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 Rv1977/-:

update plot	correlation	link to info on gene
Rv2961/-	(cc=0.4584)	info on Rv2961/-
Rv2329c/narK1	(cc=0.4524)	info on Rv2329c/narK1
Rv2327/-	(cc=0.4454)	info on Rv2327/-
Rv3135/PPE50	(cc=0.4136)	info on Rv3135/PPE50
Rv1030/kdpB	(cc=0.4133)	info on Rv1030/kdpB
Rv2627c/-	(cc=0.3919)	info on Rv2627c/-
Rv2018/-	(cc=0.3851)	info on Rv2018/-
Rv1132/-	(cc=0.3846)	info on Rv1132/-
Rv1185c/fadD21	(cc=0.3805)	info on Rv1185c/fadD21
Rv0071/-	(cc=0.3792)	info on Rv0071/-

Correlation of Rv1977/- with Rv2961/-

Normalized LFCs for Rv1977/-:
(description and provenance of datasets)

	Rv1977/-	Rv2961/-
Fe_supp_jason_reseq	0.316	-0.088
low_pH_jason_reseq	0.027	-0.204
NO_jason_reseq	0.281	0.037
B6_jason_reseq	0.913	0.626
MHCII_jason_reseq	1.289	0.153
Isoniazid02	-0.221	-0.454
Rifampicin4	-0.046	-0.019
Ethambutol3	0.444	-0.338
Meropenem3	0.232	-0.333
Vancomycin16	-0.287	0.297
Rv2680_day32	2.328	0.793
H37Rv_KO_MarP	-0.085	0.618
hypoxia_3wks	-0.152	-0.175
hypoxia_6wks	-0.568	-0.127
glycerol	0.477	-0.61
cholesterol	0.184	-0.165
AJ	-0.018	1.486
Bibs02	0.564	0.706
Bibs02c	-0.061	0.49
BL6	0.108	-0.535
BL6a	-0.564	0.016
BXD01	-0.316	-0.159
BXD010	-0.075	0.373
BXD011	0.11	0.081
BXD03	-0.4	-0.964
BXD04	-0.521	-0.473
BXD05	-0.535	-0.261
BXD06	-0.096	-0.541
BXD07	-0.372	-0.269
BXD08	-0.497	0.68
BXD09	-0.21	-0.576
CAST	0.199	0.801
CCcont	-0.141	-0.354
DS01	-0.058	-0.065
DS02	0.137	0.688
DS04	0.308	0.79
DS0c	0.596	0.848
GP01	-0.723	-0.313
GP02	-0.237	0.174
GP0c	-0.525	-0.733
NOD	0.53	-0.345
NZO	0.231	-0.111
PWK	-0.406	-0.182
H37Rv_KO_CtpC	0.14	-0.612
H37Rv_KO_CtpD	0.674	-0.096
H37Rv_KO_Rv1272	0.127	-0.571
H37Rv_KO_SugABC	-0.43	-0.412
H37Rv_KO_MbtN	0.108	-0.205
Trans05	-0.559	-1.035
macrophage_unactivated	0.398	0.597
IL1	1.528	0.306
Rapamycin	0.813	-0.196
Tcell	0.642	-0.147
GMCSF	0.114	1.494
IFNab	0.538	0.75
IFNg	0.82	0.518
IFNg_GMCSF1	0.814	0.61
Rv1432_day32	2.198	2.322
Rv1565c_day32	0.218	0.668
secA2_input	-0.982	-0.687
delta_Rv3594	0.193	-0.479
delta_Rv3717	0.604	-0.953
delta_Rv3811	0.549	-1.02
delta_Rv0954	0.258	-0.353
PonA1	0.287	0.222
EccD1_KO	-0.122	1.006
EspI_KO	0.202	0.856
PE35_KO	-0.128	0.706
PPE68_KO	0.022	0.403
glycerol2	0.723	0.894
lignocerate	0.303	0.387
oleate	0.184	1.106
phosphatidylcholine	0.342	0.606
acetate	0.71	-0.238
glucAc	-0.062	-0.352
Rv0950ko	-0.648	-0.166
Rv1096ko	-0.446	-0.151
Rv3684ko	-0.301	-0.963
delta_otsA_trehalose	-0.879	-1.814