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 Rv3090/-:

update plot	correlation	link to info on gene
Rv1159A/-	(cc=0.4959)	info on Rv1159A/-
Rv2468A/-	(cc=0.4522)	info on Rv2468A/-
Rv2274c/mazF8	(cc=0.4188)	info on Rv2274c/mazF8
Rv0531/-	(cc=0.3932)	info on Rv0531/-
Rv2865/relF	(cc=0.371)	info on Rv2865/relF
Rv1088/PE9	(cc=0.3666)	info on Rv1088/PE9
Rv3518c/cyp142	(cc=0.3617)	info on Rv3518c/cyp142
Rv3588c/canB	(cc=0.3604)	info on Rv3588c/canB
Rv3764c/tcrY	(cc=0.3588)	info on Rv3764c/tcrY
Rv3843c/-	(cc=0.3551)	info on Rv3843c/-

Correlation of Rv3090/- with Rv1159A/-

Normalized LFCs for Rv3090/-:
(description and provenance of datasets)

	Rv3090/-	Rv1159A/-
Fe_supp_jason_reseq	0.156	-0.142
low_pH_jason_reseq	-0.412	-0.768
NO_jason_reseq	-0.039	0.381
B6_jason_reseq	1.177	0.14
MHCII_jason_reseq	-0.036	-0.671
Isoniazid02	-0.623	-2.148
Rifampicin4	0.014	0.309
Ethambutol3	-0.536	-1.914
Meropenem3	-0.831	-1.591
Vancomycin16	-0.268	-0.512
Rv2680_day32	0.415	0.439
H37Rv_KO_MarP	1.149	0.31
hypoxia_3wks	0.124	-0.522
hypoxia_6wks	-0.449	-0.572
glycerol	0.351	0.992
cholesterol	0.134	-0.039
AJ	0.171	0.417
Bibs02	-0.146	-0.751
Bibs02c	0.418	1.161
BL6	-0.294	1.42
BL6a	0.727	0.696
BXD01	0.683	0.066
BXD010	0.711	0.187
BXD011	0.205	-0.103
BXD03	1.445	0.213
BXD04	0.049	1.33
BXD05	1.162	0.661
BXD06	0.226	0.75
BXD07	0.442	1.124
BXD08	0.564	1.301
BXD09	0.31	0.596
CAST	-0.097	-0.092
CCcont	-0.031	0.697
DS01	-0.378	0.852
DS02	-0.61	-0.507
DS04	0.396	-0.422
DS0c	-0.969	-0.768
GP01	-1.43	-0.485
GP02	0.457	0.388
GP0c	0.115	-0.07
NOD	0.841	-1.15
NZO	0.623	0.485
PWK	0.04	0.148
H37Rv_KO_CtpC	0.008	0.082
H37Rv_KO_CtpD	0.1	-1.132
H37Rv_KO_Rv1272	-0.097	-1.177
H37Rv_KO_SugABC	0.005	0.262
H37Rv_KO_MbtN	-0.617	-1.607
Trans05	0.0	-0.615
macrophage_unactivated	-0.095	-0.29
IL1	0.851	0.647
Rapamycin	-0.242	-0.911
Tcell	0.075	0.108
GMCSF	-0.174	0.0
IFNab	0.505	-0.463
IFNg	-0.211	-0.184
IFNg_GMCSF1	0.057	-0.364
Rv1432_day32	-0.169	0.763
Rv1565c_day32	1.256	0.704
secA2_input	-0.487	-0.053
delta_Rv3594	0.064	-0.188
delta_Rv3717	0.4	0.036
delta_Rv3811	0.354	0.504
delta_Rv0954	0.756	1.403
PonA1	0.464	1.253
EccD1_KO	0.5	1.02
EspI_KO	-0.299	-1.05
PE35_KO	-0.385	-0.12
PPE68_KO	-0.25	0.064
glycerol2	0.098	0.415
lignocerate	0.414	0.749
oleate	-0.198	0.15
phosphatidylcholine	0.436	0.517
acetate	0.577	0.517
glucAc	0.45	0.56
Rv0950ko	-0.778	-0.329
Rv1096ko	-0.564	0.0
Rv3684ko	-1.972	-0.662
delta_otsA_trehalose	0.39	-0.282