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 Rv2044c/-:

update plot	correlation	link to info on gene
Rv1522c/mmpL12	(cc=0.5196)	info on Rv1522c/mmpL12
Rv1990A/-	(cc=0.4923)	info on Rv1990A/-
Rv0028/-	(cc=0.4763)	info on Rv0028/-
Rv1928c/-	(cc=0.4641)	info on Rv1928c/-
Rv1875/-	(cc=0.4638)	info on Rv1875/-
Rv0939/-	(cc=0.4583)	info on Rv0939/-
Rv0476/-	(cc=0.4479)	info on Rv0476/-
Rv0973c/accA2	(cc=0.447)	info on Rv0973c/accA2
Rv0916c/PE7	(cc=0.442)	info on Rv0916c/PE7
Rv1130/prpD	(cc=0.4411)	info on Rv1130/prpD

Correlation of Rv2044c/- with Rv1522c/mmpL12

Normalized LFCs for Rv2044c/-:
(description and provenance of datasets)

	Rv2044c/-	Rv1522c/mmpL12
Fe_supp_jason_reseq	-0.147	0.155
low_pH_jason_reseq	-0.069	-0.094
NO_jason_reseq	0.129	0.142
B6_jason_reseq	-1.201	-0.722
MHCII_jason_reseq	-0.938	-0.391
Isoniazid02	-0.017	-0.998
Rifampicin4	0.477	-0.617
Ethambutol3	-0.261	-0.761
Meropenem3	0.559	-0.375
Vancomycin16	0.414	-0.621
Rv2680_day32	0.368	0.562
H37Rv_KO_MarP	0.507	0.102
hypoxia_3wks	0.805	0.112
hypoxia_6wks	0.507	0.115
glycerol	-1.391	-0.527
cholesterol	-1.771	-0.503
AJ	-1.025	-0.245
Bibs02	-2.035	0.152
Bibs02c	-0.812	0.045
BL6	0.394	0.062
BL6a	0.11	0.402
BXD01	0.561	0.241
BXD010	1.129	0.157
BXD011	0.631	0.139
BXD03	0.448	0.029
BXD04	0.018	0.103
BXD05	0.805	0.409
BXD06	0.569	0.434
BXD07	0.932	0.495
BXD08	0.44	0.137
BXD09	0.734	0.078
CAST	0.48	0.0
CCcont	0.6	0.221
DS01	0.051	0.051
DS02	-1.188	-0.08
DS04	-1.448	0.162
DS0c	0.251	-0.162
GP01	-0.551	0.594
GP02	0.431	0.705
GP0c	-0.17	-0.138
NOD	2.28	0.648
NZO	-0.029	-0.133
PWK	-0.911	-0.178
H37Rv_KO_CtpC	1.245	0.405
H37Rv_KO_CtpD	1.427	0.945
H37Rv_KO_Rv1272	0.208	1.056
H37Rv_KO_SugABC	0.547	0.413
H37Rv_KO_MbtN	0.52	0.515
Trans05	0.168	0.717
macrophage_unactivated	0.688	0.051
IL1	-0.172	-0.098
Rapamycin	0.531	0.049
Tcell	0.124	-0.218
GMCSF	0.589	0.209
IFNab	0.641	-0.305
IFNg	0.553	-0.021
IFNg_GMCSF1	-0.141	-0.182
Rv1432_day32	3.684	3.323
Rv1565c_day32	0.25	0.439
secA2_input	-1.127	0.204
delta_Rv3594	0.881	0.171
delta_Rv3717	0.253	-0.024
delta_Rv3811	0.62	0.406
delta_Rv0954	0.895	-0.116
PonA1	-0.33	-0.128
EccD1_KO	-0.789	0.589
EspI_KO	-0.177	-0.165
PE35_KO	0.158	0.4
PPE68_KO	0.438	0.438
glycerol2	0.513	-0.13
lignocerate	0.256	0.054
oleate	0.586	-0.286
phosphatidylcholine	0.382	0.049
acetate	-0.407	-0.123
glucAc	0.217	0.232
Rv0950ko	0.531	0.0
Rv1096ko	0.739	-0.893
Rv3684ko	-0.121	-0.54
delta_otsA_trehalose	0.901	-0.397