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 Rv1214c/PE14

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

	Rv2591/PE_PGRS44	Rv1214c/PE14
Fe_supp_jason_reseq	-1.695	-2.428
low_pH_jason_reseq	1.337	1.193
NO_jason_reseq	0.562	0.543
B6_jason_reseq	-0.712	-2.183
MHCII_jason_reseq	0.148	-0.883
Isoniazid02	0.017	0.047
Rifampicin4	0.983	0.087
Ethambutol3	0.687	-0.672
Meropenem3	1.72	-0.624
Vancomycin16	0.676	-0.058
Rv2680_day32	-0.08	-0.428
H37Rv_KO_MarP	0.154	0.301
hypoxia_3wks	0.686	-0.498
hypoxia_6wks	-0.43	-1.013
glycerol	0.769	0.894
cholesterol	0.145	0.143
AJ	0.541	0.568
Bibs02	0.813	0.481
Bibs02c	0.453	-0.482
BL6	0.112	-0.169
BL6a	0.769	0.657
BXD01	0.525	0.432
BXD010	0.013	-0.649
BXD011	0.485	1.048
BXD03	0.082	0.678
BXD04	1.411	0.014
BXD05	0.38	-0.047
BXD06	0.207	0.831
BXD07	0.606	0.459
BXD08	0.778	0.145
BXD09	0.462	0.305
CAST	-0.661	-0.666
CCcont	0.41	0.557
DS01	0.074	-0.51
DS02	0.11	-0.265
DS04	-1.14	0.492
DS0c	-0.713	0.646
GP01	1.257	0.979
GP02	0.952	0.31
GP0c	0.753	-0.396
NOD	-0.047	1.907
NZO	1.081	0.217
PWK	0.357	0.173
H37Rv_KO_CtpC	0.222	0.194
H37Rv_KO_CtpD	0.778	1.375
H37Rv_KO_Rv1272	0.1	1.603
H37Rv_KO_SugABC	0.248	-1.569
H37Rv_KO_MbtN	0.603	-0.33
Trans05	-0.114	-0.992
macrophage_unactivated	0.205	-0.044
IL1	-0.703	-1.097
Rapamycin	0.058	-0.875
Tcell	-0.287	-0.323
GMCSF	-0.153	-0.797
IFNab	-0.617	-1.509
IFNg	0.126	-0.853
IFNg_GMCSF1	-0.606	-1.332
Rv1432_day32	0.484	0.287
Rv1565c_day32	0.698	0.0
secA2_input	-0.75	-2.232
delta_Rv3594	0.835	1.597
delta_Rv3717	1.13	0.398
delta_Rv3811	0.394	1.105
delta_Rv0954	-0.109	0.556
PonA1	0.053	0.252
EccD1_KO	0.658	0.562
EspI_KO	1.309	1.965
PE35_KO	-0.067	1.692
PPE68_KO	-0.182	0.704
glycerol2	0.314	-0.587
lignocerate	-0.029	0.007
oleate	0.583	-0.461
phosphatidylcholine	0.567	-0.282
acetate	0.254	-0.738
glucAc	-0.465	-0.103
Rv0950ko	0.51	-0.482
Rv1096ko	0.48	-0.036
Rv3684ko	1.601	-0.396
delta_otsA_trehalose	-0.591	-1.106