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 Rv2591/PE_PGRS44:

update plot	correlation	link to info on gene
Rv1191/-	(cc=0.4738)	info on Rv1191/-
Rv1214c/PE14	(cc=0.4558)	info on Rv1214c/PE14
Rv3446c/-	(cc=0.4558)	info on Rv3446c/-
Rv0833/PE_PGRS13	(cc=0.43)	info on Rv0833/PE_PGRS13
Rv1767/-	(cc=0.4242)	info on Rv1767/-
Rv2183c/-	(cc=0.4208)	info on Rv2183c/-
Rv3555c/-	(cc=0.4069)	info on Rv3555c/-
Rv2870c/dxr	(cc=0.4011)	info on Rv2870c/dxr
Rv3713/cobQ2	(cc=0.4001)	info on Rv3713/cobQ2
Rv3344c/PE_PGRS49	(cc=0.3987)	info on Rv3344c/PE_PGRS49

Correlation of Rv2591/PE_PGRS44 with Rv2870c/dxr

Normalized LFCs for Rv2591/PE_PGRS44:
(description and provenance of datasets)

	Rv2591/PE_PGRS44	Rv2870c/dxr
Fe_supp_jason_reseq	-1.695	-1.506
low_pH_jason_reseq	1.337	0.952
NO_jason_reseq	0.562	-0.522
B6_jason_reseq	-0.712	1.953
MHCII_jason_reseq	0.148	-0.194
Isoniazid02	0.017	0.0
Rifampicin4	0.983	0.49
Ethambutol3	0.687	0.505
Meropenem3	1.72	0.217
Vancomycin16	0.676	0.48
Rv2680_day32	-0.08	0.0
H37Rv_KO_MarP	0.154	-0.401
hypoxia_3wks	0.686	0.287
hypoxia_6wks	-0.43	0.077
glycerol	0.769	-0.385
cholesterol	0.145	0.497
AJ	0.541	-0.983
Bibs02	0.813	0.739
Bibs02c	0.453	-0.979
BL6	0.112	-0.768
BL6a	0.769	-0.927
BXD01	0.525	0.845
BXD010	0.013	-1.471
BXD011	0.485	0.14
BXD03	0.082	-0.695
BXD04	1.411	1.032
BXD05	0.38	-1.231
BXD06	0.207	-0.566
BXD07	0.606	0.475
BXD08	0.778	0.512
BXD09	0.462	-0.863
CAST	-0.661	-2.274
CCcont	0.41	-1.266
DS01	0.074	0.659
DS02	0.11	0.922
DS04	-1.14	-0.177
DS0c	-0.713	0.0
GP01	1.257	0.275
GP02	0.952	-0.885
GP0c	0.753	1.347
NOD	-0.047	-1.761
NZO	1.081	-0.246
PWK	0.357	-0.058
H37Rv_KO_CtpC	0.222	-2.175
H37Rv_KO_CtpD	0.778	-0.286
H37Rv_KO_Rv1272	0.1	-0.424
H37Rv_KO_SugABC	0.248	-1.054
H37Rv_KO_MbtN	0.603	0.03
Trans05	-0.114	-1.024
macrophage_unactivated	0.205	-1.25
IL1	-0.703	-2.797
Rapamycin	0.058	-2.262
Tcell	-0.287	-0.6
GMCSF	-0.153	0.15
IFNab	-0.617	-0.973
IFNg	0.126	-1.486
IFNg_GMCSF1	-0.606	-0.792
Rv1432_day32	0.484	0.0
Rv1565c_day32	0.698	0.381
secA2_input	-0.75	0.11
delta_Rv3594	0.835	-0.197
delta_Rv3717	1.13	0.101
delta_Rv3811	0.394	-0.479
delta_Rv0954	-0.109	-0.627
PonA1	0.053	-0.773
EccD1_KO	0.658	0.23
EspI_KO	1.309	0.576
PE35_KO	-0.067	-0.443
PPE68_KO	-0.182	0.841
glycerol2	0.314	-0.191
lignocerate	-0.029	-1.173
oleate	0.583	0.569
phosphatidylcholine	0.567	-0.338
acetate	0.254	-1.373
glucAc	-0.465	-2.272
Rv0950ko	0.51	0.458
Rv1096ko	0.48	1.43
Rv3684ko	1.601	2.086
delta_otsA_trehalose	-0.591	0.654