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 Rv2113/-:

update plot	correlation	link to info on gene
Rv0159c/PE3	(cc=0.856)	info on Rv0159c/PE3
Rv1817/-	(cc=0.8479)	info on Rv1817/-
Rv3815c/-	(cc=0.7418)	info on Rv3815c/-
Rv0453/PPE11	(cc=0.7248)	info on Rv0453/PPE11
Rv2848c/cobB	(cc=0.7197)	info on Rv2848c/cobB
Rv2822c/-	(cc=0.6508)	info on Rv2822c/-
Rv3685c/cyp137	(cc=0.5386)	info on Rv3685c/cyp137
Rv3862c/whiB6	(cc=0.5193)	info on Rv3862c/whiB6
Rv1021/-	(cc=0.4871)	info on Rv1021/-
Rv2339/mmpL9	(cc=0.4851)	info on Rv2339/mmpL9

Correlation of Rv2113/- with Rv1021/-

Normalized LFCs for Rv2113/-:
(description and provenance of datasets)

	Rv2113/-	Rv1021/-
Fe_supp_jason_reseq	0.922	1.656
low_pH_jason_reseq	-1.379	-0.816
NO_jason_reseq	-0.559	-0.116
B6_jason_reseq	-1.249	0.047
MHCII_jason_reseq	-0.531	-0.194
Isoniazid02	-1.043	-0.105
Rifampicin4	0.406	-0.726
Ethambutol3	0.657	-0.929
Meropenem3	-0.462	-0.086
Vancomycin16	-0.231	0.573
Rv2680_day32	-0.825	0.139
H37Rv_KO_MarP	0.159	-0.43
hypoxia_3wks	-0.012	0.71
hypoxia_6wks	-0.568	1.054
glycerol	0.237	-0.462
cholesterol	-0.405	-0.427
AJ	0.356	-0.847
Bibs02	-0.372	0.518
Bibs02c	-0.209	0.205
BL6	0.418	2.07
BL6a	0.169	1.583
BXD01	-0.106	1.689
BXD010	-0.113	1.961
BXD011	0.753	1.547
BXD03	0.123	2.232
BXD04	-0.166	1.528
BXD05	0.301	1.842
BXD06	0.224	1.796
BXD07	0.171	1.958
BXD08	0.265	1.375
BXD09	0.103	1.653
CAST	-0.828	0.592
CCcont	0.169	1.9
DS01	-0.335	0.34
DS02	0.098	-0.452
DS04	-0.218	2.042
DS0c	0.11	1.188
GP01	0.072	1.3
GP02	-0.087	1.146
GP0c	0.142	0.482
NOD	-0.404	-0.662
NZO	-0.604	0.165
PWK	-0.409	0.223
H37Rv_KO_CtpC	0.148	0.954
H37Rv_KO_CtpD	0.72	1.002
H37Rv_KO_Rv1272	0.551	1.674
H37Rv_KO_SugABC	1.132	0.896
H37Rv_KO_MbtN	0.42	0.382
Trans05	0.939	1.876
macrophage_unactivated	1.143	0.562
IL1	2.886	2.37
Rapamycin	3.167	2.391
Tcell	-6.0	-1.434
GMCSF	2.756	1.917
IFNab	2.663	1.527
IFNg	2.905	1.523
IFNg_GMCSF1	2.963	1.986
Rv1432_day32	0.322	-1.639
Rv1565c_day32	1.531	1.663
secA2_input	0.128	-0.534
delta_Rv3594	-0.337	-0.601
delta_Rv3717	-0.154	-0.927
delta_Rv3811	-0.312	-0.5
delta_Rv0954	0.181	-1.35
PonA1	-0.268	0.249
EccD1_KO	0.148	-0.789
EspI_KO	0.222	-0.128
PE35_KO	-0.286	0.446
PPE68_KO	-0.147	-0.144
glycerol2	0.894	0.209
lignocerate	0.616	0.689
oleate	1.331	0.388
phosphatidylcholine	0.999	0.448
acetate	0.342	0.745
glucAc	-0.082	0.358
Rv0950ko	0.25	0.938
Rv1096ko	-0.13	0.398
Rv3684ko	-0.233	0.134
delta_otsA_trehalose	0.537	-1.021