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 Rv0213c/-:

update plot	correlation	link to info on gene
Rv3812/PE_PGRS62	(cc=0.5641)	info on Rv3812/PE_PGRS62
Rv3233c/-	(cc=0.494)	info on Rv3233c/-
Rv0755c/PPE12	(cc=0.4929)	info on Rv0755c/PPE12
Rv0515/-	(cc=0.4854)	info on Rv0515/-
Rv3424c/-	(cc=0.4828)	info on Rv3424c/-
Rv1260/-	(cc=0.4703)	info on Rv1260/-
Rv3697c/vapC48	(cc=0.4698)	info on Rv3697c/vapC48
Rv2472/-	(cc=0.4678)	info on Rv2472/-
Rv0186A/mymT	(cc=0.4675)	info on Rv0186A/mymT
Rv0394c/-	(cc=0.461)	info on Rv0394c/-

Correlation of Rv0213c/- with Rv0755c/PPE12

Normalized LFCs for Rv0213c/-:
(description and provenance of datasets)

	Rv0213c/-	Rv0755c/PPE12
Fe_supp_jason_reseq	-0.581	-0.553
low_pH_jason_reseq	-0.489	-0.634
NO_jason_reseq	0.155	-0.179
B6_jason_reseq	-0.017	-0.128
MHCII_jason_reseq	1.053	1.052
Isoniazid02	-0.77	-0.316
Rifampicin4	0.217	-0.092
Ethambutol3	-0.621	0.585
Meropenem3	-0.046	-0.307
Vancomycin16	-0.05	0.34
Rv2680_day32	0.122	-0.516
H37Rv_KO_MarP	0.478	0.628
hypoxia_3wks	0.267	-0.104
hypoxia_6wks	0.0	-0.34
glycerol	0.171	0.353
cholesterol	0.236	-0.482
AJ	0.684	0.785
Bibs02	0.223	0.832
Bibs02c	1.075	1.028
BL6	0.283	-0.518
BL6a	0.653	0.528
BXD01	0.331	0.207
BXD010	0.277	0.879
BXD011	0.264	1.712
BXD03	0.085	0.075
BXD04	0.036	-0.176
BXD05	0.039	0.491
BXD06	0.237	0.025
BXD07	0.219	0.052
BXD08	0.35	-0.189
BXD09	0.0	-0.14
CAST	1.081	0.402
CCcont	0.38	0.083
DS01	0.676	0.799
DS02	0.632	1.068
DS04	0.52	0.682
DS0c	0.751	0.933
GP01	-0.851	-0.66
GP02	0.219	-0.299
GP0c	-0.326	-0.654
NOD	1.539	0.76
NZO	0.461	0.858
PWK	0.672	0.689
H37Rv_KO_CtpC	-0.048	1.014
H37Rv_KO_CtpD	0.637	1.246
H37Rv_KO_Rv1272	0.057	0.417
H37Rv_KO_SugABC	0.964	-0.078
H37Rv_KO_MbtN	-0.529	-0.081
Trans05	0.543	0.29
macrophage_unactivated	-0.287	-0.915
IL1	-0.792	-0.24
Rapamycin	0.0	-1.194
Tcell	0.094	-0.355
GMCSF	-0.705	-0.681
IFNab	-0.06	-1.611
IFNg	-0.134	-0.861
IFNg_GMCSF1	-0.031	-0.811
Rv1432_day32	0.442	-0.206
Rv1565c_day32	0.239	-0.486
secA2_input	0.045	-0.65
delta_Rv3594	-0.48	0.038
delta_Rv3717	-0.395	-0.886
delta_Rv3811	-0.287	-0.507
delta_Rv0954	-0.031	0.096
PonA1	-0.083	-0.719
EccD1_KO	0.247	0.444
EspI_KO	-0.399	0.935
PE35_KO	-0.318	0.318
PPE68_KO	-0.182	0.432
glycerol2	0.248	0.347
lignocerate	0.192	0.347
oleate	0.189	-0.065
phosphatidylcholine	0.186	0.643
acetate	-0.193	0.181
glucAc	-0.32	-0.024
Rv0950ko	0.419	0.223
Rv1096ko	0.178	-0.483
Rv3684ko	0.655	-0.085
delta_otsA_trehalose	-0.306	0.345