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 Rv0833/PE_PGRS13:

update plot	correlation	link to info on gene
Rv1091/PE_PGRS22	(cc=0.714)	info on Rv1091/PE_PGRS22
Rv3380c/-	(cc=0.7086)	info on Rv3380c/-
Rv2814c/-	(cc=0.6666)	info on Rv2814c/-
Rv1087/PE_PGRS21	(cc=0.6646)	info on Rv1087/PE_PGRS21
Rv3345c/PE_PGRS50	(cc=0.6635)	info on Rv3345c/PE_PGRS50
Rv2479c/-	(cc=0.6632)	info on Rv2479c/-
Rv1764/-	(cc=0.6587)	info on Rv1764/-
Rv2106/-	(cc=0.6564)	info on Rv2106/-
Rv2648/-	(cc=0.6554)	info on Rv2648/-
Rv3512/PE_PGRS56	(cc=0.6545)	info on Rv3512/PE_PGRS56

Correlation of Rv0833/PE_PGRS13 with Rv1091/PE_PGRS22

Normalized LFCs for Rv0833/PE_PGRS13:
(description and provenance of datasets)

	Rv0833/PE_PGRS13	Rv1091/PE_PGRS22
Fe_supp_jason_reseq	-0.923	-0.612
low_pH_jason_reseq	-0.284	-0.318
NO_jason_reseq	0.205	-0.087
B6_jason_reseq	-0.52	-0.686
MHCII_jason_reseq	-0.694	0.273
Isoniazid02	0.469	-1.317
Rifampicin4	0.872	0.563
Ethambutol3	0.27	0.074
Meropenem3	0.0	0.268
Vancomycin16	0.589	-0.348
Rv2680_day32	-0.082	-0.091
H37Rv_KO_MarP	-0.525	-0.202
hypoxia_3wks	0.706	0.171
hypoxia_6wks	-0.274	0.177
glycerol	0.686	1.072
cholesterol	0.574	0.81
AJ	1.771	0.919
Bibs02	0.621	1.439
Bibs02c	1.678	0.985
BL6	-0.104	-1.01
BL6a	0.993	0.531
BXD01	0.101	0.349
BXD010	0.928	0.155
BXD011	0.0	0.277
BXD03	1.084	0.043
BXD04	0.793	0.058
BXD05	0.377	0.473
BXD06	0.199	-0.258
BXD07	0.301	0.422
BXD08	0.452	0.103
BXD09	0.305	-0.046
CAST	0.782	0.247
CCcont	-0.124	-0.609
DS01	-0.412	0.45
DS02	0.0	0.688
DS04	0.0	0.568
DS0c	-0.379	0.035
GP01	1.185	0.505
GP02	2.978	0.547
GP0c	1.594	0.472
NOD	1.884	0.488
NZO	0.298	-0.133
PWK	0.426	0.666
H37Rv_KO_CtpC	0.353	0.076
H37Rv_KO_CtpD	0.635	0.865
H37Rv_KO_Rv1272	0.479	2.015
H37Rv_KO_SugABC	-0.272	-0.529
H37Rv_KO_MbtN	-0.283	-0.667
Trans05	0.588	0.35
macrophage_unactivated	-0.783	-0.527
IL1	-1.967	-1.883
Rapamycin	-1.679	-1.676
Tcell	-1.782	-1.245
GMCSF	-0.422	-0.747
IFNab	-2.382	-2.515
IFNg	-0.911	-1.307
IFNg_GMCSF1	-1.071	-0.669
Rv1432_day32	0.661	0.441
Rv1565c_day32	-1.054	-0.924
secA2_input	-0.861	-0.211
delta_Rv3594	0.0	0.229
delta_Rv3717	-0.508	0.294
delta_Rv3811	-0.149	-0.168
delta_Rv0954	-1.333	-1.098
PonA1	0.451	0.21
EccD1_KO	0.49	0.513
EspI_KO	0.26	-0.459
PE35_KO	-0.283	0.067
PPE68_KO	-0.205	0.074
glycerol2	-0.392	-0.666
lignocerate	-0.613	-1.094
oleate	-0.397	-0.102
phosphatidylcholine	-0.253	-0.564
acetate	0.507	-0.557
glucAc	0.165	-0.543
Rv0950ko	0.621	0.476
Rv1096ko	1.08	1.215
Rv3684ko	0.462	0.19
delta_otsA_trehalose	0.0	0.272