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 Rv3344c/PE_PGRS49

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

	Rv2591/PE_PGRS44	Rv3344c/PE_PGRS49
Fe_supp_jason_reseq	-1.695	-1.058
low_pH_jason_reseq	1.337	-1.604
NO_jason_reseq	0.562	-0.845
B6_jason_reseq	-0.712	-0.895
MHCII_jason_reseq	0.148	-0.171
Isoniazid02	0.017	1.292
Rifampicin4	0.983	0.948
Ethambutol3	0.687	2.134
Meropenem3	1.72	4.472
Vancomycin16	0.676	0.276
Rv2680_day32	-0.08	-0.261
H37Rv_KO_MarP	0.154	0.505
hypoxia_3wks	0.686	-0.933
hypoxia_6wks	-0.43	-1.357
glycerol	0.769	2.652
cholesterol	0.145	1.799
AJ	0.541	1.861
Bibs02	0.813	0.823
Bibs02c	0.453	2.53
BL6	0.112	-0.53
BL6a	0.769	1.121
BXD01	0.525	0.89
BXD010	0.013	-1.192
BXD011	0.485	-0.762
BXD03	0.082	0.459
BXD04	1.411	0.156
BXD05	0.38	-0.235
BXD06	0.207	-0.621
BXD07	0.606	0.388
BXD08	0.778	-0.111
BXD09	0.462	-0.386
CAST	-0.661	0.179
CCcont	0.41	-0.462
DS01	0.074	-0.488
DS02	0.11	0.113
DS04	-1.14	1.127
DS0c	-0.713	-0.52
GP01	1.257	0.754
GP02	0.952	0.963
GP0c	0.753	-0.841
NOD	-0.047	-0.322
NZO	1.081	0.344
PWK	0.357	-0.163
H37Rv_KO_CtpC	0.222	0.205
H37Rv_KO_CtpD	0.778	1.136
H37Rv_KO_Rv1272	0.1	2.135
H37Rv_KO_SugABC	0.248	0.101
H37Rv_KO_MbtN	0.603	1.843
Trans05	-0.114	0.964
macrophage_unactivated	0.205	-0.9
IL1	-0.703	-2.856
Rapamycin	0.058	-3.182
Tcell	-0.287	-3.138
GMCSF	-0.153	-1.127
IFNab	-0.617	-3.622
IFNg	0.126	-2.771
IFNg_GMCSF1	-0.606	-1.668
Rv1432_day32	0.484	1.031
Rv1565c_day32	0.698	-1.579
secA2_input	-0.75	0.02
delta_Rv3594	0.835	4.285
delta_Rv3717	1.13	2.782
delta_Rv3811	0.394	2.231
delta_Rv0954	-0.109	1.371
PonA1	0.053	2.185
EccD1_KO	0.658	0.132
EspI_KO	1.309	0.302
PE35_KO	-0.067	0.117
PPE68_KO	-0.182	0.064
glycerol2	0.314	1.078
lignocerate	-0.029	1.432
oleate	0.583	0.951
phosphatidylcholine	0.567	1.032
acetate	0.254	0.086
glucAc	-0.465	1.829
Rv0950ko	0.51	0.76
Rv1096ko	0.48	0.956
Rv3684ko	1.601	1.965
delta_otsA_trehalose	-0.591	0.654