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 Rv0941c/-:

update plot	correlation	link to info on gene
Rv3521/-	(cc=0.5384)	info on Rv3521/-
Rv0779c/-	(cc=0.5133)	info on Rv0779c/-
Rv3265c/wbbL1	(cc=0.4732)	info on Rv3265c/wbbL1
Rv2892c/PPE45	(cc=0.4615)	info on Rv2892c/PPE45
Rv3144c/PPE52	(cc=0.4482)	info on Rv3144c/PPE52
Rv2971/-	(cc=0.4419)	info on Rv2971/-
Rv3831/-	(cc=0.4288)	info on Rv3831/-
Rv1735c/-	(cc=0.4243)	info on Rv1735c/-
Rv0765c/-	(cc=0.4096)	info on Rv0765c/-
Rv0578c/PE_PGRS7	(cc=0.4039)	info on Rv0578c/PE_PGRS7

Correlation of Rv0941c/- with Rv2892c/PPE45

Normalized LFCs for Rv0941c/-:
(description and provenance of datasets)

	Rv0941c/-	Rv2892c/PPE45
Fe_supp_jason_reseq	-0.985	-0.267
low_pH_jason_reseq	-0.522	-0.482
NO_jason_reseq	0.302	-0.192
B6_jason_reseq	-0.074	-0.296
MHCII_jason_reseq	-0.103	0.057
Isoniazid02	0.604	0.501
Rifampicin4	0.579	0.644
Ethambutol3	0.759	0.241
Meropenem3	0.357	0.478
Vancomycin16	1.021	0.592
Rv2680_day32	-0.36	0.499
H37Rv_KO_MarP	0.426	-0.277
hypoxia_3wks	0.327	0.73
hypoxia_6wks	0.013	0.94
glycerol	0.527	-0.506
cholesterol	0.182	-0.862
AJ	-0.057	0.182
Bibs02	0.936	0.221
Bibs02c	-0.496	-0.186
BL6	0.184	0.487
BL6a	-0.1	0.42
BXD01	0.573	0.656
BXD010	0.679	0.4
BXD011	0.543	0.248
BXD03	0.116	0.348
BXD04	-0.248	0.005
BXD05	0.53	0.253
BXD06	0.327	0.672
BXD07	0.174	0.551
BXD08	0.172	0.863
BXD09	0.107	0.674
CAST	-0.277	0.01
CCcont	0.065	0.129
DS01	0.0	0.157
DS02	0.774	-0.246
DS04	0.878	1.483
DS0c	0.262	0.431
GP01	0.175	0.387
GP02	0.951	0.964
GP0c	0.503	0.263
NOD	0.231	0.314
NZO	0.409	-0.15
PWK	-0.465	-0.502
H37Rv_KO_CtpC	0.108	-0.199
H37Rv_KO_CtpD	0.898	0.351
H37Rv_KO_Rv1272	1.642	0.386
H37Rv_KO_SugABC	0.765	0.38
H37Rv_KO_MbtN	-0.947	-0.27
Trans05	1.07	0.282
macrophage_unactivated	-0.051	0.092
IL1	-0.047	0.039
Rapamycin	-0.359	-0.147
Tcell	0.684	0.124
GMCSF	0.536	-0.011
IFNab	-0.354	-0.266
IFNg	0.39	0.166
IFNg_GMCSF1	-0.182	-0.317
Rv1432_day32	-0.262	-0.613
Rv1565c_day32	0.889	0.659
secA2_input	0.672	0.02
delta_Rv3594	0.366	0.0
delta_Rv3717	0.545	-0.322
delta_Rv3811	0.626	-0.595
delta_Rv0954	0.559	0.155
PonA1	0.089	-0.182
EccD1_KO	0.335	0.71
EspI_KO	0.468	0.63
PE35_KO	0.709	-0.038
PPE68_KO	0.736	0.102
glycerol2	-0.006	0.509
lignocerate	-0.16	0.349
oleate	-0.186	0.885
phosphatidylcholine	0.069	0.798
acetate	-0.703	-0.776
glucAc	-0.533	-0.792
Rv0950ko	1.269	1.2
Rv1096ko	1.004	1.14
Rv3684ko	0.907	0.495
delta_otsA_trehalose	0.811	2.157