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 Rv2143/-:

update plot	correlation	link to info on gene
Rv3312c/-	(cc=0.5057)	info on Rv3312c/-
Rv2345/-	(cc=0.505)	info on Rv2345/-
Rv0342/iniA	(cc=0.4819)	info on Rv0342/iniA
Rv3109/moaA1	(cc=0.4807)	info on Rv3109/moaA1
Rv1997/ctpF	(cc=0.4637)	info on Rv1997/ctpF
Rv2313c/-	(cc=0.4537)	info on Rv2313c/-
Rv0754/PE_PGRS11	(cc=0.4503)	info on Rv0754/PE_PGRS11
Rv1882c/-	(cc=0.45)	info on Rv1882c/-
Rv2679/echA15	(cc=0.444)	info on Rv2679/echA15
Rv0830/-	(cc=0.4388)	info on Rv0830/-

Correlation of Rv2143/- with Rv2345/-

Normalized LFCs for Rv2143/-:
(description and provenance of datasets)

	Rv2143/-	Rv2345/-
Fe_supp_jason_reseq	-0.313	-0.019
low_pH_jason_reseq	-1.011	-0.962
NO_jason_reseq	0.087	-0.053
B6_jason_reseq	0.05	-0.063
MHCII_jason_reseq	0.391	0.065
Isoniazid02	-1.005	-1.199
Rifampicin4	1.088	0.509
Ethambutol3	-0.967	-1.019
Meropenem3	-0.571	-1.409
Vancomycin16	-0.493	-0.655
Rv2680_day32	-0.412	-0.466
H37Rv_KO_MarP	-0.238	-0.02
hypoxia_3wks	0.79	0.032
hypoxia_6wks	0.589	0.257
glycerol	-0.392	0.192
cholesterol	0.062	-0.086
AJ	0.476	0.0
Bibs02	-0.056	-0.278
Bibs02c	-0.623	-0.205
BL6	-0.092	0.138
BL6a	-0.412	0.118
BXD01	-0.186	0.14
BXD010	-0.791	0.141
BXD011	-0.21	-0.262
BXD03	-0.764	-0.04
BXD04	-0.476	0.291
BXD05	-0.386	0.374
BXD06	-0.452	0.147
BXD07	-0.315	0.238
BXD08	-0.317	0.434
BXD09	-0.273	0.199
CAST	-0.063	-0.225
CCcont	-0.586	0.024
DS01	-0.222	0.0
DS02	-0.518	-0.498
DS04	-0.218	-0.142
DS0c	-0.622	-0.057
GP01	-0.396	0.277
GP02	0.207	0.072
GP0c	-0.392	0.147
NOD	0.535	0.265
NZO	0.633	-0.237
PWK	0.298	-0.058
H37Rv_KO_CtpC	0.232	0.373
H37Rv_KO_CtpD	-0.373	0.605
H37Rv_KO_Rv1272	0.728	0.291
H37Rv_KO_SugABC	0.223	0.767
H37Rv_KO_MbtN	0.006	0.628
Trans05	0.309	0.501
macrophage_unactivated	-0.044	-0.114
IL1	0.19	0.338
Rapamycin	0.276	0.473
Tcell	0.091	0.039
GMCSF	0.385	0.599
IFNab	-0.085	0.311
IFNg	0.037	0.216
IFNg_GMCSF1	0.311	0.182
Rv1432_day32	0.795	0.194
Rv1565c_day32	0.396	0.175
secA2_input	-0.531	0.233
delta_Rv3594	-0.011	0.271
delta_Rv3717	0.123	0.055
delta_Rv3811	-0.457	0.352
delta_Rv0954	-0.074	0.371
PonA1	-1.13	-0.321
EccD1_KO	0.257	0.704
EspI_KO	-0.011	0.767
PE35_KO	-0.79	0.429
PPE68_KO	-0.806	0.176
glycerol2	0.188	0.277
lignocerate	0.265	0.284
oleate	0.644	0.702
phosphatidylcholine	0.455	0.153
acetate	-0.224	-0.462
glucAc	-0.308	-0.232
Rv0950ko	0.103	0.434
Rv1096ko	-0.841	-0.567
Rv3684ko	-0.337	-0.54
delta_otsA_trehalose	1.355	0.582