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 Rv3231c/-:

update plot	correlation	link to info on gene
Rv3767c/-	(cc=0.4502)	info on Rv3767c/-
Rv3033/-	(cc=0.4488)	info on Rv3033/-
Rv2127/ansP1	(cc=0.4317)	info on Rv2127/ansP1
Rv2389c/rpfD	(cc=0.4294)	info on Rv2389c/rpfD
Rv2113/-	(cc=0.4104)	info on Rv2113/-
Rv1875/-	(cc=0.4025)	info on Rv1875/-
Rv0251c/hsp	(cc=0.3941)	info on Rv0251c/hsp
Rv3685c/cyp137	(cc=0.3894)	info on Rv3685c/cyp137
Rv2129c/-	(cc=0.3867)	info on Rv2129c/-
Rv3390/lpqD	(cc=0.3861)	info on Rv3390/lpqD

Correlation of Rv3231c/- with Rv2113/-

Normalized LFCs for Rv3231c/-:
(description and provenance of datasets)

	Rv3231c/-	Rv2113/-
Fe_supp_jason_reseq	-0.062	0.922
low_pH_jason_reseq	-1.261	-1.379
NO_jason_reseq	-1.347	-0.559
B6_jason_reseq	-0.766	-1.249
MHCII_jason_reseq	-0.773	-0.531
Isoniazid02	0.153	-1.043
Rifampicin4	-0.016	0.406
Ethambutol3	0.229	0.657
Meropenem3	0.948	-0.462
Vancomycin16	0.22	-0.231
Rv2680_day32	0.878	-0.825
H37Rv_KO_MarP	0.121	0.159
hypoxia_3wks	0.0	-0.012
hypoxia_6wks	-1.213	-0.568
glycerol	-0.5	0.237
cholesterol	-0.921	-0.405
AJ	-0.16	0.356
Bibs02	0.698	-0.372
Bibs02c	-0.45	-0.209
BL6	0.271	0.418
BL6a	-0.415	0.169
BXD01	-0.374	-0.106
BXD010	-0.523	-0.113
BXD011	0.664	0.753
BXD03	0.438	0.123
BXD04	1.026	-0.166
BXD05	0.125	0.301
BXD06	0.186	0.224
BXD07	-0.198	0.171
BXD08	0.316	0.265
BXD09	0.137	0.103
CAST	-0.072	-0.828
CCcont	-0.727	0.169
DS01	-0.775	-0.335
DS02	0.109	0.098
DS04	0.606	-0.218
DS0c	0.201	0.11
GP01	-1.246	0.072
GP02	-1.696	-0.087
GP0c	-0.365	0.142
NOD	-1.022	-0.404
NZO	-1.072	-0.604
PWK	-0.644	-0.409
H37Rv_KO_CtpC	0.857	0.148
H37Rv_KO_CtpD	0.419	0.72
H37Rv_KO_Rv1272	1.227	0.551
H37Rv_KO_SugABC	0.385	1.132
H37Rv_KO_MbtN	-0.608	0.42
Trans05	0.957	0.939
macrophage_unactivated	1.351	1.143
IL1	0.801	2.886
Rapamycin	1.096	3.167
Tcell	-0.71	-6.0
GMCSF	1.143	2.756
IFNab	0.732	2.663
IFNg	0.615	2.905
IFNg_GMCSF1	0.248	2.963
Rv1432_day32	2.394	0.322
Rv1565c_day32	0.723	1.531
secA2_input	0.828	0.128
delta_Rv3594	1.06	-0.337
delta_Rv3717	-0.286	-0.154
delta_Rv3811	0.729	-0.312
delta_Rv0954	0.213	0.181
PonA1	1.182	-0.268
EccD1_KO	-0.506	0.148
EspI_KO	0.311	0.222
PE35_KO	-0.493	-0.286
PPE68_KO	-0.928	-0.147
glycerol2	0.531	0.894
lignocerate	-0.245	0.616
oleate	1.713	1.331
phosphatidylcholine	0.352	0.999
acetate	-0.048	0.342
glucAc	-1.524	-0.082
Rv0950ko	-0.452	0.25
Rv1096ko	0.347	-0.13
Rv3684ko	0.265	-0.233
delta_otsA_trehalose	2.083	0.537