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 Rv1429/-:

update plot	correlation	link to info on gene
Rv1719/-	(cc=0.5422)	info on Rv1719/-
Rv3059/cyp136	(cc=0.5362)	info on Rv3059/cyp136
Rv3058c/-	(cc=0.5355)	info on Rv3058c/-
Rv1087A/-	(cc=0.5315)	info on Rv1087A/-
Rv1033c/trcR	(cc=0.5261)	info on Rv1033c/trcR
Rv2517c/-	(cc=0.522)	info on Rv2517c/-
Rv0461/-	(cc=0.5174)	info on Rv0461/-
Rv1148c/-	(cc=0.5128)	info on Rv1148c/-
Rv2599/-	(cc=0.5029)	info on Rv2599/-
Rv3060c/-	(cc=0.4961)	info on Rv3060c/-

Correlation of Rv1429/- with Rv3058c/-

Normalized LFCs for Rv1429/-:
(description and provenance of datasets)

	Rv1429/-	Rv3058c/-
Fe_supp_jason_reseq	0.548	-0.339
low_pH_jason_reseq	-0.415	-1.275
NO_jason_reseq	0.142	-1.42
B6_jason_reseq	0.463	-1.367
MHCII_jason_reseq	0.589	-0.287
Isoniazid02	-0.314	-2.551
Rifampicin4	0.049	-1.375
Ethambutol3	-0.251	1.008
Meropenem3	-0.722	-0.89
Vancomycin16	-0.199	-1.971
Rv2680_day32	-0.481	-1.059
H37Rv_KO_MarP	0.728	2.314
hypoxia_3wks	-0.439	-0.367
hypoxia_6wks	-0.407	-0.134
glycerol	-0.59	-1.219
cholesterol	-0.744	-2.073
AJ	0.094	0.255
Bibs02	-0.019	-1.526
Bibs02c	-0.182	-1.629
BL6	-0.621	-2.223
BL6a	-0.276	-1.871
BXD01	-0.636	-2.739
BXD010	-0.523	-2.712
BXD011	0.197	-2.487
BXD03	-0.279	-1.704
BXD04	0.727	-2.414
BXD05	-0.007	-2.911
BXD06	-0.708	-3.679
BXD07	-0.081	-3.23
BXD08	0.169	-1.966
BXD09	-0.373	-4.27
CAST	0.239	0.46
CCcont	-0.899	-0.791
DS01	-0.286	-1.879
DS02	-0.547	-2.874
DS04	0.53	-3.405
DS0c	0.121	-2.72
GP01	-0.977	-2.006
GP02	-0.177	-2.73
GP0c	-0.869	-3.106
NOD	0.034	0.672
NZO	0.698	-0.623
PWK	-0.628	0.51
H37Rv_KO_CtpC	0.424	-0.211
H37Rv_KO_CtpD	0.246	-1.019
H37Rv_KO_Rv1272	-1.513	-2.109
H37Rv_KO_SugABC	0.079	-3.448
H37Rv_KO_MbtN	-0.785	-2.442
Trans05	-0.363	-2.637
macrophage_unactivated	-0.227	-1.231
IL1	-0.166	-1.744
Rapamycin	0.233	-1.66
Tcell	-0.209	-0.873
GMCSF	-0.042	-1.164
IFNab	-0.638	-3.516
IFNg	-0.444	-1.625
IFNg_GMCSF1	-0.305	-1.91
Rv1432_day32	0.274	-2.632
Rv1565c_day32	0.006	0.069
secA2_input	-0.016	0.609
delta_Rv3594	0.044	-1.138
delta_Rv3717	-0.486	-2.022
delta_Rv3811	0.128	-1.553
delta_Rv0954	0.556	0.774
PonA1	0.763	2.176
EccD1_KO	0.385	-0.398
EspI_KO	1.252	-0.22
PE35_KO	0.866	0.831
PPE68_KO	0.688	0.666
glycerol2	1.389	4.618
lignocerate	-0.117	2.532
oleate	0.447	0.679
phosphatidylcholine	0.969	5.238
acetate	-0.143	0.53
glucAc	-0.379	-0.159
Rv0950ko	0.431	0.362
Rv1096ko	0.347	-0.09
Rv3684ko	0.098	0.282
delta_otsA_trehalose	0.051	-0.217