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 Rv0762c/-:

update plot	correlation	link to info on gene
Rv3425/PPE57	(cc=0.5104)	info on Rv3425/PPE57
Rv0076c/-	(cc=0.4763)	info on Rv0076c/-
Rv1088/PE9	(cc=0.4661)	info on Rv1088/PE9
Rv2067c/-	(cc=0.4655)	info on Rv2067c/-
Rv3888c/-	(cc=0.4577)	info on Rv3888c/-
Rv3143/-	(cc=0.4565)	info on Rv3143/-
Rv2430c/PPE41	(cc=0.4537)	info on Rv2430c/PPE41
Rv1051c/-	(cc=0.4519)	info on Rv1051c/-
Rv3429/PPE59	(cc=0.4518)	info on Rv3429/PPE59
Rv1751/-	(cc=0.4422)	info on Rv1751/-

Correlation of Rv0762c/- with Rv3888c/-

Normalized LFCs for Rv0762c/-:
(description and provenance of datasets)

	Rv0762c/-	Rv3888c/-
Fe_supp_jason_reseq	0.283	-0.553
low_pH_jason_reseq	-0.714	0.248
NO_jason_reseq	-0.095	-0.179
B6_jason_reseq	-0.387	0.574
MHCII_jason_reseq	-0.012	-0.21
Isoniazid02	0.049	-0.198
Rifampicin4	0.328	-0.896
Ethambutol3	0.73	-0.14
Meropenem3	0.9	2.317
Vancomycin16	0.769	-0.202
Rv2680_day32	0.562	-0.345
H37Rv_KO_MarP	1.232	0.684
hypoxia_3wks	-0.75	-0.407
hypoxia_6wks	-0.476	-0.213
glycerol	-0.704	-0.527
cholesterol	-0.595	-0.594
AJ	1.01	0.267
Bibs02	0.502	0.256
Bibs02c	0.141	0.459
BL6	1.144	0.017
BL6a	1.016	0.541
BXD01	0.417	0.286
BXD010	1.631	0.478
BXD011	0.889	-0.31
BXD03	0.542	0.189
BXD04	0.679	-0.366
BXD05	1.076	0.105
BXD06	0.733	0.154
BXD07	1.174	-0.41
BXD08	0.674	-0.347
BXD09	0.923	0.51
CAST	0.192	0.792
CCcont	0.829	-0.062
DS01	0.648	0.272
DS02	0.074	0.501
DS04	0.777	0.51
DS0c	0.919	0.225
GP01	0.563	-0.293
GP02	0.25	-0.978
GP0c	0.365	-0.671
NOD	0.0	0.636
NZO	1.41	-0.485
PWK	-0.142	0.129
H37Rv_KO_CtpC	0.213	-0.733
H37Rv_KO_CtpD	-1.328	-0.935
H37Rv_KO_Rv1272	-0.284	-0.296
H37Rv_KO_SugABC	0.877	-0.652
H37Rv_KO_MbtN	0.127	-0.88
Trans05	0.745	0.119
macrophage_unactivated	2.137	0.969
IL1	-0.314	-0.3
Rapamycin	0.043	-0.077
Tcell	1.877	0.87
GMCSF	0.209	-0.631
IFNab	0.021	-0.076
IFNg	0.756	0.0
IFNg_GMCSF1	-0.173	0.0
Rv1432_day32	0.364	0.438
Rv1565c_day32	-0.019	-0.373
secA2_input	-1.099	-0.996
delta_Rv3594	0.486	-0.427
delta_Rv3717	0.193	-0.351
delta_Rv3811	0.031	0.113
delta_Rv0954	0.094	-0.658
PonA1	-0.24	-0.943
EccD1_KO	-0.382	-0.174
EspI_KO	-0.479	-0.257
PE35_KO	-0.082	0.149
PPE68_KO	-0.214	-0.288
glycerol2	0.433	0.541
lignocerate	0.762	0.381
oleate	-0.312	0.096
phosphatidylcholine	0.604	0.095
acetate	1.007	0.997
glucAc	1.034	0.435
Rv0950ko	-0.914	0.0
Rv1096ko	-0.338	-1.27
Rv3684ko	-0.396	-0.825
delta_otsA_trehalose	0.118	-0.054