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 Rv3064c/-

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

	Rv3321c/vapB44	Rv3064c/-
Fe_supp_jason_reseq	1.88	-0.497
low_pH_jason_reseq	-0.82	-0.074
NO_jason_reseq	0.097	0.194
B6_jason_reseq	0.505	-0.165
MHCII_jason_reseq	1.109	-0.668
Isoniazid02	0.329	0.374
Rifampicin4	0.81	0.485
Ethambutol3	2.563	1.597
Meropenem3	0.532	0.156
Vancomycin16	0.395	0.379
Rv2680_day32	0.2	0.261
H37Rv_KO_MarP	0.471	0.509
hypoxia_3wks	0.072	-0.355
hypoxia_6wks	-0.737	-0.699
glycerol	-1.182	-0.288
cholesterol	0.486	0.041
AJ	-1.294	0.055
Bibs02	0.567	-0.282
Bibs02c	0.391	-0.071
BL6	-0.197	0.312
BL6a	0.709	0.11
BXD01	-0.154	0.424
BXD010	0.135	0.106
BXD011	0.056	0.176
BXD03	0.527	0.081
BXD04	0.172	0.39
BXD05	0.977	0.429
BXD06	-0.177	0.333
BXD07	-0.18	0.431
BXD08	0.535	1.596
BXD09	0.098	0.65
CAST	0.34	-0.182
CCcont	-0.052	0.194
DS01	-0.335	0.356
DS02	-0.673	-0.011
DS04	-0.037	0.684
DS0c	-0.071	-0.754
GP01	-0.026	-0.324
GP02	-1.594	0.247
GP0c	-0.334	-0.74
NOD	0.568	0.747
NZO	-0.819	-0.107
PWK	-0.006	-0.038
H37Rv_KO_CtpC	-0.079	-0.015
H37Rv_KO_CtpD	2.057	0.094
H37Rv_KO_Rv1272	-0.441	0.45
H37Rv_KO_SugABC	-0.09	0.748
H37Rv_KO_MbtN	0.396	0.295
Trans05	0.132	-0.322
macrophage_unactivated	-0.925	-0.095
IL1	-1.246	-0.421
Rapamycin	-0.049	-0.47
Tcell	-0.495	0.016
GMCSF	0.607	1.22
IFNab	0.704	-0.03
IFNg	0.008	0.067
IFNg_GMCSF1	0.339	-0.786
Rv1432_day32	-0.302	0.034
Rv1565c_day32	1.068	2.243
secA2_input	-0.778	-0.246
delta_Rv3594	0.3	-0.177
delta_Rv3717	0.721	-0.588
delta_Rv3811	0.236	-0.467
delta_Rv0954	-0.349	-0.363
PonA1	0.31	-0.37
EccD1_KO	-0.724	-0.099
EspI_KO	-0.237	-0.513
PE35_KO	-1.167	-0.07
PPE68_KO	-1.718	0.019
glycerol2	0.839	0.416
lignocerate	0.539	0.608
oleate	1.16	0.346
phosphatidylcholine	0.873	0.706
acetate	-0.352	0.672
glucAc	0.965	1.074
Rv0950ko	0.811	0.196
Rv1096ko	0.615	-0.045
Rv3684ko	-0.013	0.295
delta_otsA_trehalose	3.088	2.722