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 Rv0934/pstS1:

update plot	correlation	link to info on gene
Rv0940c/-	(cc=0.6869)	info on Rv0940c/-
Rv3389c/htdY	(cc=0.6347)	info on Rv3389c/htdY
Rv3473c/bpoA	(cc=0.6326)	info on Rv3473c/bpoA
Rv1489A/-	(cc=0.6258)	info on Rv1489A/-
Rv2281/pitB	(cc=0.6159)	info on Rv2281/pitB
Rv1159A/-	(cc=0.5509)	info on Rv1159A/-
Rv1169c/lipX	(cc=0.5252)	info on Rv1169c/lipX
Rv0232/-	(cc=0.524)	info on Rv0232/-
Rv3508/PE_PGRS54	(cc=0.5202)	info on Rv3508/PE_PGRS54
Rv0343/iniC	(cc=0.5202)	info on Rv0343/iniC

Correlation of Rv0934/pstS1 with Rv3473c/bpoA

Normalized LFCs for Rv0934/pstS1:
(description and provenance of datasets)

	Rv0934/pstS1	Rv3473c/bpoA
Fe_supp_jason_reseq	-0.764	-0.114
low_pH_jason_reseq	-0.391	-0.085
NO_jason_reseq	0.722	0.278
B6_jason_reseq	-0.065	0.179
MHCII_jason_reseq	0.128	0.8
Isoniazid02	-1.689	-2.977
Rifampicin4	0.766	0.344
Ethambutol3	-2.021	-3.129
Meropenem3	-1.711	-1.446
Vancomycin16	-0.52	-1.223
Rv2680_day32	0.066	-0.5
H37Rv_KO_MarP	-0.069	-0.025
hypoxia_3wks	-0.419	-0.028
hypoxia_6wks	0.175	0.19
glycerol	0.629	0.275
cholesterol	0.085	0.808
AJ	0.825	0.156
Bibs02	-0.389	-0.189
Bibs02c	0.33	0.611
BL6	0.977	1.028
BL6a	0.304	0.68
BXD01	0.422	0.431
BXD010	0.584	0.434
BXD011	0.511	0.693
BXD03	0.348	0.031
BXD04	0.511	0.218
BXD05	0.628	0.263
BXD06	0.692	0.749
BXD07	0.338	0.361
BXD08	0.853	0.527
BXD09	0.432	0.254
CAST	0.23	-0.082
CCcont	0.876	1.125
DS01	-0.092	0.236
DS02	0.082	0.063
DS04	-0.52	-0.659
DS0c	0.195	-0.295
GP01	0.91	0.609
GP02	0.519	0.894
GP0c	-0.494	-0.152
NOD	-0.062	0.872
NZO	0.548	-0.678
PWK	0.983	0.52
H37Rv_KO_CtpC	0.027	-0.287
H37Rv_KO_CtpD	-0.76	-0.362
H37Rv_KO_Rv1272	-0.319	0.177
H37Rv_KO_SugABC	-0.146	-1.788
H37Rv_KO_MbtN	-1.123	0.135
Trans05	-0.059	0.237
macrophage_unactivated	-0.249	1.285
IL1	-0.424	0.445
Rapamycin	-0.439	-0.089
Tcell	0.169	0.557
GMCSF	-0.209	0.618
IFNab	-0.372	0.184
IFNg	0.032	1.737
IFNg_GMCSF1	0.559	0.393
Rv1432_day32	0.83	-0.209
Rv1565c_day32	-0.502	2.191
secA2_input	-0.067	1.421
delta_Rv3594	-0.698	-0.338
delta_Rv3717	-1.192	-0.313
delta_Rv3811	-1.037	-0.109
delta_Rv0954	-0.543	0.704
PonA1	-0.383	-0.556
EccD1_KO	0.102	-0.276
EspI_KO	0.676	0.106
PE35_KO	0.481	0.254
PPE68_KO	0.47	0.256
glycerol2	1.275	1.798
lignocerate	1.458	1.957
oleate	0.559	0.37
phosphatidylcholine	0.857	1.702
acetate	1.323	1.243
glucAc	1.288	1.213
Rv0950ko	-0.148	0.024
Rv1096ko	0.121	-0.799
Rv3684ko	0.206	-0.838
delta_otsA_trehalose	-2.021	-1.275