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 Rv1091/PE_PGRS22:

update plot	correlation	link to info on gene
Rv0578c/PE_PGRS7	(cc=0.7327)	info on Rv0578c/PE_PGRS7
Rv0833/PE_PGRS13	(cc=0.714)	info on Rv0833/PE_PGRS13
Rv3512/PE_PGRS56	(cc=0.6852)	info on Rv3512/PE_PGRS56
Rv3345c/PE_PGRS50	(cc=0.6672)	info on Rv3345c/PE_PGRS50
Rv1087/PE_PGRS21	(cc=0.6475)	info on Rv1087/PE_PGRS21
Rv3514/PE_PGRS57	(cc=0.6168)	info on Rv3514/PE_PGRS57
Rv3508/PE_PGRS54	(cc=0.6047)	info on Rv3508/PE_PGRS54
Rv2479c/-	(cc=0.6031)	info on Rv2479c/-
Rv3355c/-	(cc=0.6029)	info on Rv3355c/-
Rv3380c/-	(cc=0.6001)	info on Rv3380c/-

Correlation of Rv1091/PE_PGRS22 with Rv2479c/-

Normalized LFCs for Rv1091/PE_PGRS22:
(description and provenance of datasets)

	Rv1091/PE_PGRS22	Rv2479c/-
Fe_supp_jason_reseq	-0.612	-0.535
low_pH_jason_reseq	-0.318	-0.529
NO_jason_reseq	-0.087	-0.15
B6_jason_reseq	-0.686	-0.465
MHCII_jason_reseq	0.273	-0.222
Isoniazid02	-1.317	-0.09
Rifampicin4	0.563	0.782
Ethambutol3	0.074	0.507
Meropenem3	0.268	-0.24
Vancomycin16	-0.348	-0.196
Rv2680_day32	-0.091	0.27
H37Rv_KO_MarP	-0.202	-0.188
hypoxia_3wks	0.171	0.459
hypoxia_6wks	0.177	0.063
glycerol	1.072	-0.543
cholesterol	0.81	0.151
AJ	0.919	1.467
Bibs02	1.439	1.211
Bibs02c	0.985	1.878
BL6	-1.01	0.362
BL6a	0.531	1.179
BXD01	0.349	0.748
BXD010	0.155	1.05
BXD011	0.277	0.984
BXD03	0.043	0.814
BXD04	0.058	0.671
BXD05	0.473	1.219
BXD06	-0.258	0.659
BXD07	0.422	0.867
BXD08	0.103	0.595
BXD09	-0.046	0.812
CAST	0.247	1.51
CCcont	-0.609	0.356
DS01	0.45	1.237
DS02	0.688	1.123
DS04	0.568	1.37
DS0c	0.035	1.292
GP01	0.505	1.356
GP02	0.547	1.464
GP0c	0.472	0.962
NOD	0.488	1.572
NZO	-0.133	1.269
PWK	0.666	1.468
H37Rv_KO_CtpC	0.076	1.011
H37Rv_KO_CtpD	0.865	0.925
H37Rv_KO_Rv1272	2.015	0.739
H37Rv_KO_SugABC	-0.529	0.917
H37Rv_KO_MbtN	-0.667	0.659
Trans05	0.35	1.013
macrophage_unactivated	-0.527	-0.814
IL1	-1.883	-0.765
Rapamycin	-1.676	-1.132
Tcell	-1.245	-1.714
GMCSF	-0.747	-0.581
IFNab	-2.515	-1.04
IFNg	-1.307	-0.711
IFNg_GMCSF1	-0.669	-0.355
Rv1432_day32	0.441	0.378
Rv1565c_day32	-0.924	0.145
secA2_input	-0.211	0.18
delta_Rv3594	0.229	0.093
delta_Rv3717	0.294	-0.034
delta_Rv3811	-0.168	0.0
delta_Rv0954	-1.098	0.553
PonA1	0.21	-0.021
EccD1_KO	0.513	0.151
EspI_KO	-0.459	0.799
PE35_KO	0.067	0.796
PPE68_KO	0.074	0.557
glycerol2	-0.666	-0.733
lignocerate	-1.094	-0.438
oleate	-0.102	-0.829
phosphatidylcholine	-0.564	-0.648
acetate	-0.557	0.035
glucAc	-0.543	0.179
Rv0950ko	0.476	0.081
Rv1096ko	1.215	0.081
Rv3684ko	0.19	-0.596
delta_otsA_trehalose	0.272	0.083