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 Rv3862c/whiB6

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

	Rv2113/-	Rv3862c/whiB6
Fe_supp_jason_reseq	0.922	0.27
low_pH_jason_reseq	-1.379	-0.684
NO_jason_reseq	-0.559	-1.972
B6_jason_reseq	-1.249	-0.517
MHCII_jason_reseq	-0.531	-0.251
Isoniazid02	-1.043	0.413
Rifampicin4	0.406	-0.449
Ethambutol3	0.657	-0.202
Meropenem3	-0.462	-0.734
Vancomycin16	-0.231	0.475
Rv2680_day32	-0.825	1.898
H37Rv_KO_MarP	0.159	0.056
hypoxia_3wks	-0.012	-0.016
hypoxia_6wks	-0.568	0.192
glycerol	0.237	1.258
cholesterol	-0.405	0.721
AJ	0.356	-0.664
Bibs02	-0.372	0.543
Bibs02c	-0.209	0.599
BL6	0.418	0.536
BL6a	0.169	0.479
BXD01	-0.106	0.764
BXD010	-0.113	0.886
BXD011	0.753	0.576
BXD03	0.123	-0.231
BXD04	-0.166	0.935
BXD05	0.301	1.023
BXD06	0.224	0.67
BXD07	0.171	0.533
BXD08	0.265	0.625
BXD09	0.103	0.533
CAST	-0.828	-0.452
CCcont	0.169	0.604
DS01	-0.335	0.814
DS02	0.098	-0.882
DS04	-0.218	0.247
DS0c	0.11	-0.228
GP01	0.072	-0.202
GP02	-0.087	-0.347
GP0c	0.142	0.624
NOD	-0.404	0.384
NZO	-0.604	0.152
PWK	-0.409	-0.176
H37Rv_KO_CtpC	0.148	0.534
H37Rv_KO_CtpD	0.72	1.006
H37Rv_KO_Rv1272	0.551	1.051
H37Rv_KO_SugABC	1.132	0.796
H37Rv_KO_MbtN	0.42	1.909
Trans05	0.939	1.106
macrophage_unactivated	1.143	0.931
IL1	2.886	2.005
Rapamycin	3.167	1.234
Tcell	-6.0	-1.623
GMCSF	2.756	0.837
IFNab	2.663	3.586
IFNg	2.905	2.705
IFNg_GMCSF1	2.963	2.124
Rv1432_day32	0.322	0.257
Rv1565c_day32	1.531	-0.655
secA2_input	0.128	-0.675
delta_Rv3594	-0.337	0.491
delta_Rv3717	-0.154	1.436
delta_Rv3811	-0.312	0.803
delta_Rv0954	0.181	-1.081
PonA1	-0.268	-0.926
EccD1_KO	0.148	-0.391
EspI_KO	0.222	-0.836
PE35_KO	-0.286	-0.753
PPE68_KO	-0.147	-0.611
glycerol2	0.894	0.395
lignocerate	0.616	-0.448
oleate	1.331	0.937
phosphatidylcholine	0.999	0.071
acetate	0.342	-0.941
glucAc	-0.082	-1.946
Rv0950ko	0.25	-1.366
Rv1096ko	-0.13	-0.995
Rv3684ko	-0.233	-0.373
delta_otsA_trehalose	0.537	-1.32