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 Rv0160c/PE4

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

	Rv2679/echA15	Rv0160c/PE4
Fe_supp_jason_reseq	-0.857	0.011
low_pH_jason_reseq	-1.198	-0.07
NO_jason_reseq	1.142	-0.11
B6_jason_reseq	-0.225	0.416
MHCII_jason_reseq	0.652	0.302
Isoniazid02	-2.239	-1.8
Rifampicin4	0.214	0.208
Ethambutol3	-1.268	-0.931
Meropenem3	-1.438	-1.482
Vancomycin16	-0.873	-0.836
Rv2680_day32	0.16	-0.088
H37Rv_KO_MarP	0.085	0.748
hypoxia_3wks	-0.319	-0.191
hypoxia_6wks	-0.66	-0.175
glycerol	0.48	0.471
cholesterol	0.102	0.477
AJ	0.388	0.062
Bibs02	-0.71	0.886
Bibs02c	0.1	0.584
BL6	0.269	0.188
BL6a	-0.696	0.375
BXD01	0.183	-0.029
BXD010	-0.586	-0.023
BXD011	0.013	0.241
BXD03	-0.669	0.15
BXD04	-0.318	0.354
BXD05	-0.124	0.048
BXD06	-0.331	0.316
BXD07	0.032	0.182
BXD08	0.514	0.338
BXD09	-0.61	0.032
CAST	-0.445	0.427
CCcont	0.019	-0.148
DS01	-0.12	0.281
DS02	-0.347	0.584
DS04	0.201	0.126
DS0c	-0.925	-0.141
GP01	0.265	0.358
GP02	1.004	1.382
GP0c	0.0	-0.229
NOD	0.41	0.364
NZO	0.202	0.887
PWK	0.32	0.193
H37Rv_KO_CtpC	0.118	0.447
H37Rv_KO_CtpD	1.037	1.091
H37Rv_KO_Rv1272	-0.179	1.015
H37Rv_KO_SugABC	-0.594	0.612
H37Rv_KO_MbtN	0.237	0.485
Trans05	-0.359	0.807
macrophage_unactivated	-0.994	-0.354
IL1	0.329	0.098
Rapamycin	0.377	0.239
Tcell	-0.267	-0.248
GMCSF	0.692	-0.09
IFNab	0.054	0.039
IFNg	-0.168	0.294
IFNg_GMCSF1	0.258	0.085
Rv1432_day32	0.096	0.339
Rv1565c_day32	-0.321	0.458
secA2_input	0.603	-0.333
delta_Rv3594	-0.387	-0.099
delta_Rv3717	0.248	-0.239
delta_Rv3811	-1.472	-0.223
delta_Rv0954	-0.076	0.358
PonA1	-0.062	0.126
EccD1_KO	-0.454	-0.444
EspI_KO	0.157	0.074
PE35_KO	-0.362	-0.446
PPE68_KO	0.118	-0.221
glycerol2	0.387	0.276
lignocerate	0.716	0.284
oleate	0.795	0.216
phosphatidylcholine	0.794	0.387
acetate	0.073	0.083
glucAc	0.036	0.264
Rv0950ko	0.627	0.479
Rv1096ko	0.609	-0.13
Rv3684ko	0.544	0.134
delta_otsA_trehalose	1.186	0.026