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 Rv1767/-

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

	Rv2591/PE_PGRS44	Rv1767/-
Fe_supp_jason_reseq	-1.695	0.039
low_pH_jason_reseq	1.337	-0.979
NO_jason_reseq	0.562	0.528
B6_jason_reseq	-0.712	-0.67
MHCII_jason_reseq	0.148	-0.553
Isoniazid02	0.017	0.207
Rifampicin4	0.983	0.236
Ethambutol3	0.687	0.753
Meropenem3	1.72	0.035
Vancomycin16	0.676	-0.162
Rv2680_day32	-0.08	-0.363
H37Rv_KO_MarP	0.154	0.113
hypoxia_3wks	0.686	-0.881
hypoxia_6wks	-0.43	-0.912
glycerol	0.769	0.949
cholesterol	0.145	-0.57
AJ	0.541	0.499
Bibs02	0.813	1.48
Bibs02c	0.453	-0.383
BL6	0.112	0.832
BL6a	0.769	0.426
BXD01	0.525	-0.108
BXD010	0.013	0.465
BXD011	0.485	1.117
BXD03	0.082	0.071
BXD04	1.411	-0.033
BXD05	0.38	0.602
BXD06	0.207	0.167
BXD07	0.606	0.394
BXD08	0.778	-0.258
BXD09	0.462	-0.051
CAST	-0.661	0.496
CCcont	0.41	-0.53
DS01	0.074	-0.587
DS02	0.11	0.706
DS04	-1.14	0.101
DS0c	-0.713	-1.216
GP01	1.257	0.268
GP02	0.952	2.154
GP0c	0.753	1.155
NOD	-0.047	0.368
NZO	1.081	0.737
PWK	0.357	-0.2
H37Rv_KO_CtpC	0.222	-0.315
H37Rv_KO_CtpD	0.778	-0.117
H37Rv_KO_Rv1272	0.1	0.748
H37Rv_KO_SugABC	0.248	-0.054
H37Rv_KO_MbtN	0.603	-0.019
Trans05	-0.114	0.592
macrophage_unactivated	0.205	0.385
IL1	-0.703	-0.558
Rapamycin	0.058	-0.184
Tcell	-0.287	-0.723
GMCSF	-0.153	0.026
IFNab	-0.617	-0.339
IFNg	0.126	-0.535
IFNg_GMCSF1	-0.606	0.06
Rv1432_day32	0.484	0.383
Rv1565c_day32	0.698	1.232
secA2_input	-0.75	-2.855
delta_Rv3594	0.835	1.638
delta_Rv3717	1.13	1.457
delta_Rv3811	0.394	2.045
delta_Rv0954	-0.109	1.659
PonA1	0.053	-0.95
EccD1_KO	0.658	0.109
EspI_KO	1.309	1.56
PE35_KO	-0.067	-0.516
PPE68_KO	-0.182	0.07
glycerol2	0.314	-1.211
lignocerate	-0.029	-0.408
oleate	0.583	-0.498
phosphatidylcholine	0.567	-0.424
acetate	0.254	0.166
glucAc	-0.465	-0.416
Rv0950ko	0.51	0.694
Rv1096ko	0.48	0.477
Rv3684ko	1.601	1.945
delta_otsA_trehalose	-0.591	-0.994