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 Rv0795/-:

update plot	correlation	link to info on gene
Rv3474/-	(cc=0.801)	info on Rv3474/-
Rv1370c/-	(cc=0.7932)	info on Rv1370c/-
Rv2168c/-	(cc=0.7923)	info on Rv2168c/-
Rv3381c/-	(cc=0.7273)	info on Rv3381c/-
Rv2648/-	(cc=0.7007)	info on Rv2648/-
Rv2815c/-	(cc=0.6988)	info on Rv2815c/-
Rv3186/-	(cc=0.6748)	info on Rv3186/-
Rv2278/-	(cc=0.6641)	info on Rv2278/-
Rv2354/-	(cc=0.6641)	info on Rv2354/-
Rv2480c/-	(cc=0.6605)	info on Rv2480c/-

Correlation of Rv0795/- with Rv2354/-

Normalized LFCs for Rv0795/-:
(description and provenance of datasets)

	Rv0795/-	Rv2354/-
Fe_supp_jason_reseq	0.079	0.101
low_pH_jason_reseq	1.603	0.253
NO_jason_reseq	0.034	-0.677
B6_jason_reseq	-0.974	-0.598
MHCII_jason_reseq	-0.578	-0.764
Isoniazid02	-0.073	-0.639
Rifampicin4	0.452	0.081
Ethambutol3	1.229	1.43
Meropenem3	-0.246	-0.757
Vancomycin16	0.13	-0.554
Rv2680_day32	-0.092	-0.557
H37Rv_KO_MarP	-0.095	-0.209
hypoxia_3wks	0.937	1.045
hypoxia_6wks	-0.115	0.305
glycerol	-0.404	-0.471
cholesterol	0.035	0.148
AJ	1.106	1.146
Bibs02	-0.136	-0.106
Bibs02c	0.705	0.635
BL6	-0.471	0.11
BL6a	0.736	0.352
BXD01	0.484	0.22
BXD010	0.551	1.166
BXD011	0.895	0.712
BXD03	0.927	0.682
BXD04	0.223	0.375
BXD05	1.063	0.957
BXD06	0.417	0.777
BXD07	0.626	0.461
BXD08	0.323	0.623
BXD09	0.493	0.593
CAST	0.839	0.776
CCcont	-0.352	0.436
DS01	-0.068	0.229
DS02	0.339	0.66
DS04	-0.247	0.188
DS0c	0.338	0.825
GP01	1.127	0.99
GP02	1.331	1.345
GP0c	0.461	0.447
NOD	0.106	1.209
NZO	1.035	0.842
PWK	1.017	1.329
H37Rv_KO_CtpC	0.473	1.003
H37Rv_KO_CtpD	0.223	-0.165
H37Rv_KO_Rv1272	0.0	0.67
H37Rv_KO_SugABC	-0.054	0.471
H37Rv_KO_MbtN	0.953	1.276
Trans05	0.376	0.65
macrophage_unactivated	-0.578	0.29
IL1	-0.587	-0.567
Rapamycin	-0.166	0.046
Tcell	-0.088	-0.551
GMCSF	-0.18	-0.932
IFNab	-0.883	-0.169
IFNg	0.053	-0.246
IFNg_GMCSF1	0.493	-0.427
Rv1432_day32	0.782	1.052
Rv1565c_day32	-0.164	0.676
secA2_input	-0.258	-0.531
delta_Rv3594	-0.151	0.468
delta_Rv3717	-0.172	-0.199
delta_Rv3811	-0.428	-0.424
delta_Rv0954	0.182	0.814
PonA1	-0.248	-0.282
EccD1_KO	-1.2	0.556
EspI_KO	-0.023	0.445
PE35_KO	0.671	0.216
PPE68_KO	-0.576	0.672
glycerol2	0.163	-0.043
lignocerate	0.15	-0.063
oleate	-0.401	-0.513
phosphatidylcholine	-0.053	-0.102
acetate	1.593	1.066
glucAc	1.894	1.766
Rv0950ko	0.543	0.838
Rv1096ko	0.875	0.226
Rv3684ko	-0.354	-0.036
delta_otsA_trehalose	0.193	-0.206