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 Rv3636/-:

update plot	correlation	link to info on gene
Rv0446c/-	(cc=0.474)	info on Rv0446c/-
Rv0926c/-	(cc=0.4461)	info on Rv0926c/-
Rv0557/mgtA	(cc=0.4454)	info on Rv0557/mgtA
Rv3739c/PPE67	(cc=0.4134)	info on Rv3739c/PPE67
Rv0811c/-	(cc=0.4134)	info on Rv0811c/-
Rv1191/-	(cc=0.4036)	info on Rv1191/-
Rv3561/fadD3	(cc=0.4023)	info on Rv3561/fadD3
Rv3521/-	(cc=0.3937)	info on Rv3521/-
Rv0117/oxyS	(cc=0.3881)	info on Rv0117/oxyS
Rv3761c/fadE36	(cc=0.3846)	info on Rv3761c/fadE36

Correlation of Rv3636/- with Rv3521/-

Normalized LFCs for Rv3636/-:
(description and provenance of datasets)

	Rv3636/-	Rv3521/-
Fe_supp_jason_reseq	0.559	-0.287
low_pH_jason_reseq	-0.032	-0.927
NO_jason_reseq	1.391	0.339
B6_jason_reseq	0.093	-0.667
MHCII_jason_reseq	0.991	-0.091
Isoniazid02	0.288	-0.22
Rifampicin4	0.707	0.309
Ethambutol3	0.136	0.666
Meropenem3	1.744	-0.187
Vancomycin16	0.875	1.059
Rv2680_day32	-2.621	-0.058
H37Rv_KO_MarP	0.831	0.524
hypoxia_3wks	0.315	0.231
hypoxia_6wks	-0.453	-0.025
glycerol	1.059	0.159
cholesterol	-0.057	-0.219
AJ	0.977	0.578
Bibs02	-0.766	0.241
Bibs02c	-0.418	-0.147
BL6	-0.488	0.325
BL6a	-0.284	0.044
BXD01	0.873	0.424
BXD010	0.852	0.455
BXD011	0.591	0.736
BXD03	-0.509	0.672
BXD04	-0.012	0.272
BXD05	0.331	0.415
BXD06	0.349	0.342
BXD07	0.864	0.232
BXD08	0.585	1.005
BXD09	0.336	0.163
CAST	-0.232	0.142
CCcont	-0.231	-0.257
DS01	0.195	0.156
DS02	0.274	0.566
DS04	0.357	0.804
DS0c	-0.385	0.64
GP01	-0.386	-0.032
GP02	0.451	0.832
GP0c	0.798	0.296
NOD	-1.362	0.26
NZO	1.445	0.623
PWK	1.017	0.179
H37Rv_KO_CtpC	0.246	0.155
H37Rv_KO_CtpD	0.36	0.765
H37Rv_KO_Rv1272	0.909	1.102
H37Rv_KO_SugABC	0.206	0.614
H37Rv_KO_MbtN	0.407	-0.252
Trans05	1.694	0.759
macrophage_unactivated	-0.041	-0.331
IL1	0.62	0.561
Rapamycin	0.979	0.684
Tcell	0.492	0.283
GMCSF	0.301	0.354
IFNab	-0.248	0.166
IFNg	0.853	0.045
IFNg_GMCSF1	1.295	0.421
Rv1432_day32	-0.18	-0.005
Rv1565c_day32	0.329	0.172
secA2_input	-0.675	-0.041
delta_Rv3594	-1.104	0.194
delta_Rv3717	-0.106	0.167
delta_Rv3811	-0.462	0.106
delta_Rv0954	0.49	0.513
PonA1	-0.021	0.16
EccD1_KO	-0.335	0.234
EspI_KO	0.251	0.054
PE35_KO	0.172	-0.146
PPE68_KO	0.096	-0.048
glycerol2	0.097	-0.149
lignocerate	-0.077	-0.223
oleate	0.62	0.103
phosphatidylcholine	0.06	0.207
acetate	-0.432	-0.69
glucAc	-0.582	-0.429
Rv0950ko	0.938	0.32
Rv1096ko	2.129	0.365
Rv3684ko	1.634	0.763
delta_otsA_trehalose	-1.138	-0.673