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 Rv3446c/-

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

	Rv2591/PE_PGRS44	Rv3446c/-
Fe_supp_jason_reseq	-1.695	-0.393
low_pH_jason_reseq	1.337	3.503
NO_jason_reseq	0.562	-0.412
B6_jason_reseq	-0.712	-0.747
MHCII_jason_reseq	0.148	-0.257
Isoniazid02	0.017	0.081
Rifampicin4	0.983	-0.157
Ethambutol3	0.687	0.0
Meropenem3	1.72	1.33
Vancomycin16	0.676	0.292
Rv2680_day32	-0.08	-0.803
H37Rv_KO_MarP	0.154	0.45
hypoxia_3wks	0.686	-0.538
hypoxia_6wks	-0.43	-0.816
glycerol	0.769	-0.123
cholesterol	0.145	-0.222
AJ	0.541	-0.771
Bibs02	0.813	-0.066
Bibs02c	0.453	0.488
BL6	0.112	0.014
BL6a	0.769	0.023
BXD01	0.525	-0.063
BXD010	0.013	-0.145
BXD011	0.485	-0.445
BXD03	0.082	1.195
BXD04	1.411	-0.06
BXD05	0.38	-0.049
BXD06	0.207	-0.048
BXD07	0.606	0.448
BXD08	0.778	-0.081
BXD09	0.462	-0.034
CAST	-0.661	-0.385
CCcont	0.41	0.0
DS01	0.074	0.188
DS02	0.11	-0.189
DS04	-1.14	0.112
DS0c	-0.713	-1.193
GP01	1.257	0.0
GP02	0.952	-0.708
GP0c	0.753	0.398
NOD	-0.047	0.155
NZO	1.081	-0.199
PWK	0.357	0.401
H37Rv_KO_CtpC	0.222	0.165
H37Rv_KO_CtpD	0.778	0.432
H37Rv_KO_Rv1272	0.1	-0.016
H37Rv_KO_SugABC	0.248	-1.114
H37Rv_KO_MbtN	0.603	-0.202
Trans05	-0.114	-1.381
macrophage_unactivated	0.205	-0.054
IL1	-0.703	-1.916
Rapamycin	0.058	-1.823
Tcell	-0.287	0.72
GMCSF	-0.153	-1.149
IFNab	-0.617	-1.796
IFNg	0.126	-1.384
IFNg_GMCSF1	-0.606	-1.904
Rv1432_day32	0.484	0.072
Rv1565c_day32	0.698	0.711
secA2_input	-0.75	-0.7
delta_Rv3594	0.835	0.133
delta_Rv3717	1.13	0.312
delta_Rv3811	0.394	0.906
delta_Rv0954	-0.109	0.49
PonA1	0.053	0.944
EccD1_KO	0.658	0.352
EspI_KO	1.309	-0.687
PE35_KO	-0.067	-0.948
PPE68_KO	-0.182	-0.669
glycerol2	0.314	0.057
lignocerate	-0.029	0.362
oleate	0.583	-0.06
phosphatidylcholine	0.567	0.14
acetate	0.254	0.229
glucAc	-0.465	0.289
Rv0950ko	0.51	0.431
Rv1096ko	0.48	0.727
Rv3684ko	1.601	0.684
delta_otsA_trehalose	-0.591	-1.129