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 Rv2159c/-:

update plot	correlation	link to info on gene
Rv2741/PE_PGRS47	(cc=0.5517)	info on Rv2741/PE_PGRS47
Rv1838c/vapC13	(cc=0.4861)	info on Rv1838c/vapC13
Rv3084/lipR	(cc=0.4851)	info on Rv3084/lipR
Rv3651/-	(cc=0.4821)	info on Rv3651/-
Rv3736/-	(cc=0.4808)	info on Rv3736/-
Rv2628/-	(cc=0.4784)	info on Rv2628/-
Rv0428c/-	(cc=0.4749)	info on Rv0428c/-
Rv2490c/PE_PGRS43	(cc=0.4733)	info on Rv2490c/PE_PGRS43
Rv1759c/wag22	(cc=0.4681)	info on Rv1759c/wag22
Rv3832c/-	(cc=0.4586)	info on Rv3832c/-

Correlation of Rv2159c/- with Rv3832c/-

Normalized LFCs for Rv2159c/-:
(description and provenance of datasets)

	Rv2159c/-	Rv3832c/-
Fe_supp_jason_reseq	-0.663	0.128
low_pH_jason_reseq	-0.482	-0.621
NO_jason_reseq	-0.294	-0.181
B6_jason_reseq	-1.212	0.25
MHCII_jason_reseq	-0.206	-0.493
Isoniazid02	-0.214	-0.14
Rifampicin4	0.891	0.087
Ethambutol3	-0.666	0.103
Meropenem3	-0.041	0.347
Vancomycin16	-0.785	0.398
Rv2680_day32	0.098	-0.452
H37Rv_KO_MarP	-0.428	0.587
hypoxia_3wks	-0.183	-0.279
hypoxia_6wks	-1.762	-0.065
glycerol	1.754	-0.255
cholesterol	0.807	-0.341
AJ	1.434	0.062
Bibs02	2.105	0.43
Bibs02c	-0.133	-0.781
BL6	-0.419	-0.516
BL6a	-0.57	-0.301
BXD01	-0.468	-0.621
BXD010	-1.168	-1.004
BXD011	-0.739	-0.78
BXD03	-0.637	-1.77
BXD04	-0.265	-0.9
BXD05	-0.111	0.07
BXD06	-0.666	-0.406
BXD07	-0.297	-0.987
BXD08	-0.103	-0.968
BXD09	-0.34	-0.399
CAST	-0.224	-0.108
CCcont	-0.182	-0.029
DS01	0.765	0.157
DS02	1.306	0.66
DS04	0.989	-1.148
DS0c	-0.211	1.108
GP01	1.236	0.18
GP02	2.055	1.32
GP0c	0.781	0.676
NOD	-0.197	-0.661
NZO	1.341	0.577
PWK	-0.071	0.584
H37Rv_KO_CtpC	0.202	-0.056
H37Rv_KO_CtpD	1.017	1.355
H37Rv_KO_Rv1272	-0.991	-0.016
H37Rv_KO_SugABC	-1.371	-0.338
H37Rv_KO_MbtN	-0.028	0.043
Trans05	-0.406	-0.561
macrophage_unactivated	-0.72	0.256
IL1	0.466	0.145
Rapamycin	-0.015	0.439
Tcell	-0.847	-0.137
GMCSF	0.071	0.702
IFNab	0.067	-0.369
IFNg	-0.978	-1.013
IFNg_GMCSF1	0.38	0.305
Rv1432_day32	0.566	0.192
Rv1565c_day32	-0.513	0.194
secA2_input	0.98	0.894
delta_Rv3594	0.835	0.525
delta_Rv3717	-0.181	0.898
delta_Rv3811	1.435	0.561
delta_Rv0954	-0.027	2.296
PonA1	0.895	0.641
EccD1_KO	2.71	1.371
EspI_KO	1.349	0.915
PE35_KO	1.73	0.578
PPE68_KO	1.213	0.381
glycerol2	0.794	0.196
lignocerate	0.168	0.526
oleate	0.679	-0.552
phosphatidylcholine	0.326	0.331
acetate	-0.426	-0.175
glucAc	-0.147	0.348
Rv0950ko	-0.73	-0.413
Rv1096ko	0.639	0.0
Rv3684ko	0.134	-0.115
delta_otsA_trehalose	-0.482	-0.476