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 Rv3434c/-:

update plot	correlation	link to info on gene
Rv0356c/-	(cc=0.4637)	info on Rv0356c/-
Rv2092c/helY	(cc=0.4191)	info on Rv2092c/helY
Rv1765c/-	(cc=0.409)	info on Rv1765c/-
Rv1069c/-	(cc=0.3818)	info on Rv1069c/-
Rv3824c/papA1	(cc=0.3777)	info on Rv3824c/papA1
Rv3435c/-	(cc=0.3642)	info on Rv3435c/-
Rv1057/-	(cc=0.3593)	info on Rv1057/-
Rv2136c/-	(cc=0.358)	info on Rv2136c/-
Rv2241/aceE	(cc=0.3524)	info on Rv2241/aceE
Rv0344c/lpqJ	(cc=0.349)	info on Rv0344c/lpqJ

Correlation of Rv3434c/- with Rv0356c/-

Normalized LFCs for Rv3434c/-:
(description and provenance of datasets)

	Rv3434c/-	Rv0356c/-
Fe_supp_jason_reseq	0.968	0.851
low_pH_jason_reseq	-0.125	-0.323
NO_jason_reseq	1.386	0.228
B6_jason_reseq	-0.071	1.276
MHCII_jason_reseq	-0.233	1.932
Isoniazid02	-1.026	-0.992
Rifampicin4	0.249	0.428
Ethambutol3	1.035	2.255
Meropenem3	-1.355	-0.012
Vancomycin16	-0.788	-0.199
Rv2680_day32	-1.43	-1.263
H37Rv_KO_MarP	0.34	1.075
hypoxia_3wks	-2.069	-0.905
hypoxia_6wks	-1.355	-0.812
glycerol	-1.024	1.113
cholesterol	0.018	-0.369
AJ	1.007	0.906
Bibs02	0.033	0.256
Bibs02c	-0.174	-0.133
BL6	-0.868	-0.311
BL6a	-0.375	-0.442
BXD01	-0.858	-0.487
BXD010	-0.196	-0.738
BXD011	-0.168	-0.563
BXD03	-0.742	-1.073
BXD04	0.323	-0.065
BXD05	-0.168	-0.454
BXD06	-0.421	-0.59
BXD07	-0.545	-0.58
BXD08	-0.662	-1.1
BXD09	-0.225	-1.099
CAST	-0.27	0.834
CCcont	0.133	-0.782
DS01	0.115	0.794
DS02	-0.632	0.723
DS04	0.392	0.107
DS0c	-0.526	-0.198
GP01	0.884	0.614
GP02	-0.133	0.153
GP0c	0.521	-0.273
NOD	-0.545	0.805
NZO	0.199	0.475
PWK	0.632	0.368
H37Rv_KO_CtpC	0.311	-0.892
H37Rv_KO_CtpD	0.294	0.296
H37Rv_KO_Rv1272	0.248	-0.436
H37Rv_KO_SugABC	-0.652	-0.692
H37Rv_KO_MbtN	-0.026	-0.731
Trans05	-0.209	-0.351
macrophage_unactivated	-0.997	-1.203
IL1	0.139	-0.97
Rapamycin	-0.838	-1.608
Tcell	-0.89	-1.284
GMCSF	0.47	-0.026
IFNab	-0.372	-1.318
IFNg	-0.16	-0.874
IFNg_GMCSF1	-0.594	-0.905
Rv1432_day32	-0.601	-0.172
Rv1565c_day32	-0.055	-1.369
secA2_input	-0.659	-0.988
delta_Rv3594	-0.04	0.021
delta_Rv3717	-0.54	0.034
delta_Rv3811	0.146	0.232
delta_Rv0954	0.722	0.137
PonA1	0.404	1.064
EccD1_KO	-0.895	0.881
EspI_KO	0.816	-0.248
PE35_KO	0.09	0.298
PPE68_KO	0.307	0.717
glycerol2	0.091	-0.024
lignocerate	-0.963	-0.153
oleate	-0.461	-0.448
phosphatidylcholine	0.055	-0.228
acetate	0.309	0.231
glucAc	-0.221	-0.168
Rv0950ko	0.015	-0.148
Rv1096ko	-0.591	-0.76
Rv3684ko	-0.124	-1.464
delta_otsA_trehalose	0.849	1.351