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 Rv0495c/-:

update plot	correlation	link to info on gene
Rv1471/trxB1	(cc=0.6096)	info on Rv1471/trxB1
Rv0519c/-	(cc=0.523)	info on Rv0519c/-
Rv1526c/-	(cc=0.5196)	info on Rv1526c/-
Rv2544/lppB	(cc=0.5136)	info on Rv2544/lppB
Rv1051c/-	(cc=0.4858)	info on Rv1051c/-
Rv0590A/-	(cc=0.4803)	info on Rv0590A/-
Rv1765A/-	(cc=0.4666)	info on Rv1765A/-
Rv0698/-	(cc=0.4555)	info on Rv0698/-
Rv1167c/-	(cc=0.4474)	info on Rv1167c/-
Rv3780/-	(cc=0.4326)	info on Rv3780/-

Correlation of Rv0495c/- with Rv0698/-

Normalized LFCs for Rv0495c/-:
(description and provenance of datasets)

	Rv0495c/-	Rv0698/-
Fe_supp_jason_reseq	-0.74	-2.327
low_pH_jason_reseq	-0.137	0.706
NO_jason_reseq	1.037	-0.155
B6_jason_reseq	-2.051	-2.577
MHCII_jason_reseq	-1.332	-1.035
Isoniazid02	1.336	-0.113
Rifampicin4	-1.974	0.39
Ethambutol3	-0.711	0.336
Meropenem3	-0.701	0.089
Vancomycin16	-1.738	0.0
Rv2680_day32	0.0	1.157
H37Rv_KO_MarP	0.841	0.313
hypoxia_3wks	-1.328	-0.921
hypoxia_6wks	0.171	-1.059
glycerol	2.951	0.192
cholesterol	-0.614	0.203
AJ	-0.983	-0.118
Bibs02	0.256	-0.775
Bibs02c	-1.049	-1.622
BL6	1.35	1.536
BL6a	0.936	-0.207
BXD01	0.44	0.911
BXD010	1.214	0.432
BXD011	1.258	0.233
BXD03	0.066	-0.069
BXD04	0.623	2.14
BXD05	0.871	0.835
BXD06	0.672	0.451
BXD07	0.82	1.134
BXD08	0.243	0.541
BXD09	1.303	-0.071
CAST	-0.117	-0.37
CCcont	2.323	2.126
DS01	0.0	0.527
DS02	-1.271	0.654
DS04	0.184	0.354
DS0c	0.484	0.809
GP01	-0.667	0.715
GP02	-0.645	-0.292
GP0c	-0.066	1.916
NOD	-0.361	1.57
NZO	-1.348	-0.321
PWK	1.269	0.274
H37Rv_KO_CtpC	1.051	-0.261
H37Rv_KO_CtpD	0.381	0.949
H37Rv_KO_Rv1272	2.828	0.315
H37Rv_KO_SugABC	-0.579	-0.669
H37Rv_KO_MbtN	-0.166	0.098
Trans05	-0.655	1.877
macrophage_unactivated	-1.016	0.133
IL1	0.0	-0.128
Rapamycin	0.641	-0.132
Tcell	-0.671	0.521
GMCSF	-0.449	-1.172
IFNab	0.281	0.248
IFNg	0.484	-0.355
IFNg_GMCSF1	-0.101	-0.135
Rv1432_day32	0.0	0.0
Rv1565c_day32	-0.096	0.45
secA2_input	-2.246	-2.719
delta_Rv3594	0.753	-0.922
delta_Rv3717	-0.087	-2.231
delta_Rv3811	-0.068	-0.107
delta_Rv0954	0.393	-0.142
PonA1	0.71	-1.196
EccD1_KO	-0.079	-2.144
EspI_KO	-0.987	-0.827
PE35_KO	-0.753	-0.128
PPE68_KO	-0.736	-0.141
glycerol2	-0.228	2.221
lignocerate	0.442	2.498
oleate	-1.569	-0.688
phosphatidylcholine	-0.073	2.359
acetate	2.956	3.41
glucAc	3.04	2.902
Rv0950ko	-1.306	-0.256
Rv1096ko	0.67	-0.528
Rv3684ko	-1.3	-0.888
delta_otsA_trehalose	-0.443	1.38