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 Rv1372/-:

update plot	correlation	link to info on gene
Rv2430c/PPE41	(cc=0.5857)	info on Rv2430c/PPE41
Rv1505c/-	(cc=0.5729)	info on Rv1505c/-
Rv1509/-	(cc=0.5593)	info on Rv1509/-
Rv2452c/-	(cc=0.5313)	info on Rv2452c/-
Rv0112/gca	(cc=0.5266)	info on Rv0112/gca
Rv2735c/-	(cc=0.5241)	info on Rv2735c/-
Rv0949/uvrD1	(cc=0.5222)	info on Rv0949/uvrD1
Rv1500/-	(cc=0.5179)	info on Rv1500/-
Rv2777c/-	(cc=0.5151)	info on Rv2777c/-
Rv1059/-	(cc=0.5131)	info on Rv1059/-

Correlation of Rv1372/- with Rv0949/uvrD1

Normalized LFCs for Rv1372/-:
(description and provenance of datasets)

	Rv1372/-	Rv0949/uvrD1
Fe_supp_jason_reseq	0.878	0.974
low_pH_jason_reseq	-0.356	0.303
NO_jason_reseq	-0.076	-0.845
B6_jason_reseq	-0.273	0.0
MHCII_jason_reseq	0.298	0.257
Isoniazid02	-0.038	0.0
Rifampicin4	-0.615	-0.173
Ethambutol3	-0.098	0.786
Meropenem3	-0.425	0.34
Vancomycin16	0.138	-0.939
Rv2680_day32	0.228	0.0
H37Rv_KO_MarP	0.121	-0.586
hypoxia_3wks	-0.227	-0.722
hypoxia_6wks	-1.027	-0.808
glycerol	-0.31	1.121
cholesterol	1.593	0.89
AJ	0.054	0.232
Bibs02	-0.331	0.183
Bibs02c	0.677	0.209
BL6	0.814	0.97
BL6a	1.363	0.696
BXD01	1.566	1.781
BXD010	1.45	1.115
BXD011	1.01	0.782
BXD03	1.073	1.177
BXD04	2.511	2.027
BXD05	1.263	1.231
BXD06	1.226	1.436
BXD07	0.987	1.49
BXD08	1.274	1.381
BXD09	0.841	1.018
CAST	0.939	0.23
CCcont	0.894	1.3
DS01	0.055	0.0
DS02	-0.723	0.0
DS04	0.628	1.077
DS0c	0.379	0.0
GP01	1.245	1.099
GP02	1.917	1.434
GP0c	1.142	2.292
NOD	1.573	0.225
NZO	0.646	0.0
PWK	0.601	0.831
H37Rv_KO_CtpC	0.859	0.309
H37Rv_KO_CtpD	0.67	0.241
H37Rv_KO_Rv1272	1.429	1.517
H37Rv_KO_SugABC	-1.114	0.608
H37Rv_KO_MbtN	-0.609	0.506
Trans05	0.0	0.642
macrophage_unactivated	0.467	0.0
IL1	-0.489	-0.276
Rapamycin	0.117	0.522
Tcell	0.867	0.554
GMCSF	-0.267	0.23
IFNab	-1.539	0.0
IFNg	0.347	0.233
IFNg_GMCSF1	0.786	-0.606
Rv1432_day32	-1.276	-0.632
Rv1565c_day32	0.706	0.0
secA2_input	-1.722	0.302
delta_Rv3594	0.748	1.205
delta_Rv3717	0.0	1.881
delta_Rv3811	-0.407	1.172
delta_Rv0954	-1.088	-1.292
PonA1	0.717	-0.53
EccD1_KO	-0.214	0.526
EspI_KO	-0.123	-0.799
PE35_KO	-0.061	0.467
PPE68_KO	0.198	0.512
glycerol2	-0.357	-1.562
lignocerate	-0.585	-1.358
oleate	-0.035	-0.537
phosphatidylcholine	-0.048	-1.562
acetate	-1.001	0.342
glucAc	-0.975	-0.249
Rv0950ko	-0.398	-1.553
Rv1096ko	-1.252	0.546
Rv3684ko	-0.242	1.477
delta_otsA_trehalose	1.429	-0.199