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 Rv1562c/treZ:

update plot	correlation	link to info on gene
Rv1563c/treY	(cc=0.5661)	info on Rv1563c/treY
Rv0551c/fadD8	(cc=0.5037)	info on Rv0551c/fadD8
Rv3468c/-	(cc=0.4716)	info on Rv3468c/-
Rv1751/-	(cc=0.4533)	info on Rv1751/-
Rv2463/lipP	(cc=0.451)	info on Rv2463/lipP
Rv1537/dinX	(cc=0.451)	info on Rv1537/dinX
Rv1686c/-	(cc=0.4385)	info on Rv1686c/-
Rv3742c/-	(cc=0.4305)	info on Rv3742c/-
Rv3064c/-	(cc=0.4305)	info on Rv3064c/-
Rv2086/-	(cc=0.4163)	info on Rv2086/-

Correlation of Rv1562c/treZ with Rv1563c/treY

Normalized LFCs for Rv1562c/treZ:
(description and provenance of datasets)

	Rv1562c/treZ	Rv1563c/treY
Fe_supp_jason_reseq	0.761	0.341
low_pH_jason_reseq	0.773	0.845
NO_jason_reseq	-0.882	-0.969
B6_jason_reseq	-0.093	0.666
MHCII_jason_reseq	0.508	1.022
Isoniazid02	0.937	0.167
Rifampicin4	0.236	0.311
Ethambutol3	0.036	-0.153
Meropenem3	0.036	-0.497
Vancomycin16	0.791	0.305
Rv2680_day32	0.321	-0.344
H37Rv_KO_MarP	-0.035	-0.662
hypoxia_3wks	-0.478	-0.195
hypoxia_6wks	0.288	-0.672
glycerol	-0.771	0.429
cholesterol	0.281	0.536
AJ	0.61	-0.188
Bibs02	-0.121	0.837
Bibs02c	0.717	0.735
BL6	0.865	-0.138
BL6a	0.739	0.149
BXD01	-0.382	-0.813
BXD010	-0.34	-1.406
BXD011	0.0	-0.626
BXD03	0.421	-0.608
BXD04	0.077	-1.032
BXD05	0.599	-0.975
BXD06	0.981	-0.269
BXD07	-0.03	-0.933
BXD08	0.135	-0.447
BXD09	0.247	-0.375
CAST	0.993	-0.254
CCcont	1.098	0.497
DS01	0.541	1.648
DS02	-0.518	1.604
DS04	1.694	0.888
DS0c	0.178	1.332
GP01	0.683	-0.617
GP02	0.162	-0.561
GP0c	0.465	0.741
NOD	0.047	0.661
NZO	-0.475	0.465
PWK	1.056	-0.523
H37Rv_KO_CtpC	0.653	-0.433
H37Rv_KO_CtpD	0.053	0.601
H37Rv_KO_Rv1272	-0.192	0.072
H37Rv_KO_SugABC	0.663	0.403
H37Rv_KO_MbtN	0.965	-0.596
Trans05	-0.057	1.077
macrophage_unactivated	-0.076	0.347
IL1	0.068	0.427
Rapamycin	-0.457	-1.046
Tcell	0.0	-0.665
GMCSF	-0.325	0.0
IFNab	-0.145	-0.484
IFNg	-0.329	0.0
IFNg_GMCSF1	0.148	0.233
Rv1432_day32	0.222	0.13
Rv1565c_day32	0.458	0.545
secA2_input	-0.153	-1.227
delta_Rv3594	-0.087	0.34
delta_Rv3717	0.378	0.279
delta_Rv3811	0.08	0.33
delta_Rv0954	-0.036	-0.34
PonA1	0.876	0.0
EccD1_KO	0.322	1.214
EspI_KO	0.071	0.918
PE35_KO	1.155	1.82
PPE68_KO	0.534	1.469
glycerol2	0.736	0.643
lignocerate	1.084	0.613
oleate	-1.012	-0.478
phosphatidylcholine	0.556	0.311
acetate	1.416	0.836
glucAc	1.459	0.685
Rv0950ko	-0.238	-0.63
Rv1096ko	-0.829	-0.368
Rv3684ko	-0.75	-0.4
delta_otsA_trehalose	5.496	4.098