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 Rv2805/-:

update plot	correlation	link to info on gene
Rv0521/-	(cc=0.4595)	info on Rv0521/-
Rv2657c/-	(cc=0.3982)	info on Rv2657c/-
Rv2317/uspB	(cc=0.3904)	info on Rv2317/uspB
Rv2055c/rpsR2	(cc=0.3859)	info on Rv2055c/rpsR2
Rv0899/ompA	(cc=0.3855)	info on Rv0899/ompA
Rv2804c/-	(cc=0.3846)	info on Rv2804c/-
Rv0319/pcp	(cc=0.3836)	info on Rv0319/pcp
Rv0616c/-	(cc=0.3718)	info on Rv0616c/-
Rv2212/-	(cc=0.3709)	info on Rv2212/-
Rv2046/lppI	(cc=0.366)	info on Rv2046/lppI

Correlation of Rv2805/- with Rv0319/pcp

Normalized LFCs for Rv2805/-:
(description and provenance of datasets)

	Rv2805/-	Rv0319/pcp
Fe_supp_jason_reseq	-0.491	0.29
low_pH_jason_reseq	0.679	1.109
NO_jason_reseq	1.04	0.058
B6_jason_reseq	-0.088	0.452
MHCII_jason_reseq	-1.231	0.777
Isoniazid02	0.125	0.895
Rifampicin4	1.592	0.636
Ethambutol3	0.432	0.209
Meropenem3	0.689	0.0
Vancomycin16	0.154	0.499
Rv2680_day32	1.172	-0.121
H37Rv_KO_MarP	0.198	0.034
hypoxia_3wks	-1.176	0.363
hypoxia_6wks	-0.284	0.106
glycerol	0.455	0.0
cholesterol	0.477	0.12
AJ	-0.245	0.289
Bibs02	-0.58	-0.748
Bibs02c	-0.925	0.344
BL6	1.296	0.367
BL6a	-0.742	0.077
BXD01	-0.471	-0.092
BXD010	0.945	0.211
BXD011	-0.122	0.065
BXD03	-0.506	0.14
BXD04	0.022	-0.367
BXD05	-0.226	0.924
BXD06	-0.527	-0.251
BXD07	-0.051	-0.233
BXD08	1.251	-0.278
BXD09	-0.42	-0.284
CAST	-0.412	-0.265
CCcont	-0.333	0.495
DS01	-0.133	0.491
DS02	0.717	0.145
DS04	1.176	-0.714
DS0c	-1.318	0.501
GP01	-0.998	0.022
GP02	-0.67	-1.296
GP0c	0.442	-0.648
NOD	1.733	0.488
NZO	-0.585	-0.767
PWK	0.26	0.131
H37Rv_KO_CtpC	2.482	-0.824
H37Rv_KO_CtpD	-2.69	-2.477
H37Rv_KO_Rv1272	-1.281	-1.818
H37Rv_KO_SugABC	0.638	-0.776
H37Rv_KO_MbtN	0.042	-0.808
Trans05	0.637	-0.917
macrophage_unactivated	-0.477	0.161
IL1	-1.225	0.027
Rapamycin	-0.203	0.157
Tcell	-0.57	0.583
GMCSF	1.167	-0.285
IFNab	-0.807	-0.738
IFNg	-1.232	-0.214
IFNg_GMCSF1	0.22	0.16
Rv1432_day32	0.0	0.541
Rv1565c_day32	-1.109	0.971
secA2_input	0.122	0.574
delta_Rv3594	1.19	1.23
delta_Rv3717	1.167	1.056
delta_Rv3811	0.4	1.108
delta_Rv0954	1.824	1.795
PonA1	2.412	2.507
EccD1_KO	0.0	0.069
EspI_KO	1.012	0.63
PE35_KO	-0.038	-0.315
PPE68_KO	-0.211	0.79
glycerol2	0.289	1.77
lignocerate	0.793	2.289
oleate	-0.899	0.457
phosphatidylcholine	0.807	1.923
acetate	-0.015	1.662
glucAc	1.02	1.437
Rv0950ko	0.308	-0.76
Rv1096ko	-1.221	-0.395
Rv3684ko	-0.92	-2.011
delta_otsA_trehalose	-0.122	1.757