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 Rv3331/sugI:

update plot	correlation	link to info on gene
Rv0336/-	(cc=0.5126)	info on Rv0336/-
Rv0515/-	(cc=0.4943)	info on Rv0515/-
Rv2867c/-	(cc=0.4643)	info on Rv2867c/-
Rv2880c/-	(cc=0.4566)	info on Rv2880c/-
Rv3697c/vapC48	(cc=0.4562)	info on Rv3697c/vapC48
Rv1439c/-	(cc=0.451)	info on Rv1439c/-
Rv2665/-	(cc=0.4362)	info on Rv2665/-
Rv2118c/-	(cc=0.425)	info on Rv2118c/-
Rv3474/-	(cc=0.4241)	info on Rv3474/-
Rv0775/-	(cc=0.4231)	info on Rv0775/-

Correlation of Rv3331/sugI with Rv0336/-

Normalized LFCs for Rv3331/sugI:
(description and provenance of datasets)

	Rv3331/sugI	Rv0336/-
Fe_supp_jason_reseq	-1.05	0.0
low_pH_jason_reseq	-0.345	-1.445
NO_jason_reseq	3.048	0.221
B6_jason_reseq	0.027	-0.394
MHCII_jason_reseq	-0.221	0.203
Isoniazid02	0.455	0.074
Rifampicin4	1.79	0.685
Ethambutol3	1.144	0.111
Meropenem3	0.305	0.601
Vancomycin16	1.979	0.207
Rv2680_day32	-0.497	-0.097
H37Rv_KO_MarP	0.262	-0.025
hypoxia_3wks	-0.116	0.267
hypoxia_6wks	-0.885	-0.361
glycerol	0.424	-0.079
cholesterol	0.389	0.043
AJ	0.654	0.553
Bibs02	-0.499	0.562
Bibs02c	0.781	0.934
BL6	0.896	-0.042
BL6a	0.204	0.4
BXD01	0.795	0.064
BXD010	0.645	0.131
BXD011	-0.065	-0.161
BXD03	0.356	0.355
BXD04	0.994	0.501
BXD05	0.388	0.286
BXD06	0.166	-0.07
BXD07	0.483	0.103
BXD08	0.635	0.146
BXD09	0.729	0.008
CAST	1.542	0.532
CCcont	0.209	-0.184
DS01	1.189	0.662
DS02	2.748	0.233
DS04	1.211	0.49
DS0c	1.136	0.149
GP01	0.327	0.475
GP02	-0.536	0.591
GP0c	-0.369	0.068
NOD	0.914	0.472
NZO	1.394	0.485
PWK	1.037	0.821
H37Rv_KO_CtpC	0.851	0.905
H37Rv_KO_CtpD	1.383	0.604
H37Rv_KO_Rv1272	-0.147	0.296
H37Rv_KO_SugABC	0.524	0.205
H37Rv_KO_MbtN	-0.799	0.534
Trans05	0.134	0.455
macrophage_unactivated	-0.669	-0.603
IL1	-0.24	-0.581
Rapamycin	-0.792	-0.503
Tcell	-1.212	-1.098
GMCSF	0.169	-0.164
IFNab	-0.46	-1.037
IFNg	-0.216	-0.246
IFNg_GMCSF1	0.041	-0.242
Rv1432_day32	0.331	0.269
Rv1565c_day32	0.605	0.028
secA2_input	-0.657	-0.034
delta_Rv3594	-0.522	-0.785
delta_Rv3717	-0.75	-0.686
delta_Rv3811	-1.603	-0.781
delta_Rv0954	-0.255	-0.853
PonA1	0.286	-0.488
EccD1_KO	-0.97	-0.181
EspI_KO	-0.593	0.06
PE35_KO	0.373	0.093
PPE68_KO	-0.534	-0.022
glycerol2	-0.503	0.0
lignocerate	0.094	0.116
oleate	0.452	-0.136
phosphatidylcholine	1.693	0.014
acetate	0.652	-0.043
glucAc	0.156	0.308
Rv0950ko	1.263	0.398
Rv1096ko	0.802	0.012
Rv3684ko	-0.052	0.354
delta_otsA_trehalose	-0.122	0.144