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 Rv2841c/nusA

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

	Rv0935/pstC1	Rv2841c/nusA
Fe_supp_jason_reseq	0.218	0.0
low_pH_jason_reseq	-0.296	0.0
NO_jason_reseq	0.641	0.0
B6_jason_reseq	-0.012	0.0
MHCII_jason_reseq	-1.067	0.0
Isoniazid02	-0.18	-0.201
Rifampicin4	-0.081	0.0
Ethambutol3	-0.009	0.423
Meropenem3	-0.344	-0.165
Vancomycin16	0.231	0.0
Rv2680_day32	0.829	0.0
H37Rv_KO_MarP	0.353	0.0
hypoxia_3wks	0.195	0.0
hypoxia_6wks	-0.061	0.0
glycerol	0.407	0.202
cholesterol	0.53	0.509
AJ	-0.218	0.0
Bibs02	-1.661	0.0
Bibs02c	0.75	0.0
BL6	0.376	0.0
BL6a	0.908	0.0
BXD01	0.106	0.0
BXD010	0.497	0.0
BXD011	-0.203	0.0
BXD03	0.278	0.0
BXD04	0.616	0.0
BXD05	0.253	0.0
BXD06	0.227	0.0
BXD07	0.314	0.0
BXD08	-0.094	0.0
BXD09	0.087	0.0
CAST	0.118	0.439
CCcont	0.401	0.0
DS01	0.465	0.83
DS02	0.474	0.0
DS04	-0.618	0.0
DS0c	-0.306	0.0
GP01	0.924	0.0
GP02	0.022	0.0
GP0c	-0.405	0.0
NOD	-0.62	0.225
NZO	-0.075	0.0
PWK	-0.253	0.0
H37Rv_KO_CtpC	-0.061	0.571
H37Rv_KO_CtpD	-0.478	0.0
H37Rv_KO_Rv1272	-0.399	0.0
H37Rv_KO_SugABC	-0.828	0.0
H37Rv_KO_MbtN	-0.826	0.103
Trans05	-0.108	0.131
macrophage_unactivated	0.095	-2.14
IL1	-0.905	-2.011
Rapamycin	-0.776	-2.081
Tcell	-0.57	-2.209
GMCSF	-0.766	-1.79
IFNab	-0.723	-2.05
IFNg	-0.048	-1.812
IFNg_GMCSF1	0.456	-2.13
Rv1432_day32	-0.086	-1.124
Rv1565c_day32	-0.856	0.0
secA2_input	-0.069	-0.216
delta_Rv3594	0.927	0.742
delta_Rv3717	0.917	0.736
delta_Rv3811	0.543	1.261
delta_Rv0954	0.982	0.178
PonA1	0.224	0.0
EccD1_KO	-0.506	-0.595
EspI_KO	-0.394	-0.799
PE35_KO	-1.035	-0.817
PPE68_KO	-0.573	-0.896
glycerol2	0.607	0.0
lignocerate	0.749	0.0
oleate	0.218	0.0
phosphatidylcholine	0.606	0.0
acetate	0.731	0.0
glucAc	0.548	0.0
Rv0950ko	0.615	0.727
Rv1096ko	0.615	0.727
Rv3684ko	1.159	1.772
delta_otsA_trehalose	2.255	0.133