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 Rv0688/-:

update plot	correlation	link to info on gene
Rv0933/pstB	(cc=0.5353)	info on Rv0933/pstB
Rv0914c/-	(cc=0.5016)	info on Rv0914c/-
Rv3180c/-	(cc=0.4754)	info on Rv3180c/-
Rv3681c/whiB4	(cc=0.4722)	info on Rv3681c/whiB4
Rv2072c/cobL	(cc=0.4715)	info on Rv2072c/cobL
Rv1351/-	(cc=0.4602)	info on Rv1351/-
Rv1708/-	(cc=0.4517)	info on Rv1708/-
Rv1144/-	(cc=0.4339)	info on Rv1144/-
Rv0213c/-	(cc=0.4263)	info on Rv0213c/-
Rv3640c/-	(cc=0.4259)	info on Rv3640c/-

Correlation of Rv0688/- with Rv0933/pstB

Normalized LFCs for Rv0688/-:
(description and provenance of datasets)

	Rv0688/-	Rv0933/pstB
Fe_supp_jason_reseq	0.412	1.304
low_pH_jason_reseq	0.994	-0.704
NO_jason_reseq	0.625	-0.567
B6_jason_reseq	0.83	1.991
MHCII_jason_reseq	1.135	1.95
Isoniazid02	0.084	0.192
Rifampicin4	0.482	0.471
Ethambutol3	-0.495	0.096
Meropenem3	-0.379	0.12
Vancomycin16	0.443	0.324
Rv2680_day32	0.019	-0.236
H37Rv_KO_MarP	0.313	0.195
hypoxia_3wks	0.901	0.0
hypoxia_6wks	-0.115	0.0
glycerol	-0.881	-0.334
cholesterol	-0.545	0.345
AJ	-0.454	-0.121
Bibs02	0.058	0.672
Bibs02c	0.388	1.208
BL6	0.03	0.239
BL6a	-0.293	0.57
BXD01	0.082	-0.62
BXD010	0.061	-0.212
BXD011	0.118	-1.152
BXD03	-0.305	-0.644
BXD04	0.049	-0.448
BXD05	-0.09	0.762
BXD06	-0.314	-0.211
BXD07	-0.218	-0.775
BXD08	0.424	-0.061
BXD09	-0.777	-0.772
CAST	0.145	-0.23
CCcont	-0.221	-0.726
DS01	0.917	0.713
DS02	0.939	0.562
DS04	0.838	0.412
DS0c	0.731	0.757
GP01	-0.978	-1.824
GP02	-0.86	-1.343
GP0c	0.091	-0.686
NOD	0.757	0.43
NZO	-0.257	-0.214
PWK	0.24	0.929
H37Rv_KO_CtpC	-0.574	-0.233
H37Rv_KO_CtpD	-0.063	1.044
H37Rv_KO_Rv1272	0.704	0.137
H37Rv_KO_SugABC	0.603	0.883
H37Rv_KO_MbtN	-1.289	-1.467
Trans05	-0.022	0.073
macrophage_unactivated	0.047	1.193
IL1	-0.475	-1.792
Rapamycin	0.046	-0.74
Tcell	-0.469	1.443
GMCSF	-1.505	-0.916
IFNab	-0.973	-1.657
IFNg	-0.615	-0.454
IFNg_GMCSF1	-0.047	-0.578
Rv1432_day32	0.465	-0.609
Rv1565c_day32	-0.098	0.573
secA2_input	0.307	0.106
delta_Rv3594	-0.291	-0.031
delta_Rv3717	0.271	1.114
delta_Rv3811	0.913	-0.061
delta_Rv0954	-0.41	0.952
PonA1	0.335	0.581
EccD1_KO	0.286	-0.579
EspI_KO	0.328	0.793
PE35_KO	-0.414	-0.268
PPE68_KO	0.0	0.122
glycerol2	-0.014	0.706
lignocerate	-0.049	1.114
oleate	-0.189	0.563
phosphatidylcholine	0.28	0.613
acetate	0.186	1.119
glucAc	-0.301	1.134
Rv0950ko	0.193	0.467
Rv1096ko	0.555	0.534
Rv3684ko	0.413	-0.341
delta_otsA_trehalose	-1.343	-2.903