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 Rv2282c/-:

update plot	correlation	link to info on gene
Rv1541c/lprI	(cc=0.5791)	info on Rv1541c/lprI
Rv1052/-	(cc=0.5667)	info on Rv1052/-
Rv0914c/-	(cc=0.5661)	info on Rv0914c/-
Rv1708/-	(cc=0.5444)	info on Rv1708/-
Rv1291c/-	(cc=0.5432)	info on Rv1291c/-
Rv2515c/-	(cc=0.5427)	info on Rv2515c/-
Rv1182/papA3	(cc=0.5419)	info on Rv1182/papA3
Rv1514c/-	(cc=0.5402)	info on Rv1514c/-
Rv1250/-	(cc=0.5371)	info on Rv1250/-
Rv1251c/-	(cc=0.5223)	info on Rv1251c/-

Correlation of Rv2282c/- with Rv1052/-

Normalized LFCs for Rv2282c/-:
(description and provenance of datasets)

	Rv2282c/-	Rv1052/-
Fe_supp_jason_reseq	-0.358	0.343
low_pH_jason_reseq	-0.102	-0.637
NO_jason_reseq	0.515	-0.121
B6_jason_reseq	2.098	0.868
MHCII_jason_reseq	1.597	0.179
Isoniazid02	0.629	-0.361
Rifampicin4	0.834	-0.401
Ethambutol3	0.375	-0.21
Meropenem3	0.132	-0.093
Vancomycin16	0.669	0.058
Rv2680_day32	-0.683	-0.496
H37Rv_KO_MarP	-0.364	-1.357
hypoxia_3wks	0.482	-0.331
hypoxia_6wks	0.253	-0.207
glycerol	-1.336	-0.886
cholesterol	-0.545	-0.311
AJ	-0.632	-0.187
Bibs02	-0.233	-0.314
Bibs02c	0.0	-0.006
BL6	-1.812	-2.242
BL6a	-0.839	-0.286
BXD01	-0.686	-1.359
BXD010	-1.313	-2.406
BXD011	-0.603	-1.808
BXD03	-1.237	-1.037
BXD04	-1.268	-1.3
BXD05	-0.661	-1.279
BXD06	-1.121	-0.726
BXD07	-0.888	-0.892
BXD08	-0.17	-1.062
BXD09	-1.249	-1.444
CAST	1.074	-0.888
CCcont	-1.715	-2.068
DS01	0.467	-0.315
DS02	-0.072	-0.358
DS04	1.373	0.107
DS0c	-0.357	0.119
GP01	-0.673	-0.63
GP02	-1.614	-0.638
GP0c	-1.493	-1.955
NOD	0.711	-0.67
NZO	-0.718	-1.065
PWK	0.021	0.728
H37Rv_KO_CtpC	-0.353	-0.301
H37Rv_KO_CtpD	-1.414	-3.087
H37Rv_KO_Rv1272	0.329	-1.437
H37Rv_KO_SugABC	-1.574	-0.163
H37Rv_KO_MbtN	-1.999	-0.202
Trans05	-0.811	-1.825
macrophage_unactivated	-0.35	-0.259
IL1	-0.593	-1.599
Rapamycin	-2.179	-1.654
Tcell	-0.176	-1.424
GMCSF	0.647	-1.832
IFNab	-0.795	-0.178
IFNg	-0.374	-1.302
IFNg_GMCSF1	-0.258	-0.688
Rv1432_day32	-0.164	-0.548
Rv1565c_day32	0.924	0.52
secA2_input	-2.677	-1.961
delta_Rv3594	0.205	-0.078
delta_Rv3717	-0.287	-0.966
delta_Rv3811	-0.164	-0.671
delta_Rv0954	-0.349	-0.357
PonA1	0.192	-0.651
EccD1_KO	0.595	0.72
EspI_KO	0.973	-0.18
PE35_KO	2.395	0.05
PPE68_KO	2.265	0.602
glycerol2	-0.731	-0.373
lignocerate	-0.13	0.661
oleate	-0.074	0.023
phosphatidylcholine	-0.354	-0.056
acetate	0.394	-1.278
glucAc	0.103	-0.625
Rv0950ko	-1.188	0.045
Rv1096ko	0.856	0.196
Rv3684ko	0.298	1.657
delta_otsA_trehalose	-1.239	-2.447