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 Rv0935/pstC1:

update plot	correlation	link to info on gene
Rv3491/-	(cc=0.4838)	info on Rv3491/-
Rv3763/lpqH	(cc=0.4522)	info on Rv3763/lpqH
Rv2841c/nusA	(cc=0.4232)	info on Rv2841c/nusA
Rv1062/-	(cc=0.4183)	info on Rv1062/-
Rv2787/-	(cc=0.4127)	info on Rv2787/-
Rv0432/sodC	(cc=0.3953)	info on Rv0432/sodC
Rv3320c/vapC44	(cc=0.3941)	info on Rv3320c/vapC44
Rv0551c/fadD8	(cc=0.3865)	info on Rv0551c/fadD8
Rv3213c/-	(cc=0.3862)	info on Rv3213c/-
Rv0091/mtn	(cc=0.3804)	info on Rv0091/mtn

Correlation of Rv0935/pstC1 with Rv2787/-

Normalized LFCs for Rv0935/pstC1:
(description and provenance of datasets)

	Rv0935/pstC1	Rv2787/-
Fe_supp_jason_reseq	0.218	-0.892
low_pH_jason_reseq	-0.296	-0.196
NO_jason_reseq	0.641	0.144
B6_jason_reseq	-0.012	-0.077
MHCII_jason_reseq	-1.067	-0.3
Isoniazid02	-0.18	-0.741
Rifampicin4	-0.081	-0.309
Ethambutol3	-0.009	-0.112
Meropenem3	-0.344	0.406
Vancomycin16	0.231	-0.52
Rv2680_day32	0.829	-0.755
H37Rv_KO_MarP	0.353	0.351
hypoxia_3wks	0.195	-0.379
hypoxia_6wks	-0.061	0.058
glycerol	0.407	0.079
cholesterol	0.53	2.446
AJ	-0.218	0.16
Bibs02	-1.661	-0.408
Bibs02c	0.75	-0.029
BL6	0.376	-0.358
BL6a	0.908	0.069
BXD01	0.106	-0.214
BXD010	0.497	-0.211
BXD011	-0.203	-0.305
BXD03	0.278	0.233
BXD04	0.616	0.005
BXD05	0.253	0.053
BXD06	0.227	-0.132
BXD07	0.314	-0.156
BXD08	-0.094	-0.444
BXD09	0.087	-0.306
CAST	0.118	0.501
CCcont	0.401	-0.427
DS01	0.465	-0.098
DS02	0.474	-0.079
DS04	-0.618	0.503
DS0c	-0.306	-0.402
GP01	0.924	-0.324
GP02	0.022	0.386
GP0c	-0.405	0.551
NOD	-0.62	1.217
NZO	-0.075	0.053
PWK	-0.253	0.315
H37Rv_KO_CtpC	-0.061	-0.184
H37Rv_KO_CtpD	-0.478	0.57
H37Rv_KO_Rv1272	-0.399	0.006
H37Rv_KO_SugABC	-0.828	0.136
H37Rv_KO_MbtN	-0.826	-0.538
Trans05	-0.108	0.096
macrophage_unactivated	0.095	0.088
IL1	-0.905	-0.4
Rapamycin	-0.776	-0.414
Tcell	-0.57	-0.023
GMCSF	-0.766	-0.193
IFNab	-0.723	-0.336
IFNg	-0.048	-0.155
IFNg_GMCSF1	0.456	0.324
Rv1432_day32	-0.086	0.364
Rv1565c_day32	-0.856	-0.554
secA2_input	-0.069	-0.286
delta_Rv3594	0.927	1.453
delta_Rv3717	0.917	1.217
delta_Rv3811	0.543	1.1
delta_Rv0954	0.982	0.982
PonA1	0.224	0.974
EccD1_KO	-0.506	0.148
EspI_KO	-0.394	0.69
PE35_KO	-1.035	0.23
PPE68_KO	-0.573	0.31
glycerol2	0.607	0.723
lignocerate	0.749	0.505
oleate	0.218	0.759
phosphatidylcholine	0.606	0.888
acetate	0.731	0.497
glucAc	0.548	0.509
Rv0950ko	0.615	0.154
Rv1096ko	0.615	-0.28
Rv3684ko	1.159	0.144
delta_otsA_trehalose	2.255	2.807