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 Rv3772/hisC2:

update plot	correlation	link to info on gene
Rv3432c/gadB	(cc=0.5061)	info on Rv3432c/gadB
Rv0267/narU	(cc=0.392)	info on Rv0267/narU
Rv3224A/-	(cc=0.3878)	info on Rv3224A/-
Rv2850c/-	(cc=0.3777)	info on Rv2850c/-
Rv3740c/-	(cc=0.3754)	info on Rv3740c/-
Rv3133c/devR	(cc=0.3753)	info on Rv3133c/devR
Rv1425/-	(cc=0.3703)	info on Rv1425/-
Rv1888c/-	(cc=0.3695)	info on Rv1888c/-
Rv2521/bcp	(cc=0.3541)	info on Rv2521/bcp
Rv2693c/-	(cc=0.3426)	info on Rv2693c/-

Correlation of Rv3772/hisC2 with Rv3432c/gadB

Normalized LFCs for Rv3772/hisC2:
(description and provenance of datasets)

	Rv3772/hisC2	Rv3432c/gadB
Fe_supp_jason_reseq	0.81	0.26
low_pH_jason_reseq	0.467	0.156
NO_jason_reseq	-0.672	-0.541
B6_jason_reseq	0.276	-0.496
MHCII_jason_reseq	-0.236	0.08
Isoniazid02	-0.258	-0.102
Rifampicin4	-0.479	-0.068
Ethambutol3	0.054	0.793
Meropenem3	-0.013	0.553
Vancomycin16	0.573	-0.05
Rv2680_day32	0.427	0.454
H37Rv_KO_MarP	0.037	0.243
hypoxia_3wks	-1.14	-0.171
hypoxia_6wks	-1.906	-0.169
glycerol	-0.6	0.275
cholesterol	0.244	-0.12
AJ	-0.592	-0.234
Bibs02	-0.321	0.229
Bibs02c	-0.341	0.39
BL6	0.741	0.42
BL6a	-0.505	0.342
BXD01	0.45	-0.21
BXD010	0.328	0.278
BXD011	0.118	0.229
BXD03	-0.074	-0.093
BXD04	-0.125	-0.042
BXD05	0.19	0.754
BXD06	0.028	0.272
BXD07	0.155	0.169
BXD08	0.028	-0.171
BXD09	0.0	0.134
CAST	0.532	0.018
CCcont	1.0	0.125
DS01	0.149	0.198
DS02	-0.381	0.165
DS04	-0.391	0.285
DS0c	-0.523	-0.393
GP01	-0.077	-0.465
GP02	1.556	0.996
GP0c	0.195	0.563
NOD	-0.176	-0.43
NZO	0.735	0.152
PWK	-1.4	-0.05
H37Rv_KO_CtpC	-0.265	-0.186
H37Rv_KO_CtpD	0.727	0.672
H37Rv_KO_Rv1272	-0.708	-0.222
H37Rv_KO_SugABC	-0.514	0.39
H37Rv_KO_MbtN	-1.129	0.148
Trans05	0.491	0.284
macrophage_unactivated	0.407	-0.246
IL1	-0.985	0.19
Rapamycin	-0.301	0.227
Tcell	-1.026	-0.443
GMCSF	-0.375	-0.222
IFNab	0.121	0.239
IFNg	-0.037	0.267
IFNg_GMCSF1	-0.588	-0.119
Rv1432_day32	0.224	0.46
Rv1565c_day32	1.199	0.201
secA2_input	0.758	0.894
delta_Rv3594	0.262	-0.153
delta_Rv3717	-0.982	-0.062
delta_Rv3811	-0.152	-0.062
delta_Rv0954	1.092	0.31
PonA1	0.401	1.094
EccD1_KO	-0.197	0.168
EspI_KO	-0.876	0.066
PE35_KO	-0.493	-0.187
PPE68_KO	-0.694	-0.15
glycerol2	1.366	0.171
lignocerate	0.452	0.235
oleate	1.243	0.233
phosphatidylcholine	0.423	0.296
acetate	-0.106	-0.08
glucAc	-0.093	-0.239
Rv0950ko	0.163	0.871
Rv1096ko	1.167	0.944
Rv3684ko	1.091	0.531
delta_otsA_trehalose	-1.383	-0.909