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 Rv0075/-:

update plot	correlation	link to info on gene
Rv1156/-	(cc=0.5369)	info on Rv1156/-
Rv0840c/pip	(cc=0.5237)	info on Rv0840c/pip
Rv0218/-	(cc=0.5207)	info on Rv0218/-
Rv0674/-	(cc=0.5135)	info on Rv0674/-
Rv1367c/-	(cc=0.5062)	info on Rv1367c/-
Rv2232/ptkA	(cc=0.5018)	info on Rv2232/ptkA
Rv1368/lprF	(cc=0.4952)	info on Rv1368/lprF
Rv0846c/-	(cc=0.4937)	info on Rv0846c/-
Rv0359/-	(cc=0.4924)	info on Rv0359/-
Rv1105/-	(cc=0.4913)	info on Rv1105/-

Correlation of Rv0075/- with Rv0218/-

Normalized LFCs for Rv0075/-:
(description and provenance of datasets)

	Rv0075/-	Rv0218/-
Fe_supp_jason_reseq	-0.153	0.434
low_pH_jason_reseq	-0.447	-0.201
NO_jason_reseq	0.097	0.0
B6_jason_reseq	0.662	0.84
MHCII_jason_reseq	1.083	1.098
Isoniazid02	0.825	1.369
Rifampicin4	0.265	0.582
Ethambutol3	1.492	0.991
Meropenem3	-0.273	0.0
Vancomycin16	-0.348	0.658
Rv2680_day32	-0.169	-0.208
H37Rv_KO_MarP	0.46	0.203
hypoxia_3wks	0.255	0.251
hypoxia_6wks	0.75	0.106
glycerol	-0.285	1.104
cholesterol	0.12	0.912
AJ	-0.222	0.734
Bibs02	0.481	0.09
Bibs02c	0.432	0.537
BL6	-0.236	-0.272
BL6a	0.192	0.043
BXD01	-0.007	-0.43
BXD010	-0.372	-0.722
BXD011	-0.143	0.009
BXD03	-0.42	-0.419
BXD04	-0.271	-0.445
BXD05	-0.077	0.322
BXD06	0.178	-0.467
BXD07	-0.204	-0.416
BXD08	-0.3	-0.4
BXD09	-0.044	-0.343
CAST	0.012	0.385
CCcont	-0.505	-0.716
DS01	0.477	0.245
DS02	0.022	0.792
DS04	0.88	0.95
DS0c	0.83	0.641
GP01	-0.328	-1.051
GP02	1.227	0.232
GP0c	-0.544	-0.537
NOD	0.573	0.747
NZO	-0.082	-0.15
PWK	-0.199	0.735
H37Rv_KO_CtpC	-0.346	-0.473
H37Rv_KO_CtpD	0.099	-0.762
H37Rv_KO_Rv1272	0.103	0.484
H37Rv_KO_SugABC	-0.301	0.485
H37Rv_KO_MbtN	-0.8	-0.703
Trans05	0.059	-0.485
macrophage_unactivated	-0.846	-1.209
IL1	-0.392	-0.11
Rapamycin	0.025	-0.592
Tcell	-0.14	-0.811
GMCSF	-0.576	-0.296
IFNab	-0.659	-0.499
IFNg	-0.329	0.187
IFNg_GMCSF1	-0.625	-0.075
Rv1432_day32	-0.24	0.439
Rv1565c_day32	-0.324	1.077
secA2_input	0.412	-0.421
delta_Rv3594	-0.875	-0.272
delta_Rv3717	-0.357	-0.152
delta_Rv3811	-0.669	-0.18
delta_Rv0954	-0.199	0.469
PonA1	-0.28	0.372
EccD1_KO	0.086	-0.365
EspI_KO	0.245	-0.228
PE35_KO	-0.026	0.193
PPE68_KO	0.355	-0.221
glycerol2	-0.024	-0.433
lignocerate	-0.094	-0.61
oleate	0.047	0.231
phosphatidylcholine	-0.221	-0.364
acetate	-0.128	-0.653
glucAc	-0.542	-0.818
Rv0950ko	-0.431	0.0
Rv1096ko	-0.486	-0.271
Rv3684ko	-0.141	-0.295
delta_otsA_trehalose	-0.064	-0.376