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 Rv2305/-:

update plot	correlation	link to info on gene
Rv2083/-	(cc=0.5505)	info on Rv2083/-
Rv1482c/-	(cc=0.5035)	info on Rv1482c/-
Rv3584/lpqE	(cc=0.4524)	info on Rv3584/lpqE
Rv2180c/-	(cc=0.4511)	info on Rv2180c/-
Rv1486c/-	(cc=0.4475)	info on Rv1486c/-
Rv1729c/-	(cc=0.4376)	info on Rv1729c/-
Rv1279/-	(cc=0.4373)	info on Rv1279/-
Rv2389c/rpfD	(cc=0.4325)	info on Rv2389c/rpfD
Rv2570/-	(cc=0.428)	info on Rv2570/-
Rv0149/-	(cc=0.4263)	info on Rv0149/-

Correlation of Rv2305/- with Rv2083/-

Normalized LFCs for Rv2305/-:
(description and provenance of datasets)

	Rv2305/-	Rv2083/-
Fe_supp_jason_reseq	0.379	0.221
low_pH_jason_reseq	-0.346	0.843
NO_jason_reseq	-1.021	-0.782
B6_jason_reseq	0.074	-0.223
MHCII_jason_reseq	0.138	0.977
Isoniazid02	0.495	0.64
Rifampicin4	1.21	1.324
Ethambutol3	3.078	2.234
Meropenem3	1.479	0.758
Vancomycin16	0.623	0.499
Rv2680_day32	0.324	0.184
H37Rv_KO_MarP	0.03	-0.217
hypoxia_3wks	0.439	0.53
hypoxia_6wks	-0.284	-0.215
glycerol	-0.238	0.613
cholesterol	0.04	0.119
AJ	1.012	0.829
Bibs02	-0.926	0.27
Bibs02c	-0.079	1.643
BL6	0.122	-0.434
BL6a	0.673	1.247
BXD01	0.829	-0.269
BXD010	0.928	0.488
BXD011	0.594	-0.09
BXD03	0.606	0.594
BXD04	0.152	0.294
BXD05	0.83	0.045
BXD06	0.523	-0.221
BXD07	0.896	-0.458
BXD08	0.547	0.116
BXD09	0.737	0.365
CAST	0.395	0.527
CCcont	0.268	-0.817
DS01	0.108	1.304
DS02	0.618	0.632
DS04	-0.734	0.371
DS0c	-0.625	-0.127
GP01	-0.127	0.039
GP02	1.366	1.442
GP0c	0.591	0.378
NOD	-0.063	0.574
NZO	0.038	0.688
PWK	0.209	0.709
H37Rv_KO_CtpC	0.824	1.012
H37Rv_KO_CtpD	-1.397	0.686
H37Rv_KO_Rv1272	-0.182	1.624
H37Rv_KO_SugABC	0.413	0.703
H37Rv_KO_MbtN	-0.144	-0.832
Trans05	2.35	0.935
macrophage_unactivated	0.874	0.83
IL1	1.258	0.952
Rapamycin	0.706	0.147
Tcell	-0.427	0.137
GMCSF	1.119	0.473
IFNab	1.249	1.052
IFNg	1.411	1.229
IFNg_GMCSF1	0.377	0.581
Rv1432_day32	0.656	0.777
Rv1565c_day32	1.096	0.584
secA2_input	0.9	0.205
delta_Rv3594	0.688	0.662
delta_Rv3717	0.011	0.94
delta_Rv3811	-0.013	0.956
delta_Rv0954	-0.727	0.804
PonA1	-0.931	-0.882
EccD1_KO	0.595	1.184
EspI_KO	0.876	1.363
PE35_KO	1.461	0.974
PPE68_KO	1.037	0.336
glycerol2	-0.572	-0.921
lignocerate	-0.876	-1.23
oleate	0.013	-0.037
phosphatidylcholine	-0.41	-0.534
acetate	-0.748	-1.769
glucAc	-1.269	-2.327
Rv0950ko	0.0	-0.748
Rv1096ko	0.139	-0.679
Rv3684ko	0.121	-1.461
delta_otsA_trehalose	0.863	1.124