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 Rv0501/galE2:

update plot	correlation	link to info on gene
Rv0502/-	(cc=0.7955)	info on Rv0502/-
Rv2004c/-	(cc=0.6697)	info on Rv2004c/-
Rv2185c/TB16.3	(cc=0.6446)	info on Rv2185c/TB16.3
Rv0924c/mntH	(cc=0.6281)	info on Rv0924c/mntH
Rv0642c/mmaA4	(cc=0.6216)	info on Rv0642c/mmaA4
Rv3166c/-	(cc=0.6028)	info on Rv3166c/-
Rv2134c/-	(cc=0.5949)	info on Rv2134c/-
Rv0989c/grcC2	(cc=0.5834)	info on Rv0989c/grcC2
Rv3050c/-	(cc=0.5712)	info on Rv3050c/-
Rv2184c/-	(cc=0.5601)	info on Rv2184c/-

Correlation of Rv0501/galE2 with Rv2184c/-

Normalized LFCs for Rv0501/galE2:
(description and provenance of datasets)

	Rv0501/galE2	Rv2184c/-
Fe_supp_jason_reseq	0.819	0.813
low_pH_jason_reseq	0.398	0.455
NO_jason_reseq	0.9	1.924
B6_jason_reseq	-0.603	0.684
MHCII_jason_reseq	0.81	1.421
Isoniazid02	-0.566	-0.112
Rifampicin4	0.171	0.23
Ethambutol3	-0.632	1.312
Meropenem3	0.232	1.957
Vancomycin16	-1.544	-0.422
Rv2680_day32	0.396	1.52
H37Rv_KO_MarP	0.492	0.872
hypoxia_3wks	0.586	1.691
hypoxia_6wks	0.334	0.459
glycerol	1.084	0.698
cholesterol	0.87	0.653
AJ	0.961	0.751
Bibs02	-0.725	-0.176
Bibs02c	0.706	0.3
BL6	0.671	1.177
BL6a	1.462	0.852
BXD01	1.68	1.731
BXD010	0.367	0.941
BXD011	0.832	1.144
BXD03	0.843	0.671
BXD04	0.896	1.571
BXD05	0.688	0.845
BXD06	1.106	1.268
BXD07	1.499	0.967
BXD08	0.999	1.229
BXD09	1.5	1.457
CAST	-0.609	-1.577
CCcont	1.284	1.248
DS01	0.934	0.968
DS02	0.088	1.328
DS04	0.749	1.889
DS0c	1.384	1.062
GP01	1.371	0.551
GP02	1.485	0.585
GP0c	1.012	0.845
NOD	0.846	-0.216
NZO	-0.231	1.076
PWK	-0.352	-0.422
H37Rv_KO_CtpC	-0.214	-0.713
H37Rv_KO_CtpD	1.254	0.193
H37Rv_KO_Rv1272	1.287	0.925
H37Rv_KO_SugABC	0.579	0.671
H37Rv_KO_MbtN	1.465	1.99
Trans05	1.139	1.151
macrophage_unactivated	1.102	1.079
IL1	-0.896	-0.308
Rapamycin	0.203	0.651
Tcell	0.661	0.316
GMCSF	0.174	0.148
IFNab	0.278	1.167
IFNg	0.107	-0.195
IFNg_GMCSF1	0.248	0.386
Rv1432_day32	0.759	1.119
Rv1565c_day32	-0.618	0.147
secA2_input	-0.391	0.041
delta_Rv3594	-0.349	0.324
delta_Rv3717	0.323	1.25
delta_Rv3811	-0.379	0.799
delta_Rv0954	-1.056	-0.836
PonA1	-1.075	-0.495
EccD1_KO	-0.585	-1.401
EspI_KO	1.001	-0.861
PE35_KO	-0.061	-1.671
PPE68_KO	-0.24	-1.683
glycerol2	0.205	0.573
lignocerate	-0.18	0.222
oleate	-0.398	0.242
phosphatidylcholine	-0.636	-0.105
acetate	0.289	0.539
glucAc	-0.365	0.774
Rv0950ko	-1.004	0.0
Rv1096ko	-1.496	0.296
Rv3684ko	-1.091	0.216
delta_otsA_trehalose	-0.199	-0.554