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 Rv1537/dinX:

update plot	correlation	link to info on gene
Rv1562c/treZ	(cc=0.451)	info on Rv1562c/treZ
Rv1061/-	(cc=0.4363)	info on Rv1061/-
Rv2689c/-	(cc=0.4333)	info on Rv2689c/-
Rv2306B/-	(cc=0.42)	info on Rv2306B/-
Rv0969/ctpV	(cc=0.4147)	info on Rv0969/ctpV
Rv1153c/omt	(cc=0.4081)	info on Rv1153c/omt
Rv1487/-	(cc=0.3945)	info on Rv1487/-
Rv3071/-	(cc=0.3919)	info on Rv3071/-
Rv1690/lprJ	(cc=0.3917)	info on Rv1690/lprJ
Rv3213c/-	(cc=0.3883)	info on Rv3213c/-

Correlation of Rv1537/dinX with Rv1562c/treZ

Normalized LFCs for Rv1537/dinX:
(description and provenance of datasets)

	Rv1537/dinX	Rv1562c/treZ
Fe_supp_jason_reseq	0.028	0.761
low_pH_jason_reseq	-1.365	0.773
NO_jason_reseq	0.27	-0.882
B6_jason_reseq	0.02	-0.093
MHCII_jason_reseq	0.432	0.508
Isoniazid02	0.18	0.937
Rifampicin4	1.01	0.236
Ethambutol3	0.212	0.036
Meropenem3	0.169	0.036
Vancomycin16	0.419	0.791
Rv2680_day32	0.42	0.321
H37Rv_KO_MarP	-0.178	-0.035
hypoxia_3wks	0.052	-0.478
hypoxia_6wks	-0.29	0.288
glycerol	-0.091	-0.771
cholesterol	-0.048	0.281
AJ	-0.077	0.61
Bibs02	-1.044	-0.121
Bibs02c	0.199	0.717
BL6	-0.257	0.865
BL6a	0.584	0.739
BXD01	0.649	-0.382
BXD010	0.5	-0.34
BXD011	-0.369	0.0
BXD03	-0.261	0.421
BXD04	-0.07	0.077
BXD05	0.044	0.599
BXD06	-0.044	0.981
BXD07	0.442	-0.03
BXD08	0.29	0.135
BXD09	-0.513	0.247
CAST	0.287	0.993
CCcont	0.44	1.098
DS01	0.176	0.541
DS02	-0.537	-0.518
DS04	0.758	1.694
DS0c	0.024	0.178
GP01	0.415	0.683
GP02	0.196	0.162
GP0c	-0.267	0.465
NOD	-1.002	0.047
NZO	0.249	-0.475
PWK	-0.065	1.056
H37Rv_KO_CtpC	0.339	0.653
H37Rv_KO_CtpD	-0.544	0.053
H37Rv_KO_Rv1272	0.32	-0.192
H37Rv_KO_SugABC	-0.685	0.663
H37Rv_KO_MbtN	-0.67	0.965
Trans05	-0.252	-0.057
macrophage_unactivated	1.439	-0.076
IL1	-1.124	0.068
Rapamycin	-0.353	-0.457
Tcell	0.723	0.0
GMCSF	-1.331	-0.325
IFNab	-0.057	-0.145
IFNg	-0.051	-0.329
IFNg_GMCSF1	0.057	0.148
Rv1432_day32	-0.415	0.222
Rv1565c_day32	-0.415	0.458
secA2_input	-0.401	-0.153
delta_Rv3594	-0.717	-0.087
delta_Rv3717	-0.654	0.378
delta_Rv3811	0.156	0.08
delta_Rv0954	-1.616	-0.036
PonA1	-0.34	0.876
EccD1_KO	0.526	0.322
EspI_KO	1.269	0.071
PE35_KO	0.545	1.155
PPE68_KO	0.467	0.534
glycerol2	-0.106	0.736
lignocerate	0.067	1.084
oleate	-0.179	-1.012
phosphatidylcholine	0.291	0.556
acetate	0.987	1.416
glucAc	1.113	1.459
Rv0950ko	-0.992	-0.238
Rv1096ko	0.772	-0.829
Rv3684ko	0.589	-0.75
delta_otsA_trehalose	2.96	5.496