0476/- with Rv3821/-

Normalized LFCs for Rv0476/-:
(description and provenance of datasets)

	Rv0476/-	Rv3821/-
Fe_supp_jason_reseq	-0.401	0.204
low_pH_jason_reseq	-0.773	0.361
NO_jason_reseq	0.092	1.334
B6_jason_reseq	-1.211	-1.143
MHCII_jason_reseq	0.065	-0.348
Isoniazid02	0.955	0.016
Rifampicin4	0.736	0.563
Ethambutol3	1.192	-0.344
Meropenem3	1.353	1.73
Vancomycin16	0.722	0.653
Rv2680_day32	1.297	3.832
H37Rv_KO_MarP	-1.099	-0.571
hypoxia_3wks	1.105	-0.514
hypoxia_6wks	1.117	0.908
glycerol	-2.055	-0.23
cholesterol	-1.374	0.042
AJ	-0.376	-0.447
Bibs02	-0.411	0.514
Bibs02c	-1.184	1.05
BL6	-0.434	2.286
BL6a	-0.535	2.042
BXD01	0.481	2.706
BXD010	0.742	2.187
BXD011	0.567	2.819
BXD03	0.28	1.409
BXD04	0.913	1.611
BXD05	0.417	2.385
BXD06	0.391	2.108
BXD07	0.877	2.655
BXD08	0.675	1.878
BXD09	0.248	3.365
CAST	-1.175	-1.88
CCcont	0.057	1.367
DS01	0.05	1.008
DS02	-0.213	0.871
DS04	0.624	0.573
DS0c	-0.561	1.116
GP01	0.17	0.892
GP02	0.266	0.016
GP0c	0.633	1.028
NOD	0.392	-0.067
NZO	0.5	0.256
PWK	-0.036	-0.622
H37Rv_KO_CtpC	-0.065	0.766
H37Rv_KO_CtpD	0.833	1.965
H37Rv_KO_Rv1272	0.087	2.215
H37Rv_KO_SugABC	0.658	1.93
H37Rv_KO_MbtN	1.183	2.409
Trans05	0.228	2.097
macrophage_unactivated	0.312	-0.925
IL1	-0.967	-2.684
Rapamycin	-0.184	-1.264
Tcell	-0.244	-2.434
GMCSF	0.211	-1.434
IFNab	0.84	0.958
IFNg	0.708	-1.922
IFNg_GMCSF1	0.06	-1.596
Rv1432_day32	1.622	6.0
Rv1565c_day32	-0.295	-1.827
secA2_input	-1.035	-0.864
delta_Rv3594	-0.318	0.739
delta_Rv3717	0.38	2.095
delta_Rv3811	0.489	1.447
delta_Rv0954	-0.881	0.062
PonA1	-0.275	-0.208
EccD1_KO	-1.496	-0.816
EspI_KO	-0.299	-0.374
PE35_KO	-1.423	-0.799
PPE68_KO	-0.995	-0.761
glycerol2	2.023	2.208
lignocerate	0.267	0.826
oleate	2.439	2.711
phosphatidylcholine	0.097	0.458
acetate	-0.04	0.168
glucAc	-0.154	0.249
Rv0950ko	-0.413	0.467
Rv1096ko	-0.929	0.404
Rv3684ko	-0.38	2.826
delta_otsA_trehalose	-0.738	-0.335