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 Rv2689c/-

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

	Rv1537/dinX	Rv2689c/-
Fe_supp_jason_reseq	0.028	-1.129
low_pH_jason_reseq	-1.365	-1.012
NO_jason_reseq	0.27	0.559
B6_jason_reseq	0.02	-0.512
MHCII_jason_reseq	0.432	-1.4
Isoniazid02	0.18	-1.215
Rifampicin4	1.01	0.357
Ethambutol3	0.212	0.664
Meropenem3	0.169	-0.204
Vancomycin16	0.419	0.263
Rv2680_day32	0.42	-0.353
H37Rv_KO_MarP	-0.178	-0.014
hypoxia_3wks	0.052	-0.59
hypoxia_6wks	-0.29	-0.019
glycerol	-0.091	0.69
cholesterol	-0.048	0.132
AJ	-0.077	0.274
Bibs02	-1.044	-0.154
Bibs02c	0.199	-0.811
BL6	-0.257	0.373
BL6a	0.584	-0.151
BXD01	0.649	0.596
BXD010	0.5	0.713
BXD011	-0.369	1.253
BXD03	-0.261	0.133
BXD04	-0.07	-0.028
BXD05	0.044	0.696
BXD06	-0.044	0.54
BXD07	0.442	0.818
BXD08	0.29	0.427
BXD09	-0.513	0.525
CAST	0.287	0.662
CCcont	0.44	0.308
DS01	0.176	-0.335
DS02	-0.537	-0.049
DS04	0.758	0.978
DS0c	0.024	-1.273
GP01	0.415	0.084
GP02	0.196	0.453
GP0c	-0.267	0.366
NOD	-1.002	0.236
NZO	0.249	0.756
PWK	-0.065	1.159
H37Rv_KO_CtpC	0.339	0.856
H37Rv_KO_CtpD	-0.544	-0.387
H37Rv_KO_Rv1272	0.32	0.203
H37Rv_KO_SugABC	-0.685	0.59
H37Rv_KO_MbtN	-0.67	-0.164
Trans05	-0.252	0.084
macrophage_unactivated	1.439	0.104
IL1	-1.124	-0.021
Rapamycin	-0.353	-0.424
Tcell	0.723	0.371
GMCSF	-1.331	-0.726
IFNab	-0.057	-0.245
IFNg	-0.051	-0.735
IFNg_GMCSF1	0.057	-0.669
Rv1432_day32	-0.415	0.188
Rv1565c_day32	-0.415	-0.194
secA2_input	-0.401	0.626
delta_Rv3594	-0.717	-0.171
delta_Rv3717	-0.654	0.518
delta_Rv3811	0.156	0.018
delta_Rv0954	-1.616	-0.229
PonA1	-0.34	-0.774
EccD1_KO	0.526	0.441
EspI_KO	1.269	0.844
PE35_KO	0.545	0.233
PPE68_KO	0.467	0.464
glycerol2	-0.106	0.593
lignocerate	0.067	0.928
oleate	-0.179	0.373
phosphatidylcholine	0.291	0.723
acetate	0.987	1.082
glucAc	1.113	0.601
Rv0950ko	-0.992	-0.16
Rv1096ko	0.772	-0.712
Rv3684ko	0.589	0.783
delta_otsA_trehalose	2.96	2.741