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 Rv2352c/PPE38:

update plot	correlation	link to info on gene
Rv0160c/PE4	(cc=0.5845)	info on Rv0160c/PE4
Rv3161c/-	(cc=0.5722)	info on Rv3161c/-
Rv0354c/PPE7	(cc=0.5707)	info on Rv0354c/PPE7
Rv1504c/-	(cc=0.5614)	info on Rv1504c/-
Rv2947c/pks15	(cc=0.5506)	info on Rv2947c/pks15
Rv1278/-	(cc=0.5437)	info on Rv1278/-
Rv3919c/gid	(cc=0.5421)	info on Rv3919c/gid
Rv0073/-	(cc=0.5416)	info on Rv0073/-
Rv0469/umaA	(cc=0.5381)	info on Rv0469/umaA
Rv2853/PE_PGRS48	(cc=0.5372)	info on Rv2853/PE_PGRS48

Correlation of Rv2352c/PPE38 with Rv1278/-

Normalized LFCs for Rv2352c/PPE38:
(description and provenance of datasets)

	Rv2352c/PPE38	Rv1278/-
Fe_supp_jason_reseq	0.35	0.74
low_pH_jason_reseq	-1.029	0.873
NO_jason_reseq	-0.491	-0.302
B6_jason_reseq	-0.488	-0.128
MHCII_jason_reseq	-0.46	-0.684
Isoniazid02	-1.043	-0.969
Rifampicin4	-0.208	0.517
Ethambutol3	-0.882	-0.871
Meropenem3	-1.085	-0.858
Vancomycin16	-0.602	-0.44
Rv2680_day32	-0.611	-1.288
H37Rv_KO_MarP	-0.629	-0.563
hypoxia_3wks	-0.06	-0.471
hypoxia_6wks	-0.56	0.334
glycerol	0.532	1.562
cholesterol	0.575	0.268
AJ	0.321	0.956
Bibs02	0.203	-0.489
Bibs02c	0.297	0.202
BL6	0.173	1.137
BL6a	0.425	0.905
BXD01	0.346	0.944
BXD010	-0.031	0.791
BXD011	-0.232	0.554
BXD03	0.503	0.861
BXD04	0.661	1.577
BXD05	0.358	1.166
BXD06	0.167	0.897
BXD07	0.22	0.956
BXD08	0.298	1.029
BXD09	0.376	0.97
CAST	0.235	0.15
CCcont	-0.032	0.951
DS01	0.267	0.974
DS02	0.17	0.744
DS04	0.554	0.413
DS0c	0.179	0.894
GP01	0.253	1.786
GP02	0.349	0.603
GP0c	0.348	1.338
NOD	-0.184	-0.156
NZO	0.393	0.682
PWK	0.06	0.065
H37Rv_KO_CtpC	0.169	0.973
H37Rv_KO_CtpD	0.659	-0.088
H37Rv_KO_Rv1272	1.248	1.179
H37Rv_KO_SugABC	0.005	0.408
H37Rv_KO_MbtN	0.457	1.345
Trans05	1.088	0.832
macrophage_unactivated	0.511	-0.256
IL1	-0.11	-0.24
Rapamycin	0.037	-0.163
Tcell	-0.495	0.0
GMCSF	0.533	0.694
IFNab	0.054	0.305
IFNg	0.088	-0.775
IFNg_GMCSF1	0.364	-0.525
Rv1432_day32	0.407	0.083
Rv1565c_day32	-0.141	-0.087
secA2_input	-0.626	0.0
delta_Rv3594	0.583	0.04
delta_Rv3717	-0.374	0.736
delta_Rv3811	0.268	0.509
delta_Rv0954	0.289	0.066
PonA1	0.085	0.115
EccD1_KO	-0.566	-1.059
EspI_KO	-0.031	-1.092
PE35_KO	0.105	0.271
PPE68_KO	0.275	0.442
glycerol2	0.167	-0.883
lignocerate	-0.169	-0.262
oleate	-0.004	-0.417
phosphatidylcholine	-0.224	-0.612
acetate	-0.047	0.143
glucAc	0.016	0.328
Rv0950ko	0.277	0.0
Rv1096ko	-0.012	1.077
Rv3684ko	-0.134	0.164
delta_otsA_trehalose	0.184	0.798