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 Rv0674/-

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

	Rv0075/-	Rv0674/-
Fe_supp_jason_reseq	-0.153	-0.863
low_pH_jason_reseq	-0.447	-0.915
NO_jason_reseq	0.097	0.194
B6_jason_reseq	0.662	1.023
MHCII_jason_reseq	1.083	1.392
Isoniazid02	0.825	-0.108
Rifampicin4	0.265	0.712
Ethambutol3	1.492	1.031
Meropenem3	-0.273	0.642
Vancomycin16	-0.348	0.698
Rv2680_day32	-0.169	0.0
H37Rv_KO_MarP	0.46	-0.145
hypoxia_3wks	0.255	0.459
hypoxia_6wks	0.75	-1.625
glycerol	-0.285	0.878
cholesterol	0.12	0.694
AJ	-0.222	0.077
Bibs02	0.481	1.025
Bibs02c	0.432	-0.302
BL6	-0.236	-1.479
BL6a	0.192	-1.964
BXD01	-0.007	-1.54
BXD010	-0.372	-0.459
BXD011	-0.143	-0.88
BXD03	-0.42	-0.094
BXD04	-0.271	-1.339
BXD05	-0.077	-1.457
BXD06	0.178	-0.543
BXD07	-0.204	-1.373
BXD08	-0.3	-1.105
BXD09	-0.044	-0.719
CAST	0.012	-0.938
CCcont	-0.505	-1.481
DS01	0.477	0.974
DS02	0.022	0.635
DS04	0.88	1.27
DS0c	0.83	0.943
GP01	-0.328	-1.167
GP02	1.227	-0.984
GP0c	-0.544	-1.537
NOD	0.573	-0.6
NZO	-0.082	0.192
PWK	-0.199	-0.136
H37Rv_KO_CtpC	-0.346	-1.92
H37Rv_KO_CtpD	0.099	-1.497
H37Rv_KO_Rv1272	0.103	-1.172
H37Rv_KO_SugABC	-0.301	-1.073
H37Rv_KO_MbtN	-0.8	-1.116
Trans05	0.059	-1.296
macrophage_unactivated	-0.846	-2.058
IL1	-0.392	-1.361
Rapamycin	0.025	0.0
Tcell	-0.14	-1.906
GMCSF	-0.576	-2.308
IFNab	-0.659	-1.575
IFNg	-0.329	-0.497
IFNg_GMCSF1	-0.625	-1.637
Rv1432_day32	-0.24	0.0
Rv1565c_day32	-0.324	-0.305
secA2_input	0.412	-0.258
delta_Rv3594	-0.875	-2.385
delta_Rv3717	-0.357	-2.796
delta_Rv3811	-0.669	-0.947
delta_Rv0954	-0.199	-1.828
PonA1	-0.28	-0.931
EccD1_KO	0.086	-0.898
EspI_KO	0.245	0.14
PE35_KO	-0.026	-0.796
PPE68_KO	0.355	-1.491
glycerol2	-0.024	-1.188
lignocerate	-0.094	-1.033
oleate	0.047	-1.202
phosphatidylcholine	-0.221	-0.994
acetate	-0.128	-1.41
glucAc	-0.542	-0.877
Rv0950ko	-0.431	-1.631
Rv1096ko	-0.486	0.133
Rv3684ko	-0.141	-0.982
delta_otsA_trehalose	-0.064	0.564