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 Rv1847/-:

update plot	correlation	link to info on gene
Rv0844c/narL	(cc=0.4714)	info on Rv0844c/narL
Rv3840/-	(cc=0.4701)	info on Rv3840/-
Rv0072/-	(cc=0.4655)	info on Rv0072/-
Rv0872c/PE_PGRS15	(cc=0.4498)	info on Rv0872c/PE_PGRS15
Rv1892/-	(cc=0.4494)	info on Rv1892/-
Rv1373/-	(cc=0.4476)	info on Rv1373/-
Rv1831/-	(cc=0.4418)	info on Rv1831/-
Rv3487c/lipF	(cc=0.432)	info on Rv3487c/lipF
Rv2579/dhaA	(cc=0.4307)	info on Rv2579/dhaA
Rv1355c/moeY	(cc=0.4214)	info on Rv1355c/moeY

Correlation of Rv1847/- with Rv0872c/PE_PGRS15

Normalized LFCs for Rv1847/-:
(description and provenance of datasets)

	Rv1847/-	Rv0872c/PE_PGRS15
Fe_supp_jason_reseq	0.385	0.14
low_pH_jason_reseq	-0.621	-1.631
NO_jason_reseq	0.575	-0.32
B6_jason_reseq	0.324	0.24
MHCII_jason_reseq	-0.272	0.762
Isoniazid02	-0.575	-0.473
Rifampicin4	-0.038	0.671
Ethambutol3	0.617	-0.406
Meropenem3	-0.918	0.059
Vancomycin16	-0.363	-0.194
Rv2680_day32	0.461	0.061
H37Rv_KO_MarP	0.61	-0.045
hypoxia_3wks	-0.223	-0.175
hypoxia_6wks	0.035	-0.76
glycerol	0.154	0.581
cholesterol	0.578	0.441
AJ	0.499	0.197
Bibs02	-0.495	0.228
Bibs02c	0.306	0.782
BL6	-0.095	0.332
BL6a	0.06	0.74
BXD01	0.223	0.276
BXD010	-0.04	-0.058
BXD011	-0.029	-0.107
BXD03	0.513	0.133
BXD04	0.263	-0.047
BXD05	0.184	0.468
BXD06	0.256	-0.06
BXD07	0.628	0.117
BXD08	0.782	0.412
BXD09	0.203	0.148
CAST	0.464	0.637
CCcont	-0.357	0.106
DS01	0.058	-0.161
DS02	-0.589	0.17
DS04	0.538	0.447
DS0c	0.253	-0.218
GP01	0.187	0.25
GP02	1.485	0.146
GP0c	-0.213	-0.039
NOD	-0.376	0.236
NZO	-0.269	-0.201
PWK	0.573	-0.104
H37Rv_KO_CtpC	-0.182	0.265
H37Rv_KO_CtpD	-0.066	0.351
H37Rv_KO_Rv1272	1.354	0.952
H37Rv_KO_SugABC	1.056	0.895
H37Rv_KO_MbtN	1.013	0.369
Trans05	0.859	0.419
macrophage_unactivated	0.275	1.004
IL1	0.258	0.225
Rapamycin	0.242	0.847
Tcell	0.502	0.534
GMCSF	0.349	0.069
IFNab	0.704	0.378
IFNg	0.604	0.313
IFNg_GMCSF1	0.474	0.214
Rv1432_day32	0.249	0.272
Rv1565c_day32	0.355	-0.351
secA2_input	-0.199	0.094
delta_Rv3594	-0.229	-0.162
delta_Rv3717	-0.103	-0.646
delta_Rv3811	-0.25	-0.47
delta_Rv0954	-0.353	-0.885
PonA1	-0.63	-0.247
EccD1_KO	-0.253	0.02
EspI_KO	-0.431	-0.128
PE35_KO	0.009	-0.248
PPE68_KO	0.355	-0.294
glycerol2	0.504	1.338
lignocerate	0.785	1.169
oleate	0.649	1.262
phosphatidylcholine	0.651	1.195
acetate	0.037	0.281
glucAc	0.059	0.554
Rv0950ko	0.302	0.208
Rv1096ko	0.808	0.208
Rv3684ko	0.275	0.226
delta_otsA_trehalose	-1.233	-0.152