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 Rv3188/-:

update plot	correlation	link to info on gene
Rv0691c/-	(cc=0.4375)	info on Rv0691c/-
Rv2800/-	(cc=0.4268)	info on Rv2800/-
Rv2310/-	(cc=0.424)	info on Rv2310/-
Rv0892/-	(cc=0.4136)	info on Rv0892/-
Rv1566c/-	(cc=0.4062)	info on Rv1566c/-
Rv2938/drrC	(cc=0.3902)	info on Rv2938/drrC
Rv2306B/-	(cc=0.3876)	info on Rv2306B/-
Rv1585c/-	(cc=0.384)	info on Rv1585c/-
Rv0798c/cfp29	(cc=0.3831)	info on Rv0798c/cfp29
Rv2957/-	(cc=0.3756)	info on Rv2957/-

Correlation of Rv3188/- with Rv1585c/-

Normalized LFCs for Rv3188/-:
(description and provenance of datasets)

	Rv3188/-	Rv1585c/-
Fe_supp_jason_reseq	0.395	1.121
low_pH_jason_reseq	0.611	0.169
NO_jason_reseq	-0.139	0.391
B6_jason_reseq	0.151	-0.723
MHCII_jason_reseq	1.439	-0.485
Isoniazid02	-0.134	0.131
Rifampicin4	-0.677	0.796
Ethambutol3	-0.016	-0.117
Meropenem3	-0.031	1.022
Vancomycin16	-0.393	0.878
Rv2680_day32	-0.21	0.249
H37Rv_KO_MarP	0.12	0.127
hypoxia_3wks	0.223	-0.235
hypoxia_6wks	-0.184	-0.526
glycerol	-0.518	-0.809
cholesterol	0.268	0.193
AJ	0.38	0.983
Bibs02	-0.837	-1.507
Bibs02c	1.088	-0.102
BL6	0.917	0.569
BL6a	0.915	0.092
BXD01	0.476	0.278
BXD010	0.255	-0.345
BXD011	0.443	-0.51
BXD03	0.683	1.103
BXD04	1.355	-0.495
BXD05	-0.33	1.934
BXD06	0.862	0.122
BXD07	0.246	-0.138
BXD08	-0.415	0.994
BXD09	0.023	-0.216
CAST	-0.47	-0.112
CCcont	0.93	0.069
DS01	1.324	0.683
DS02	0.945	0.629
DS04	0.687	0.696
DS0c	0.52	-0.333
GP01	-0.427	-0.625
GP02	-1.837	-0.393
GP0c	-0.033	0.911
NOD	2.211	2.94
NZO	-2.208	-1.097
PWK	-0.924	0.494
H37Rv_KO_CtpC	0.515	2.372
H37Rv_KO_CtpD	1.259	3.324
H37Rv_KO_Rv1272	-0.288	1.597
H37Rv_KO_SugABC	0.608	1.362
H37Rv_KO_MbtN	0.87	0.644
Trans05	0.59	0.423
macrophage_unactivated	2.058	2.547
IL1	0.332	-1.231
Rapamycin	0.055	-0.921
Tcell	-0.27	0.554
GMCSF	-0.615	0.0
IFNab	-0.426	-1.255
IFNg	-1.264	-1.109
IFNg_GMCSF1	-0.352	1.012
Rv1432_day32	-0.961	0.0
Rv1565c_day32	-0.264	0.455
secA2_input	0.141	-1.077
delta_Rv3594	-0.271	-2.071
delta_Rv3717	-0.035	-1.396
delta_Rv3811	-0.87	-1.456
delta_Rv0954	-0.283	-0.677
PonA1	-1.929	-0.503
EccD1_KO	1.687	0.125
EspI_KO	0.074	-1.001
PE35_KO	1.444	-0.117
PPE68_KO	1.901	0.8
glycerol2	0.06	-0.161
lignocerate	0.789	-0.375
oleate	0.024	0.152
phosphatidylcholine	0.584	0.15
acetate	0.141	0.263
glucAc	1.043	0.485
Rv0950ko	-0.727	1.839
Rv1096ko	0.555	0.332
Rv3684ko	0.082	0.904
delta_otsA_trehalose	-1.196	0.039