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 Rv2679/echA15:

update plot	correlation	link to info on gene
Rv0342/iniA	(cc=0.6294)	info on Rv0342/iniA
Rv3406/-	(cc=0.5782)	info on Rv3406/-
Rv2577/-	(cc=0.5777)	info on Rv2577/-
Rv3077/-	(cc=0.559)	info on Rv3077/-
Rv0968/-	(cc=0.5541)	info on Rv0968/-
Rv3323c/moaX	(cc=0.5225)	info on Rv3323c/moaX
Rv1726/-	(cc=0.5212)	info on Rv1726/-
Rv3329/-	(cc=0.5175)	info on Rv3329/-
Rv0160c/PE4	(cc=0.5145)	info on Rv0160c/PE4
Rv3435c/-	(cc=0.5112)	info on Rv3435c/-

Correlation of Rv2679/echA15 with Rv2577/-

Normalized LFCs for Rv2679/echA15:
(description and provenance of datasets)

	Rv2679/echA15	Rv2577/-
Fe_supp_jason_reseq	-0.857	0.354
low_pH_jason_reseq	-1.198	-0.816
NO_jason_reseq	1.142	0.218
B6_jason_reseq	-0.225	0.078
MHCII_jason_reseq	0.652	0.366
Isoniazid02	-2.239	-1.035
Rifampicin4	0.214	0.439
Ethambutol3	-1.268	-0.212
Meropenem3	-1.438	-1.344
Vancomycin16	-0.873	-0.393
Rv2680_day32	0.16	0.214
H37Rv_KO_MarP	0.085	0.459
hypoxia_3wks	-0.319	0.056
hypoxia_6wks	-0.66	-0.182
glycerol	0.48	-0.467
cholesterol	0.102	0.31
AJ	0.388	0.439
Bibs02	-0.71	0.229
Bibs02c	0.1	0.409
BL6	0.269	-0.047
BL6a	-0.696	-0.014
BXD01	0.183	-0.468
BXD010	-0.586	-0.13
BXD011	0.013	0.0
BXD03	-0.669	-0.072
BXD04	-0.318	-0.717
BXD05	-0.124	-0.204
BXD06	-0.331	-0.372
BXD07	0.032	-0.542
BXD08	0.514	-0.594
BXD09	-0.61	-0.364
CAST	-0.445	-0.234
CCcont	0.019	-0.239
DS01	-0.12	0.137
DS02	-0.347	-0.523
DS04	0.201	-0.103
DS0c	-0.925	-0.099
GP01	0.265	-0.418
GP02	1.004	0.896
GP0c	0.0	0.214
NOD	0.41	-0.519
NZO	0.202	0.198
PWK	0.32	0.431
H37Rv_KO_CtpC	0.118	-0.332
H37Rv_KO_CtpD	1.037	0.216
H37Rv_KO_Rv1272	-0.179	-0.275
H37Rv_KO_SugABC	-0.594	-0.71
H37Rv_KO_MbtN	0.237	-0.105
Trans05	-0.359	-0.278
macrophage_unactivated	-0.994	-0.234
IL1	0.329	0.036
Rapamycin	0.377	0.11
Tcell	-0.267	-0.495
GMCSF	0.692	0.124
IFNab	0.054	-0.184
IFNg	-0.168	-0.163
IFNg_GMCSF1	0.258	-0.478
Rv1432_day32	0.096	0.933
Rv1565c_day32	-0.321	-0.182
secA2_input	0.603	0.064
delta_Rv3594	-0.387	0.125
delta_Rv3717	0.248	-0.248
delta_Rv3811	-1.472	-0.66
delta_Rv0954	-0.076	-0.056
PonA1	-0.062	-0.384
EccD1_KO	-0.454	0.158
EspI_KO	0.157	0.314
PE35_KO	-0.362	0.368
PPE68_KO	0.118	0.205
glycerol2	0.387	0.745
lignocerate	0.716	1.157
oleate	0.795	0.133
phosphatidylcholine	0.794	0.926
acetate	0.073	0.84
glucAc	0.036	0.863
Rv0950ko	0.627	0.739
Rv1096ko	0.609	0.739
Rv3684ko	0.544	0.393
delta_otsA_trehalose	1.186	0.753