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 Rv3321c/vapB44:

update plot	correlation	link to info on gene
Rv0268c/-	(cc=0.4792)	info on Rv0268c/-
Rv2351c/plcA	(cc=0.4533)	info on Rv2351c/plcA
Rv3064c/-	(cc=0.4512)	info on Rv3064c/-
Rv3420c/rimI	(cc=0.4423)	info on Rv3420c/rimI
Rv0507/mmpL2	(cc=0.4379)	info on Rv0507/mmpL2
Rv0387c/-	(cc=0.4251)	info on Rv0387c/-
Rv1863c/-	(cc=0.4237)	info on Rv1863c/-
Rv2641/cadI	(cc=0.4145)	info on Rv2641/cadI
Rv2771c/-	(cc=0.4103)	info on Rv2771c/-
Rv3763/lpqH	(cc=0.4096)	info on Rv3763/lpqH

Correlation of Rv3321c/vapB44 with Rv0507/mmpL2

Normalized LFCs for Rv3321c/vapB44:
(description and provenance of datasets)

	Rv3321c/vapB44	Rv0507/mmpL2
Fe_supp_jason_reseq	1.88	0.731
low_pH_jason_reseq	-0.82	-0.463
NO_jason_reseq	0.097	-0.347
B6_jason_reseq	0.505	0.217
MHCII_jason_reseq	1.109	0.273
Isoniazid02	0.329	-0.223
Rifampicin4	0.81	0.192
Ethambutol3	2.563	1.468
Meropenem3	0.532	0.379
Vancomycin16	0.395	0.027
Rv2680_day32	0.2	0.33
H37Rv_KO_MarP	0.471	0.178
hypoxia_3wks	0.072	0.662
hypoxia_6wks	-0.737	0.474
glycerol	-1.182	-0.437
cholesterol	0.486	0.779
AJ	-1.294	0.045
Bibs02	0.567	0.343
Bibs02c	0.391	0.1
BL6	-0.197	0.415
BL6a	0.709	0.354
BXD01	-0.154	0.685
BXD010	0.135	0.186
BXD011	0.056	0.592
BXD03	0.527	0.339
BXD04	0.172	0.512
BXD05	0.977	0.295
BXD06	-0.177	0.365
BXD07	-0.18	0.449
BXD08	0.535	0.451
BXD09	0.098	0.24
CAST	0.34	0.022
CCcont	-0.052	0.441
DS01	-0.335	0.282
DS02	-0.673	0.241
DS04	-0.037	0.299
DS0c	-0.071	0.407
GP01	-0.026	0.576
GP02	-1.594	0.392
GP0c	-0.334	0.375
NOD	0.568	0.19
NZO	-0.819	-0.02
PWK	-0.006	0.335
H37Rv_KO_CtpC	-0.079	0.515
H37Rv_KO_CtpD	2.057	0.643
H37Rv_KO_Rv1272	-0.441	0.839
H37Rv_KO_SugABC	-0.09	0.594
H37Rv_KO_MbtN	0.396	0.852
Trans05	0.132	0.557
macrophage_unactivated	-0.925	0.467
IL1	-1.246	0.243
Rapamycin	-0.049	-0.387
Tcell	-0.495	0.45
GMCSF	0.607	0.42
IFNab	0.704	-0.381
IFNg	0.008	-0.032
IFNg_GMCSF1	0.339	-0.075
Rv1432_day32	-0.302	-0.198
Rv1565c_day32	1.068	0.145
secA2_input	-0.778	0.099
delta_Rv3594	0.3	0.203
delta_Rv3717	0.721	-0.227
delta_Rv3811	0.236	0.129
delta_Rv0954	-0.349	0.039
PonA1	0.31	-0.461
EccD1_KO	-0.724	-0.566
EspI_KO	-0.237	0.12
PE35_KO	-1.167	-0.391
PPE68_KO	-1.718	-0.429
glycerol2	0.839	0.553
lignocerate	0.539	0.798
oleate	1.16	0.516
phosphatidylcholine	0.873	0.807
acetate	-0.352	0.293
glucAc	0.965	0.31
Rv0950ko	0.811	0.479
Rv1096ko	0.615	-0.57
Rv3684ko	-0.013	-0.187
delta_otsA_trehalose	3.088	1.005