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 Rv3432c/gadB:

update plot	correlation	link to info on gene
Rv3772/hisC2	(cc=0.5061)	info on Rv3772/hisC2
Rv3736/-	(cc=0.4302)	info on Rv3736/-
Rv0834c/PE_PGRS14	(cc=0.4097)	info on Rv0834c/PE_PGRS14
Rv3523/ltp3	(cc=0.4093)	info on Rv3523/ltp3
Rv0110/-	(cc=0.4091)	info on Rv0110/-
Rv3171c/hpx	(cc=0.4049)	info on Rv3171c/hpx
Rv1177/fdxC	(cc=0.3936)	info on Rv1177/fdxC
Rv0597c/-	(cc=0.3918)	info on Rv0597c/-
Rv2571c/-	(cc=0.3898)	info on Rv2571c/-
Rv3785/-	(cc=0.3863)	info on Rv3785/-

Correlation of Rv3432c/gadB with Rv3785/-

Normalized LFCs for Rv3432c/gadB:
(description and provenance of datasets)

	Rv3432c/gadB	Rv3785/-
Fe_supp_jason_reseq	0.26	0.008
low_pH_jason_reseq	0.156	0.36
NO_jason_reseq	-0.541	-0.816
B6_jason_reseq	-0.496	-0.353
MHCII_jason_reseq	0.08	0.401
Isoniazid02	-0.102	-0.33
Rifampicin4	-0.068	-0.579
Ethambutol3	0.793	0.347
Meropenem3	0.553	0.096
Vancomycin16	-0.05	-0.175
Rv2680_day32	0.454	0.383
H37Rv_KO_MarP	0.243	0.515
hypoxia_3wks	-0.171	-0.786
hypoxia_6wks	-0.169	0.056
glycerol	0.275	0.344
cholesterol	-0.12	-0.128
AJ	-0.234	0.103
Bibs02	0.229	0.461
Bibs02c	0.39	-0.74
BL6	0.42	0.613
BL6a	0.342	0.069
BXD01	-0.21	0.094
BXD010	0.278	0.694
BXD011	0.229	0.385
BXD03	-0.093	0.548
BXD04	-0.042	0.129
BXD05	0.754	0.123
BXD06	0.272	0.513
BXD07	0.169	0.717
BXD08	-0.171	0.402
BXD09	0.134	0.482
CAST	0.018	-0.599
CCcont	0.125	0.512
DS01	0.198	0.775
DS02	0.165	0.745
DS04	0.285	0.838
DS0c	-0.393	0.256
GP01	-0.465	0.814
GP02	0.996	0.306
GP0c	0.563	0.265
NOD	-0.43	0.011
NZO	0.152	0.669
PWK	-0.05	-0.523
H37Rv_KO_CtpC	-0.186	-0.292
H37Rv_KO_CtpD	0.672	1.364
H37Rv_KO_Rv1272	-0.222	0.333
H37Rv_KO_SugABC	0.39	0.624
H37Rv_KO_MbtN	0.148	0.099
Trans05	0.284	0.149
macrophage_unactivated	-0.246	-0.088
IL1	0.19	0.053
Rapamycin	0.227	-0.086
Tcell	-0.443	-0.622
GMCSF	-0.222	0.716
IFNab	0.239	-0.142
IFNg	0.267	-0.037
IFNg_GMCSF1	-0.119	1.027
Rv1432_day32	0.46	0.171
Rv1565c_day32	0.201	0.185
secA2_input	0.894	-0.158
delta_Rv3594	-0.153	-0.263
delta_Rv3717	-0.062	-0.408
delta_Rv3811	-0.062	-0.256
delta_Rv0954	0.31	-0.463
PonA1	1.094	0.477
EccD1_KO	0.168	-0.421
EspI_KO	0.066	-0.513
PE35_KO	-0.187	-0.088
PPE68_KO	-0.15	-0.058
glycerol2	0.171	0.245
lignocerate	0.235	0.191
oleate	0.233	0.055
phosphatidylcholine	0.296	0.046
acetate	-0.08	0.14
glucAc	-0.239	-0.122
Rv0950ko	0.871	0.905
Rv1096ko	0.944	0.223
Rv3684ko	0.531	-0.305
delta_otsA_trehalose	-0.909	-1.304