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 Rv1767/-:

update plot	correlation	link to info on gene
Rv1035c/-	(cc=0.5114)	info on Rv1035c/-
Rv0150c/-	(cc=0.4518)	info on Rv0150c/-
Rv2585c/-	(cc=0.4245)	info on Rv2585c/-
Rv2591/PE_PGRS44	(cc=0.4242)	info on Rv2591/PE_PGRS44
Rv1961/-	(cc=0.4109)	info on Rv1961/-
Rv1951c/-	(cc=0.4085)	info on Rv1951c/-
Rv1214c/PE14	(cc=0.4049)	info on Rv1214c/PE14
Rv2730/-	(cc=0.3979)	info on Rv2730/-
Rv2801c/mazF9	(cc=0.3967)	info on Rv2801c/mazF9
Rv3170/aofH	(cc=0.3783)	info on Rv3170/aofH

Correlation of Rv1767/- with Rv2591/PE_PGRS44

Normalized LFCs for Rv1767/-:
(description and provenance of datasets)

	Rv1767/-	Rv2591/PE_PGRS44
Fe_supp_jason_reseq	0.039	-1.695
low_pH_jason_reseq	-0.979	1.337
NO_jason_reseq	0.528	0.562
B6_jason_reseq	-0.67	-0.712
MHCII_jason_reseq	-0.553	0.148
Isoniazid02	0.207	0.017
Rifampicin4	0.236	0.983
Ethambutol3	0.753	0.687
Meropenem3	0.035	1.72
Vancomycin16	-0.162	0.676
Rv2680_day32	-0.363	-0.08
H37Rv_KO_MarP	0.113	0.154
hypoxia_3wks	-0.881	0.686
hypoxia_6wks	-0.912	-0.43
glycerol	0.949	0.769
cholesterol	-0.57	0.145
AJ	0.499	0.541
Bibs02	1.48	0.813
Bibs02c	-0.383	0.453
BL6	0.832	0.112
BL6a	0.426	0.769
BXD01	-0.108	0.525
BXD010	0.465	0.013
BXD011	1.117	0.485
BXD03	0.071	0.082
BXD04	-0.033	1.411
BXD05	0.602	0.38
BXD06	0.167	0.207
BXD07	0.394	0.606
BXD08	-0.258	0.778
BXD09	-0.051	0.462
CAST	0.496	-0.661
CCcont	-0.53	0.41
DS01	-0.587	0.074
DS02	0.706	0.11
DS04	0.101	-1.14
DS0c	-1.216	-0.713
GP01	0.268	1.257
GP02	2.154	0.952
GP0c	1.155	0.753
NOD	0.368	-0.047
NZO	0.737	1.081
PWK	-0.2	0.357
H37Rv_KO_CtpC	-0.315	0.222
H37Rv_KO_CtpD	-0.117	0.778
H37Rv_KO_Rv1272	0.748	0.1
H37Rv_KO_SugABC	-0.054	0.248
H37Rv_KO_MbtN	-0.019	0.603
Trans05	0.592	-0.114
macrophage_unactivated	0.385	0.205
IL1	-0.558	-0.703
Rapamycin	-0.184	0.058
Tcell	-0.723	-0.287
GMCSF	0.026	-0.153
IFNab	-0.339	-0.617
IFNg	-0.535	0.126
IFNg_GMCSF1	0.06	-0.606
Rv1432_day32	0.383	0.484
Rv1565c_day32	1.232	0.698
secA2_input	-2.855	-0.75
delta_Rv3594	1.638	0.835
delta_Rv3717	1.457	1.13
delta_Rv3811	2.045	0.394
delta_Rv0954	1.659	-0.109
PonA1	-0.95	0.053
EccD1_KO	0.109	0.658
EspI_KO	1.56	1.309
PE35_KO	-0.516	-0.067
PPE68_KO	0.07	-0.182
glycerol2	-1.211	0.314
lignocerate	-0.408	-0.029
oleate	-0.498	0.583
phosphatidylcholine	-0.424	0.567
acetate	0.166	0.254
glucAc	-0.416	-0.465
Rv0950ko	0.694	0.51
Rv1096ko	0.477	0.48
Rv3684ko	1.945	1.601
delta_otsA_trehalose	-0.994	-0.591