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 Rv1057/-:

update plot	correlation	link to info on gene
Rv0441c/-	(cc=0.622)	info on Rv0441c/-
Rv0870c/-	(cc=0.5734)	info on Rv0870c/-
Rv0530/-	(cc=0.5674)	info on Rv0530/-
Rv1376/-	(cc=0.5492)	info on Rv1376/-
Rv0754/PE_PGRS11	(cc=0.5169)	info on Rv0754/PE_PGRS11
Rv1838c/vapC13	(cc=0.5168)	info on Rv1838c/vapC13
Rv2237A/-	(cc=0.5155)	info on Rv2237A/-
Rv3196/-	(cc=0.5108)	info on Rv3196/-
Rv1403c/-	(cc=0.503)	info on Rv1403c/-
Rv2378c/mbtG	(cc=0.5023)	info on Rv2378c/mbtG

Correlation of Rv1057/- with Rv0530/-

Normalized LFCs for Rv1057/-:
(description and provenance of datasets)

	Rv1057/-	Rv0530/-
Fe_supp_jason_reseq	-0.014	-0.276
low_pH_jason_reseq	0.186	-0.321
NO_jason_reseq	0.423	0.236
B6_jason_reseq	0.318	0.625
MHCII_jason_reseq	0.133	0.96
Isoniazid02	0.026	0.292
Rifampicin4	-0.777	-0.222
Ethambutol3	1.098	0.582
Meropenem3	-0.067	0.265
Vancomycin16	-0.424	-0.838
Rv2680_day32	-1.83	-0.954
H37Rv_KO_MarP	0.752	0.12
hypoxia_3wks	-0.941	-0.57
hypoxia_6wks	-0.382	-0.23
glycerol	0.161	-0.044
cholesterol	0.434	-0.614
AJ	-0.049	0.309
Bibs02	0.419	0.351
Bibs02c	-0.062	0.333
BL6	-0.023	-0.4
BL6a	-0.281	0.042
BXD01	-0.522	-0.154
BXD010	-0.647	-0.646
BXD011	-0.057	-0.259
BXD03	-0.429	-0.672
BXD04	-0.154	0.031
BXD05	-0.879	-0.544
BXD06	-0.575	-0.618
BXD07	-0.423	-0.137
BXD08	-0.162	-0.277
BXD09	-0.43	-0.568
CAST	0.287	0.864
CCcont	-0.427	-0.12
DS01	0.027	1.025
DS02	0.038	-0.154
DS04	-0.006	0.309
DS0c	0.167	0.787
GP01	0.624	0.37
GP02	0.614	1.026
GP0c	-0.275	0.212
NOD	0.129	0.029
NZO	-0.121	0.026
PWK	-0.053	0.742
H37Rv_KO_CtpC	-0.51	-0.435
H37Rv_KO_CtpD	0.223	0.327
H37Rv_KO_Rv1272	-0.795	-1.102
H37Rv_KO_SugABC	-0.825	0.252
H37Rv_KO_MbtN	-0.332	0.125
Trans05	-0.736	-0.813
macrophage_unactivated	0.35	-0.331
IL1	0.062	0.208
Rapamycin	0.488	0.675
Tcell	-0.485	-0.469
GMCSF	0.356	0.364
IFNab	-0.33	-0.46
IFNg	-0.086	-0.059
IFNg_GMCSF1	0.066	1.345
Rv1432_day32	0.521	0.849
Rv1565c_day32	0.118	-0.518
secA2_input	0.41	0.333
delta_Rv3594	-0.109	-0.393
delta_Rv3717	-0.31	0.345
delta_Rv3811	-0.644	-0.256
delta_Rv0954	0.271	0.224
PonA1	0.105	0.391
EccD1_KO	0.585	-0.444
EspI_KO	0.838	-0.536
PE35_KO	0.163	-0.099
PPE68_KO	0.336	-0.55
glycerol2	0.645	0.015
lignocerate	1.097	0.961
oleate	-0.265	-0.472
phosphatidylcholine	0.873	0.353
acetate	0.397	0.251
glucAc	0.369	0.367
Rv0950ko	-0.045	0.244
Rv1096ko	0.0	0.29
Rv3684ko	0.295	0.39
delta_otsA_trehalose	1.013	0.888