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 Rv0969/ctpV

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

	Rv1537/dinX	Rv0969/ctpV
Fe_supp_jason_reseq	0.028	-0.535
low_pH_jason_reseq	-1.365	-1.522
NO_jason_reseq	0.27	-0.362
B6_jason_reseq	0.02	-0.715
MHCII_jason_reseq	0.432	-0.391
Isoniazid02	0.18	0.397
Rifampicin4	1.01	-0.233
Ethambutol3	0.212	0.581
Meropenem3	0.169	0.492
Vancomycin16	0.419	-0.324
Rv2680_day32	0.42	-0.154
H37Rv_KO_MarP	-0.178	0.26
hypoxia_3wks	0.052	-0.211
hypoxia_6wks	-0.29	0.127
glycerol	-0.091	0.291
cholesterol	-0.048	0.358
AJ	-0.077	0.44
Bibs02	-1.044	0.648
Bibs02c	0.199	0.576
BL6	-0.257	-0.084
BL6a	0.584	0.264
BXD01	0.649	-0.556
BXD010	0.5	-0.288
BXD011	-0.369	-0.24
BXD03	-0.261	-0.743
BXD04	-0.07	-0.305
BXD05	0.044	0.268
BXD06	-0.044	-0.558
BXD07	0.442	-0.301
BXD08	0.29	-0.299
BXD09	-0.513	-0.216
CAST	0.287	-0.534
CCcont	0.44	-0.391
DS01	0.176	0.303
DS02	-0.537	0.15
DS04	0.758	0.611
DS0c	0.024	-0.039
GP01	0.415	0.358
GP02	0.196	-0.205
GP0c	-0.267	-0.063
NOD	-1.002	-0.109
NZO	0.249	0.046
PWK	-0.065	-0.483
H37Rv_KO_CtpC	0.339	0.139
H37Rv_KO_CtpD	-0.544	-0.802
H37Rv_KO_Rv1272	0.32	0.057
H37Rv_KO_SugABC	-0.685	0.616
H37Rv_KO_MbtN	-0.67	-0.877
Trans05	-0.252	-0.139
macrophage_unactivated	1.439	0.694
IL1	-1.124	-0.11
Rapamycin	-0.353	0.11
Tcell	0.723	0.059
GMCSF	-1.331	-0.148
IFNab	-0.057	0.163
IFNg	-0.051	0.371
IFNg_GMCSF1	0.057	0.616
Rv1432_day32	-0.415	0.322
Rv1565c_day32	-0.415	-0.264
secA2_input	-0.401	0.892
delta_Rv3594	-0.717	-0.32
delta_Rv3717	-0.654	-0.328
delta_Rv3811	0.156	0.318
delta_Rv0954	-1.616	0.143
PonA1	-0.34	0.324
EccD1_KO	0.526	0.382
EspI_KO	1.269	0.24
PE35_KO	0.545	0.292
PPE68_KO	0.467	0.218
glycerol2	-0.106	0.15
lignocerate	0.067	0.144
oleate	-0.179	0.119
phosphatidylcholine	0.291	0.333
acetate	0.987	0.08
glucAc	1.113	0.157
Rv0950ko	-0.992	0.223
Rv1096ko	0.772	1.077
Rv3684ko	0.589	0.609
delta_otsA_trehalose	2.96	2.032