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 Rv2908c/-:

update plot	correlation	link to info on gene
Rv0537c/-	(cc=0.5459)	info on Rv0537c/-
Rv0538/-	(cc=0.4889)	info on Rv0538/-
Rv3060c/-	(cc=0.4787)	info on Rv3060c/-
Rv1178/-	(cc=0.4766)	info on Rv1178/-
Rv0062/celA1	(cc=0.4757)	info on Rv0062/celA1
Rv3075c/-	(cc=0.4744)	info on Rv3075c/-
Rv1081c/-	(cc=0.4638)	info on Rv1081c/-
Rv2506/-	(cc=0.4594)	info on Rv2506/-
Rv3067/-	(cc=0.4353)	info on Rv3067/-
Rv2091c/-	(cc=0.433)	info on Rv2091c/-

Correlation of Rv2908c/- with Rv2506/-

Normalized LFCs for Rv2908c/-:
(description and provenance of datasets)

	Rv2908c/-	Rv2506/-
Fe_supp_jason_reseq	0.0	0.257
low_pH_jason_reseq	0.0	-1.241
NO_jason_reseq	0.0	-0.299
B6_jason_reseq	0.0	-1.395
MHCII_jason_reseq	0.0	-2.083
Isoniazid02	0.0	0.106
Rifampicin4	0.374	0.263
Ethambutol3	2.247	4.373
Meropenem3	0.165	-0.207
Vancomycin16	0.0	0.194
Rv2680_day32	0.0	-2.588
H37Rv_KO_MarP	2.492	0.518
hypoxia_3wks	0.0	-2.261
hypoxia_6wks	0.0	-1.297
glycerol	0.0	-0.819
cholesterol	0.145	-3.208
AJ	0.0	-1.338
Bibs02	0.0	-1.705
Bibs02c	0.0	-2.736
BL6	0.0	-3.4
BL6a	0.0	-2.834
BXD01	0.0	-2.884
BXD010	0.0	-2.876
BXD011	0.0	-2.362
BXD03	0.0	-1.046
BXD04	0.0	-1.617
BXD05	0.0	-3.53
BXD06	0.0	-2.074
BXD07	0.0	-3.4
BXD08	0.0	-3.03
BXD09	0.0	-2.073
CAST	0.0	-1.8
CCcont	0.149	-1.562
DS01	0.0	-2.643
DS02	0.217	-3.208
DS04	0.0	-1.689
DS0c	0.0	-3.517
GP01	0.0	-1.748
GP02	0.0	-1.981
GP0c	0.0	-2.802
NOD	0.0	-0.984
NZO	0.199	-2.297
PWK	0.0	-0.563
H37Rv_KO_CtpC	0.0	-2.634
H37Rv_KO_CtpD	0.0	0.329
H37Rv_KO_Rv1272	0.0	-3.308
H37Rv_KO_SugABC	0.0	-2.796
H37Rv_KO_MbtN	0.0	-1.131
Trans05	0.0	-3.26
macrophage_unactivated	0.0	-2.02
IL1	0.0	-4.218
Rapamycin	0.0	-5.352
Tcell	0.0	2.287
GMCSF	0.0	-4.074
IFNab	0.0	-4.477
IFNg	0.0	-4.041
IFNg_GMCSF1	0.0	-5.153
Rv1432_day32	0.0	-0.825
Rv1565c_day32	0.0	-2.154
secA2_input	0.0	0.837
delta_Rv3594	-0.176	-0.967
delta_Rv3717	-0.477	-0.963
delta_Rv3811	-0.564	-1.355
delta_Rv0954	-0.49	-0.879
PonA1	1.601	1.076
EccD1_KO	0.0	-0.793
EspI_KO	0.0	-1.996
PE35_KO	0.403	-0.846
PPE68_KO	0.0	-0.659
glycerol2	0.0	-0.815
lignocerate	0.0	-1.805
oleate	0.0	-1.287
phosphatidylcholine	0.0	-0.65
acetate	0.63	-0.474
glucAc	0.0	-0.734
Rv0950ko	0.727	0.781
Rv1096ko	0.38	-0.685
Rv3684ko	0.789	-1.346
delta_otsA_trehalose	0.254	0.271