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 Rv1816/-

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

	Rv1985c/-	Rv1816/-
Fe_supp_jason_reseq	-0.137	-1.036
low_pH_jason_reseq	-0.944	-1.098
NO_jason_reseq	0.11	-0.286
B6_jason_reseq	-0.292	-0.699
MHCII_jason_reseq	0.107	-2.165
Isoniazid02	0.391	1.592
Rifampicin4	0.336	0.336
Ethambutol3	0.454	1.629
Meropenem3	1.809	1.416
Vancomycin16	0.08	-0.117
Rv2680_day32	-0.109	-0.323
H37Rv_KO_MarP	0.041	0.264
hypoxia_3wks	-0.231	0.112
hypoxia_6wks	0.117	0.058
glycerol	0.023	-0.601
cholesterol	-0.959	0.664
AJ	-0.287	-0.343
Bibs02	0.513	0.616
Bibs02c	-0.415	-0.27
BL6	0.316	0.778
BL6a	-0.095	0.446
BXD01	-0.161	0.319
BXD010	0.101	0.329
BXD011	0.885	0.821
BXD03	0.199	0.447
BXD04	-0.219	0.31
BXD05	0.106	1.023
BXD06	-0.097	0.666
BXD07	0.524	0.33
BXD08	-0.728	0.367
BXD09	0.269	0.464
CAST	-0.425	-0.115
CCcont	-0.244	-0.14
DS01	-0.537	0.038
DS02	-1.085	-0.948
DS04	-1.2	-0.943
DS0c	-0.984	0.201
GP01	-0.475	0.792
GP02	-0.05	0.198
GP0c	-0.625	0.511
NOD	0.272	-0.055
NZO	-0.588	-0.616
PWK	0.078	0.637
H37Rv_KO_CtpC	0.334	0.498
H37Rv_KO_CtpD	0.903	1.05
H37Rv_KO_Rv1272	0.632	1.264
H37Rv_KO_SugABC	-0.331	-0.758
H37Rv_KO_MbtN	1.092	0.488
Trans05	0.86	0.988
macrophage_unactivated	0.47	0.202
IL1	-0.208	-0.409
Rapamycin	0.402	0.267
Tcell	-0.323	0.182
GMCSF	-0.074	0.23
IFNab	-0.345	-0.281
IFNg	0.804	0.15
IFNg_GMCSF1	-1.197	0.713
Rv1432_day32	0.78	-0.016
Rv1565c_day32	-1.652	0.185
secA2_input	-0.996	0.158
delta_Rv3594	-0.598	-0.366
delta_Rv3717	-0.56	0.035
delta_Rv3811	-0.854	0.162
delta_Rv0954	-0.133	0.045
PonA1	-0.646	-0.335
EccD1_KO	0.02	0.826
EspI_KO	-0.488	1.095
PE35_KO	0.0	0.303
PPE68_KO	-0.141	0.48
glycerol2	-0.021	-0.265
lignocerate	-0.462	-0.309
oleate	0.329	0.065
phosphatidylcholine	-0.031	0.09
acetate	-0.153	-0.422
glucAc	-0.827	-0.485
Rv0950ko	0.519	0.814
Rv1096ko	0.181	0.353
Rv3684ko	0.088	-0.514
delta_otsA_trehalose	0.259	0.084