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 Rv2863/vapC23:

update plot	correlation	link to info on gene
Rv3098c/-	(cc=0.4702)	info on Rv3098c/-
Rv1765A/-	(cc=0.4597)	info on Rv1765A/-
Rv0302/-	(cc=0.4487)	info on Rv0302/-
Rv0309/-	(cc=0.445)	info on Rv0309/-
Rv0520/-	(cc=0.4112)	info on Rv0520/-
Rv3770B/-	(cc=0.3912)	info on Rv3770B/-
Rv2276/cyp121	(cc=0.3909)	info on Rv2276/cyp121
Rv3157/nuoM	(cc=0.3904)	info on Rv3157/nuoM
Rv0033/acpA	(cc=0.3901)	info on Rv0033/acpA
Rv2243/fabD	(cc=0.3896)	info on Rv2243/fabD

Correlation of Rv2863/vapC23 with Rv3098c/-

Normalized LFCs for Rv2863/vapC23:
(description and provenance of datasets)

	Rv2863/vapC23	Rv3098c/-
Fe_supp_jason_reseq	0.178	0.096
low_pH_jason_reseq	-1.389	0.069
NO_jason_reseq	-0.431	-1.591
B6_jason_reseq	-0.351	-0.743
MHCII_jason_reseq	-0.883	-1.732
Isoniazid02	0.378	-1.678
Rifampicin4	-0.826	-0.046
Ethambutol3	-0.528	-0.924
Meropenem3	1.095	2.072
Vancomycin16	-0.302	-0.69
Rv2680_day32	-0.091	-0.816
H37Rv_KO_MarP	-0.439	0.066
hypoxia_3wks	0.191	0.463
hypoxia_6wks	0.121	0.574
glycerol	0.828	0.821
cholesterol	-0.171	0.0
AJ	-0.679	0.545
Bibs02	0.955	0.807
Bibs02c	1.064	1.034
BL6	0.54	0.159
BL6a	1.002	0.794
BXD01	0.684	0.192
BXD010	0.307	-0.739
BXD011	0.711	0.58
BXD03	0.813	0.079
BXD04	1.224	0.116
BXD05	-0.019	0.561
BXD06	0.995	0.143
BXD07	0.019	-0.365
BXD08	1.319	0.533
BXD09	0.793	0.372
CAST	0.215	-0.455
CCcont	0.401	-0.75
DS01	0.022	-0.222
DS02	0.109	0.484
DS04	2.049	-0.152
DS0c	0.275	-1.339
GP01	0.85	0.406
GP02	-0.826	-0.872
GP0c	0.44	-0.257
NOD	0.0	1.253
NZO	0.036	0.074
PWK	1.38	0.705
H37Rv_KO_CtpC	-0.141	0.42
H37Rv_KO_CtpD	0.359	0.667
H37Rv_KO_Rv1272	0.241	-0.156
H37Rv_KO_SugABC	-0.659	0.461
H37Rv_KO_MbtN	-0.137	0.308
Trans05	1.856	2.1
macrophage_unactivated	-0.243	-0.808
IL1	-0.306	-0.169
Rapamycin	-0.123	-1.307
Tcell	-0.283	-0.3
GMCSF	-0.433	0.145
IFNab	-0.218	-1.333
IFNg	-0.08	-0.906
IFNg_GMCSF1	-0.226	-0.179
Rv1432_day32	1.158	0.0
Rv1565c_day32	0.957	0.881
secA2_input	-0.787	-0.49
delta_Rv3594	-0.849	-0.844
delta_Rv3717	-0.029	-0.808
delta_Rv3811	-0.274	-1.151
delta_Rv0954	0.339	-0.368
PonA1	-0.182	-0.663
EccD1_KO	0.092	0.934
EspI_KO	0.83	0.559
PE35_KO	1.222	0.481
PPE68_KO	0.905	0.816
glycerol2	0.72	0.165
lignocerate	0.963	-0.447
oleate	0.233	0.802
phosphatidylcholine	0.746	-0.112
acetate	0.705	-0.944
glucAc	0.464	-0.75
Rv0950ko	0.684	0.754
Rv1096ko	1.285	-0.124
Rv3684ko	0.36	-0.033
delta_otsA_trehalose	0.031	-1.226