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 Rv1035c/-:

update plot	correlation	link to info on gene
Rv0150c/-	(cc=0.5665)	info on Rv0150c/-
Rv2585c/-	(cc=0.5171)	info on Rv2585c/-
Rv1767/-	(cc=0.5114)	info on Rv1767/-
Rv1897c/-	(cc=0.4643)	info on Rv1897c/-
Rv1363c/-	(cc=0.4458)	info on Rv1363c/-
Rv2549c/vapC20	(cc=0.4271)	info on Rv2549c/vapC20
Rv1486c/-	(cc=0.422)	info on Rv1486c/-
Rv2806/-	(cc=0.4212)	info on Rv2806/-
Rv2231c/cobC	(cc=0.4195)	info on Rv2231c/cobC
Rv2129c/-	(cc=0.419)	info on Rv2129c/-

Correlation of Rv1035c/- with Rv0150c/-

Normalized LFCs for Rv1035c/-:
(description and provenance of datasets)

	Rv1035c/-	Rv0150c/-
Fe_supp_jason_reseq	0.264	-0.369
low_pH_jason_reseq	-1.723	-0.254
NO_jason_reseq	-0.239	0.53
B6_jason_reseq	-0.285	-1.11
MHCII_jason_reseq	-0.151	-0.503
Isoniazid02	-1.037	-0.749
Rifampicin4	0.227	-0.133
Ethambutol3	-0.755	-1.216
Meropenem3	2.125	-0.981
Vancomycin16	-0.488	-0.13
Rv2680_day32	1.306	0.0
H37Rv_KO_MarP	-0.906	-0.162
hypoxia_3wks	-0.227	-0.989
hypoxia_6wks	-0.558	-0.614
glycerol	0.208	0.094
cholesterol	1.439	0.867
AJ	1.321	0.309
Bibs02	2.307	-1.507
Bibs02c	-2.12	-1.325
BL6	-1.392	-1.031
BL6a	0.91	1.934
BXD01	0.331	0.376
BXD010	1.179	-0.269
BXD011	0.045	0.829
BXD03	1.519	0.123
BXD04	-0.299	1.184
BXD05	2.665	1.154
BXD06	0.483	1.029
BXD07	1.003	0.587
BXD08	0.811	1.485
BXD09	0.318	1.146
CAST	1.54	-0.484
CCcont	-1.662	-1.231
DS01	-1.177	0.0
DS02	0.841	0.38
DS04	0.936	-0.408
DS0c	-1.211	-1.571
GP01	-0.383	1.035
GP02	2.29	0.0
GP0c	0.134	1.592
NOD	0.231	-0.9
NZO	0.722	-0.199
PWK	0.136	-0.786
H37Rv_KO_CtpC	-0.186	0.347
H37Rv_KO_CtpD	-1.409	-1.044
H37Rv_KO_Rv1272	1.477	-0.666
H37Rv_KO_SugABC	-0.754	-0.817
H37Rv_KO_MbtN	0.608	-0.653
Trans05	2.581	3.054
macrophage_unactivated	1.764	0.947
IL1	0.359	1.02
Rapamycin	1.715	-2.584
Tcell	0.163	-1.118
GMCSF	3.369	0.671
IFNab	0.834	0.399
IFNg	0.198	1.2
IFNg_GMCSF1	2.02	0.085
Rv1432_day32	0.0	0.0
Rv1565c_day32	-0.082	-0.665
secA2_input	-1.832	-1.476
delta_Rv3594	1.825	3.009
delta_Rv3717	2.901	3.934
delta_Rv3811	3.004	3.069
delta_Rv0954	1.919	4.343
PonA1	-2.086	-0.159
EccD1_KO	-0.96	1.924
EspI_KO	-0.833	0.0
PE35_KO	-0.181	0.589
PPE68_KO	-1.808	-0.237
glycerol2	-1.115	-3.077
lignocerate	-1.801	-2.534
oleate	-0.474	-3.113
phosphatidylcholine	-1.039	-3.444
acetate	-3.125	-4.088
glucAc	-3.31	-2.542
Rv0950ko	0.211	0.289
Rv1096ko	1.306	0.561
Rv3684ko	0.861	0.314
delta_otsA_trehalose	-0.77	0.0