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 Rv3758c/proV:

update plot	correlation	link to info on gene
Rv1087/PE_PGRS21	(cc=0.4767)	info on Rv1087/PE_PGRS21
Rv1044/-	(cc=0.4633)	info on Rv1044/-
Rv2841c/nusA	(cc=0.4231)	info on Rv2841c/nusA
Rv2873/mpt83	(cc=0.4213)	info on Rv2873/mpt83
Rv1948c/-	(cc=0.409)	info on Rv1948c/-
Rv2850c/-	(cc=0.4029)	info on Rv2850c/-
Rv3417c/groEL1	(cc=0.3974)	info on Rv3417c/groEL1
Rv1091/PE_PGRS22	(cc=0.3933)	info on Rv1091/PE_PGRS22
Rv1676/-	(cc=0.3922)	info on Rv1676/-
Rv1597/-	(cc=0.386)	info on Rv1597/-

Correlation of Rv3758c/proV with Rv1087/PE_PGRS21

Normalized LFCs for Rv3758c/proV:
(description and provenance of datasets)

	Rv3758c/proV	Rv1087/PE_PGRS21
Fe_supp_jason_reseq	0.096	-1.443
low_pH_jason_reseq	-0.393	-1.295
NO_jason_reseq	0.312	-0.431
B6_jason_reseq	0.084	-0.404
MHCII_jason_reseq	-0.766	-0.066
Isoniazid02	0.023	-1.653
Rifampicin4	-0.376	0.214
Ethambutol3	0.117	0.196
Meropenem3	0.188	-0.639
Vancomycin16	1.263	-0.865
Rv2680_day32	0.617	0.842
H37Rv_KO_MarP	0.711	0.162
hypoxia_3wks	0.056	-0.427
hypoxia_6wks	0.198	-0.727
glycerol	0.671	1.262
cholesterol	0.178	0.519
AJ	0.108	1.155
Bibs02	0.544	0.782
Bibs02c	0.677	0.838
BL6	0.634	0.186
BL6a	-0.023	0.133
BXD01	0.241	0.1
BXD010	0.502	0.2
BXD011	-0.178	-0.79
BXD03	-0.364	0.235
BXD04	-0.867	-0.487
BXD05	0.047	-0.492
BXD06	-0.065	0.014
BXD07	0.048	-0.43
BXD08	0.542	-0.431
BXD09	-0.235	-0.437
CAST	-0.14	-0.215
CCcont	0.391	-0.173
DS01	0.216	-0.072
DS02	0.444	0.414
DS04	0.76	0.777
DS0c	0.919	-0.11
GP01	1.102	1.227
GP02	-0.083	1.357
GP0c	0.541	0.136
NOD	-0.605	0.944
NZO	-0.631	-0.144
PWK	0.283	0.358
H37Rv_KO_CtpC	-0.019	-0.461
H37Rv_KO_CtpD	1.574	1.767
H37Rv_KO_Rv1272	0.553	0.546
H37Rv_KO_SugABC	0.111	0.362
H37Rv_KO_MbtN	0.942	0.196
Trans05	0.228	0.323
macrophage_unactivated	-0.098	-0.919
IL1	-0.967	-2.441
Rapamycin	-0.344	-2.734
Tcell	-1.062	-1.825
GMCSF	-0.082	-0.935
IFNab	-0.596	-2.839
IFNg	-0.433	-1.497
IFNg_GMCSF1	-0.198	-2.061
Rv1432_day32	-0.679	0.568
Rv1565c_day32	-0.122	-1.084
secA2_input	0.26	-0.551
delta_Rv3594	0.407	0.095
delta_Rv3717	0.079	-0.109
delta_Rv3811	0.271	-0.254
delta_Rv0954	-0.152	-1.503
PonA1	0.055	-0.04
EccD1_KO	0.069	-0.023
EspI_KO	-0.933	-0.06
PE35_KO	0.061	0.219
PPE68_KO	-0.205	-0.138
glycerol2	0.212	0.933
lignocerate	0.133	1.382
oleate	0.14	0.366
phosphatidylcholine	-0.015	0.933
acetate	0.268	1.235
glucAc	-0.024	1.491
Rv0950ko	0.199	0.289
Rv1096ko	0.576	0.878
Rv3684ko	0.046	0.57
delta_otsA_trehalose	0.803	1.004