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 Rv2168c/-:

update plot	correlation	link to info on gene
Rv0795/-	(cc=0.7923)	info on Rv0795/-
Rv3474/-	(cc=0.7919)	info on Rv3474/-
Rv2648/-	(cc=0.7747)	info on Rv2648/-
Rv2815c/-	(cc=0.7738)	info on Rv2815c/-
Rv1370c/-	(cc=0.7612)	info on Rv1370c/-
Rv3186/-	(cc=0.7157)	info on Rv3186/-
Rv2354/-	(cc=0.6987)	info on Rv2354/-
Rv2278/-	(cc=0.688)	info on Rv2278/-
Rv2279/-	(cc=0.6831)	info on Rv2279/-
Rv2480c/-	(cc=0.6827)	info on Rv2480c/-

Correlation of Rv2168c/- with Rv0795/-

Normalized LFCs for Rv2168c/-:
(description and provenance of datasets)

	Rv2168c/-	Rv0795/-
Fe_supp_jason_reseq	-0.051	0.079
low_pH_jason_reseq	1.444	1.603
NO_jason_reseq	-0.013	0.034
B6_jason_reseq	-1.036	-0.974
MHCII_jason_reseq	-0.973	-0.578
Isoniazid02	0.282	-0.073
Rifampicin4	0.923	0.452
Ethambutol3	1.436	1.229
Meropenem3	-0.268	-0.246
Vancomycin16	0.252	0.13
Rv2680_day32	-0.216	-0.092
H37Rv_KO_MarP	-0.209	-0.095
hypoxia_3wks	0.514	0.937
hypoxia_6wks	0.01	-0.115
glycerol	-0.671	-0.404
cholesterol	-0.082	0.035
AJ	1.565	1.106
Bibs02	-0.276	-0.136
Bibs02c	1.079	0.705
BL6	0.264	-0.471
BL6a	0.845	0.736
BXD01	0.676	0.484
BXD010	0.585	0.551
BXD011	0.813	0.895
BXD03	0.882	0.927
BXD04	0.485	0.223
BXD05	1.495	1.063
BXD06	0.678	0.417
BXD07	0.946	0.626
BXD08	0.417	0.323
BXD09	0.662	0.493
CAST	0.936	0.839
CCcont	0.006	-0.352
DS01	0.571	-0.068
DS02	0.742	0.339
DS04	0.475	-0.247
DS0c	0.693	0.338
GP01	1.292	1.127
GP02	1.348	1.331
GP0c	0.714	0.461
NOD	0.696	0.106
NZO	1.318	1.035
PWK	1.462	1.017
H37Rv_KO_CtpC	0.655	0.473
H37Rv_KO_CtpD	-0.017	0.223
H37Rv_KO_Rv1272	0.345	0.0
H37Rv_KO_SugABC	0.009	-0.054
H37Rv_KO_MbtN	0.98	0.953
Trans05	0.831	0.376
macrophage_unactivated	-0.032	-0.578
IL1	-0.015	-0.587
Rapamycin	-0.064	-0.166
Tcell	-0.362	-0.088
GMCSF	0.092	-0.18
IFNab	0.06	-0.883
IFNg	-0.283	0.053
IFNg_GMCSF1	0.079	0.493
Rv1432_day32	1.412	0.782
Rv1565c_day32	-1.019	-0.164
secA2_input	-0.058	-0.258
delta_Rv3594	0.219	-0.151
delta_Rv3717	-0.313	-0.172
delta_Rv3811	-0.706	-0.428
delta_Rv0954	0.066	0.182
PonA1	-0.487	-0.248
EccD1_KO	-0.391	-1.2
EspI_KO	0.576	-0.023
PE35_KO	0.411	0.671
PPE68_KO	-0.339	-0.576
glycerol2	-0.72	0.163
lignocerate	-0.326	0.15
oleate	-0.998	-0.401
phosphatidylcholine	-0.447	-0.053
acetate	0.554	1.593
glucAc	1.332	1.894
Rv0950ko	-0.13	0.543
Rv1096ko	0.434	0.875
Rv3684ko	0.491	-0.354
delta_otsA_trehalose	0.332	0.193