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 Rv1875/-

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

	Rv2044c/-	Rv1875/-
Fe_supp_jason_reseq	-0.147	-0.006
low_pH_jason_reseq	-0.069	-0.614
NO_jason_reseq	0.129	0.16
B6_jason_reseq	-1.201	-0.889
MHCII_jason_reseq	-0.938	-1.373
Isoniazid02	-0.017	0.224
Rifampicin4	0.477	0.417
Ethambutol3	-0.261	0.254
Meropenem3	0.559	0.406
Vancomycin16	0.414	0.409
Rv2680_day32	0.368	0.684
H37Rv_KO_MarP	0.507	0.065
hypoxia_3wks	0.805	0.534
hypoxia_6wks	0.507	0.39
glycerol	-1.391	-0.707
cholesterol	-1.771	-0.78
AJ	-1.025	0.069
Bibs02	-2.035	-0.309
Bibs02c	-0.812	-0.376
BL6	0.394	-0.464
BL6a	0.11	0.34
BXD01	0.561	-0.197
BXD010	1.129	-0.199
BXD011	0.631	0.448
BXD03	0.448	-0.05
BXD04	0.018	-0.703
BXD05	0.805	0.416
BXD06	0.569	0.299
BXD07	0.932	-0.187
BXD08	0.44	-0.312
BXD09	0.734	0.375
CAST	0.48	-0.647
CCcont	0.6	-0.56
DS01	0.051	-0.635
DS02	-1.188	-0.219
DS04	-1.448	0.267
DS0c	0.251	0.033
GP01	-0.551	-0.492
GP02	0.431	0.079
GP0c	-0.17	0.278
NOD	2.28	0.827
NZO	-0.029	-0.446
PWK	-0.911	-0.475
H37Rv_KO_CtpC	1.245	0.347
H37Rv_KO_CtpD	1.427	1.38
H37Rv_KO_Rv1272	0.208	0.388
H37Rv_KO_SugABC	0.547	2.107
H37Rv_KO_MbtN	0.52	-0.765
Trans05	0.168	1.299
macrophage_unactivated	0.688	0.698
IL1	-0.172	1.026
Rapamycin	0.531	0.54
Tcell	0.124	0.29
GMCSF	0.589	1.291
IFNab	0.641	0.91
IFNg	0.553	0.556
IFNg_GMCSF1	-0.141	-0.588
Rv1432_day32	3.684	1.093
Rv1565c_day32	0.25	-0.651
secA2_input	-1.127	-0.495
delta_Rv3594	0.881	0.774
delta_Rv3717	0.253	0.157
delta_Rv3811	0.62	0.776
delta_Rv0954	0.895	0.138
PonA1	-0.33	0.324
EccD1_KO	-0.789	0.954
EspI_KO	-0.177	0.676
PE35_KO	0.158	0.312
PPE68_KO	0.438	0.79
glycerol2	0.513	0.167
lignocerate	0.256	-0.546
oleate	0.586	0.108
phosphatidylcholine	0.382	0.073
acetate	-0.407	-0.698
glucAc	0.217	-0.962
Rv0950ko	0.531	1.095
Rv1096ko	0.739	0.428
Rv3684ko	-0.121	-0.622
delta_otsA_trehalose	0.901	0.153