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 Rv1985c/-:

update plot	correlation	link to info on gene
Rv3382c/lytB1	(cc=0.4515)	info on Rv3382c/lytB1
Rv1980c/mpt64	(cc=0.4358)	info on Rv1980c/mpt64
Rv1191/-	(cc=0.4336)	info on Rv1191/-
Rv0114/gmhB	(cc=0.4313)	info on Rv0114/gmhB
Rv1790/PPE27	(cc=0.4289)	info on Rv1790/PPE27
Rv3826/fadD23	(cc=0.4225)	info on Rv3826/fadD23
Rv3430c/-	(cc=0.4213)	info on Rv3430c/-
Rv1816/-	(cc=0.4175)	info on Rv1816/-
Rv0149/-	(cc=0.4062)	info on Rv0149/-
Rv3857c/-	(cc=0.3998)	info on Rv3857c/-

Correlation of Rv1985c/- with Rv3430c/-

Normalized LFCs for Rv1985c/-:
(description and provenance of datasets)

	Rv1985c/-	Rv3430c/-
Fe_supp_jason_reseq	-0.137	0.175
low_pH_jason_reseq	-0.944	0.574
NO_jason_reseq	0.11	-0.268
B6_jason_reseq	-0.292	0.089
MHCII_jason_reseq	0.107	0.606
Isoniazid02	0.391	1.013
Rifampicin4	0.336	0.336
Ethambutol3	0.454	1.192
Meropenem3	1.809	0.949
Vancomycin16	0.08	0.443
Rv2680_day32	-0.109	0.146
H37Rv_KO_MarP	0.041	-0.151
hypoxia_3wks	-0.231	-0.427
hypoxia_6wks	0.117	-0.175
glycerol	0.023	0.092
cholesterol	-0.959	-0.353
AJ	-0.287	-0.415
Bibs02	0.513	0.298
Bibs02c	-0.415	0.095
BL6	0.316	0.407
BL6a	-0.095	0.712
BXD01	-0.161	0.562
BXD010	0.101	0.764
BXD011	0.885	0.436
BXD03	0.199	0.893
BXD04	-0.219	0.67
BXD05	0.106	0.549
BXD06	-0.097	0.375
BXD07	0.524	0.498
BXD08	-0.728	0.594
BXD09	0.269	0.551
CAST	-0.425	-0.429
CCcont	-0.244	0.407
DS01	-0.537	0.275
DS02	-1.085	-0.389
DS04	-1.2	0.43
DS0c	-0.984	0.552
GP01	-0.475	-0.226
GP02	-0.05	0.529
GP0c	-0.625	0.038
NOD	0.272	0.285
NZO	-0.588	-0.223
PWK	0.078	-0.07
H37Rv_KO_CtpC	0.334	0.214
H37Rv_KO_CtpD	0.903	0.821
H37Rv_KO_Rv1272	0.632	0.434
H37Rv_KO_SugABC	-0.331	0.408
H37Rv_KO_MbtN	1.092	0.622
Trans05	0.86	0.569
macrophage_unactivated	0.47	0.625
IL1	-0.208	0.128
Rapamycin	0.402	-0.338
Tcell	-0.323	0.332
GMCSF	-0.074	0.016
IFNab	-0.345	0.148
IFNg	0.804	0.227
IFNg_GMCSF1	-1.197	0.192
Rv1432_day32	0.78	-0.03
Rv1565c_day32	-1.652	0.346
secA2_input	-0.996	0.089
delta_Rv3594	-0.598	-0.906
delta_Rv3717	-0.56	-0.63
delta_Rv3811	-0.854	-0.968
delta_Rv0954	-0.133	-0.512
PonA1	-0.646	-0.878
EccD1_KO	0.02	0.023
EspI_KO	-0.488	-0.12
PE35_KO	0.0	0.715
PPE68_KO	-0.141	0.557
glycerol2	-0.021	0.305
lignocerate	-0.462	0.241
oleate	0.329	0.224
phosphatidylcholine	-0.031	0.916
acetate	-0.153	-0.138
glucAc	-0.827	-0.177
Rv0950ko	0.519	0.784
Rv1096ko	0.181	-0.021
Rv3684ko	0.088	0.151
delta_otsA_trehalose	0.259	0.686