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 Rv1082/mca:

update plot	correlation	link to info on gene
Rv3165c/-	(cc=0.4085)	info on Rv3165c/-
Rv1083/-	(cc=0.4038)	info on Rv1083/-
Rv2427c/proA	(cc=0.3975)	info on Rv2427c/proA
Rv1404/-	(cc=0.3864)	info on Rv1404/-
Rv3855/ethR	(cc=0.3736)	info on Rv3855/ethR
Rv2335/cysE	(cc=0.3678)	info on Rv2335/cysE
Rv0499/-	(cc=0.3634)	info on Rv0499/-
Rv0626/vapB5	(cc=0.3574)	info on Rv0626/vapB5
Rv3214/gpm2	(cc=0.3495)	info on Rv3214/gpm2
Rv3438/-	(cc=0.3384)	info on Rv3438/-

Correlation of Rv1082/mca with Rv3438/-

Normalized LFCs for Rv1082/mca:
(description and provenance of datasets)

	Rv1082/mca	Rv3438/-
Fe_supp_jason_reseq	1.88	1.678
low_pH_jason_reseq	1.504	1.215
NO_jason_reseq	-1.638	-2.084
B6_jason_reseq	0.914	1.845
MHCII_jason_reseq	0.26	0.053
Isoniazid02	-0.976	-0.914
Rifampicin4	0.179	-0.236
Ethambutol3	0.632	-0.471
Meropenem3	-0.229	-1.148
Vancomycin16	-0.44	0.324
Rv2680_day32	-0.148	0.593
H37Rv_KO_MarP	1.043	-0.409
hypoxia_3wks	-0.55	-0.104
hypoxia_6wks	0.601	-2.036
glycerol	0.298	0.073
cholesterol	-0.435	1.403
AJ	0.277	-0.222
Bibs02	-1.476	0.066
Bibs02c	-1.206	0.925
BL6	0.661	1.308
BL6a	0.0	1.706
BXD01	-0.085	0.622
BXD010	0.596	2.112
BXD011	0.069	1.087
BXD03	0.69	1.843
BXD04	0.851	1.397
BXD05	0.073	1.159
BXD06	-0.205	0.917
BXD07	0.48	1.269
BXD08	-0.204	0.696
BXD09	0.328	1.069
CAST	0.259	1.87
CCcont	0.601	1.041
DS01	-1.145	-0.476
DS02	0.035	-0.298
DS04	-0.464	0.358
DS0c	-0.124	0.154
GP01	0.513	-1.608
GP02	-0.295	-1.105
GP0c	-0.211	-0.918
NOD	0.088	0.737
NZO	0.978	-0.637
PWK	0.567	0.45
H37Rv_KO_CtpC	-0.405	-0.061
H37Rv_KO_CtpD	-0.278	1.161
H37Rv_KO_Rv1272	0.139	0.657
H37Rv_KO_SugABC	1.05	0.496
H37Rv_KO_MbtN	0.73	0.352
Trans05	0.137	0.822
macrophage_unactivated	-0.098	-0.259
IL1	0.673	0.733
Rapamycin	-0.77	-0.252
Tcell	-0.365	0.0
GMCSF	-0.166	1.827
IFNab	-0.438	0.233
IFNg	0.04	0.935
IFNg_GMCSF1	0.952	1.1
Rv1432_day32	0.348	-1.182
Rv1565c_day32	0.251	0.482
secA2_input	0.161	0.598
delta_Rv3594	0.202	-0.711
delta_Rv3717	0.0	-0.104
delta_Rv3811	-0.308	-0.476
delta_Rv0954	-0.698	0.129
PonA1	0.361	0.521
EccD1_KO	0.382	-1.22
EspI_KO	0.0	-0.029
PE35_KO	0.117	0.403
PPE68_KO	-0.099	-0.698
glycerol2	0.0	-0.722
lignocerate	0.128	-0.544
oleate	-2.325	-1.874
phosphatidylcholine	-1.02	-0.923
acetate	1.794	-0.437
glucAc	1.156	0.501
Rv0950ko	0.455	0.479
Rv1096ko	-0.115	0.35
Rv3684ko	-0.157	-0.187
delta_otsA_trehalose	-1.089	0.85