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 Rv3467/-:

update plot	correlation	link to info on gene
Rv0094c/-	(cc=0.9372)	info on Rv0094c/-
Rv3466/-	(cc=0.7718)	info on Rv3466/-
Rv1588c/-	(cc=0.7169)	info on Rv1588c/-
Rv3185/-	(cc=0.6751)	info on Rv3185/-
Rv1756c/-	(cc=0.6672)	info on Rv1756c/-
Rv2167c/-	(cc=0.667)	info on Rv2167c/-
Rv3380c/-	(cc=0.6626)	info on Rv3380c/-
Rv0796/-	(cc=0.6611)	info on Rv0796/-
Rv2649/-	(cc=0.66)	info on Rv2649/-
Rv2814c/-	(cc=0.6593)	info on Rv2814c/-

Correlation of Rv3467/- with Rv3466/-

Normalized LFCs for Rv3467/-:
(description and provenance of datasets)

	Rv3467/-	Rv3466/-
Fe_supp_jason_reseq	0.111	0.194
low_pH_jason_reseq	0.202	-0.049
NO_jason_reseq	0.339	0.459
B6_jason_reseq	0.125	0.047
MHCII_jason_reseq	0.061	-0.457
Isoniazid02	0.391	0.665
Rifampicin4	0.352	0.669
Ethambutol3	0.561	-0.061
Meropenem3	1.019	-0.186
Vancomycin16	0.159	0.485
Rv2680_day32	-0.448	-1.061
H37Rv_KO_MarP	-0.034	-0.161
hypoxia_3wks	-0.12	-0.363
hypoxia_6wks	-0.666	-0.887
glycerol	-0.692	-0.443
cholesterol	-0.55	-0.529
AJ	0.866	0.398
Bibs02	0.571	1.02
Bibs02c	0.732	0.925
BL6	0.264	-0.309
BL6a	0.936	0.931
BXD01	0.144	0.478
BXD010	0.74	-0.058
BXD011	0.126	-0.315
BXD03	0.751	0.683
BXD04	0.701	0.511
BXD05	0.305	0.168
BXD06	0.209	0.127
BXD07	0.596	0.486
BXD08	0.274	0.425
BXD09	0.251	0.331
CAST	0.617	0.287
CCcont	-0.101	-0.348
DS01	0.621	1.177
DS02	0.945	1.478
DS04	0.776	0.885
DS0c	0.363	0.83
GP01	0.575	0.464
GP02	0.752	0.902
GP0c	0.604	0.838
NOD	-0.075	-0.29
NZO	0.525	0.228
PWK	0.87	0.705
H37Rv_KO_CtpC	0.692	0.896
H37Rv_KO_CtpD	0.04	-0.823
H37Rv_KO_Rv1272	0.0	0.134
H37Rv_KO_SugABC	-0.637	-1.127
H37Rv_KO_MbtN	-0.372	-0.854
Trans05	0.691	0.678
macrophage_unactivated	-1.016	-0.685
IL1	-0.122	-0.697
Rapamycin	-0.227	-1.071
Tcell	-0.671	-0.828
GMCSF	-0.877	-0.573
IFNab	-1.004	-0.656
IFNg	-0.337	-1.382
IFNg_GMCSF1	-0.233	0.33
Rv1432_day32	-0.143	-0.073
Rv1565c_day32	0.377	0.946
secA2_input	0.338	-0.269
delta_Rv3594	0.225	-0.255
delta_Rv3717	-0.121	-0.371
delta_Rv3811	0.104	-1.139
delta_Rv0954	0.8	0.249
PonA1	0.126	-0.274
EccD1_KO	0.115	-0.247
EspI_KO	-0.051	0.433
PE35_KO	-0.053	0.557
PPE68_KO	-0.115	0.272
glycerol2	-0.944	-1.213
lignocerate	-0.543	-0.906
oleate	-0.977	-1.202
phosphatidylcholine	-0.539	-0.84
acetate	0.577	0.268
glucAc	0.321	-0.348
Rv0950ko	-0.573	-1.146
Rv1096ko	0.531	-0.283
Rv3684ko	0.0	-0.694
delta_otsA_trehalose	0.631	0.87