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 Rv1861/-

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

	Rv0476/-	Rv1861/-
Fe_supp_jason_reseq	-0.401	-0.117
low_pH_jason_reseq	-0.773	-1.655
NO_jason_reseq	0.092	0.428
B6_jason_reseq	-1.211	-1.122
MHCII_jason_reseq	0.065	-0.956
Isoniazid02	0.955	-0.723
Rifampicin4	0.736	-0.284
Ethambutol3	1.192	0.428
Meropenem3	1.353	1.029
Vancomycin16	0.722	-0.342
Rv2680_day32	1.297	0.683
H37Rv_KO_MarP	-1.099	-0.428
hypoxia_3wks	1.105	0.63
hypoxia_6wks	1.117	1.165
glycerol	-2.055	-2.422
cholesterol	-1.374	-0.936
AJ	-0.376	0.155
Bibs02	-0.411	0.057
Bibs02c	-1.184	-1.555
BL6	-0.434	-0.072
BL6a	-0.535	-0.35
BXD01	0.481	0.581
BXD010	0.742	0.628
BXD011	0.567	0.659
BXD03	0.28	0.255
BXD04	0.913	0.521
BXD05	0.417	-0.009
BXD06	0.391	0.903
BXD07	0.877	0.9
BXD08	0.675	0.989
BXD09	0.248	0.753
CAST	-1.175	0.31
CCcont	0.057	-0.188
DS01	0.05	0.445
DS02	-0.213	-0.199
DS04	0.624	0.604
DS0c	-0.561	0.696
GP01	0.17	0.859
GP02	0.266	1.048
GP0c	0.633	0.809
NOD	0.392	0.861
NZO	0.5	0.334
PWK	-0.036	0.527
H37Rv_KO_CtpC	-0.065	1.449
H37Rv_KO_CtpD	0.833	1.112
H37Rv_KO_Rv1272	0.087	0.338
H37Rv_KO_SugABC	0.658	1.671
H37Rv_KO_MbtN	1.183	0.74
Trans05	0.228	0.734
macrophage_unactivated	0.312	0.12
IL1	-0.967	-0.617
Rapamycin	-0.184	0.0
Tcell	-0.244	-0.192
GMCSF	0.211	-0.396
IFNab	0.84	-0.453
IFNg	0.708	-0.363
IFNg_GMCSF1	0.06	-0.167
Rv1432_day32	1.622	0.386
Rv1565c_day32	-0.295	0.297
secA2_input	-1.035	-0.194
delta_Rv3594	-0.318	-0.11
delta_Rv3717	0.38	-0.41
delta_Rv3811	0.489	-0.556
delta_Rv0954	-0.881	0.417
PonA1	-0.275	-0.129
EccD1_KO	-1.496	-0.046
EspI_KO	-0.299	0.22
PE35_KO	-1.423	-0.064
PPE68_KO	-0.995	0.352
glycerol2	2.023	-0.149
lignocerate	0.267	-0.505
oleate	2.439	0.411
phosphatidylcholine	0.097	-0.101
acetate	-0.04	-0.427
glucAc	-0.154	-1.002
Rv0950ko	-0.413	1.061
Rv1096ko	-0.929	-0.196
Rv3684ko	-0.38	-1.055
delta_otsA_trehalose	-0.738	0.247