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 Rv1588c/-:

update plot	correlation	link to info on gene
Rv3466/-	(cc=0.9134)	info on Rv3466/-
Rv0094c/-	(cc=0.7449)	info on Rv0094c/-
Rv3467/-	(cc=0.7169)	info on Rv3467/-
Rv1756c/-	(cc=0.6019)	info on Rv1756c/-
Rv3475/-	(cc=0.601)	info on Rv3475/-
Rv1369c/-	(cc=0.5964)	info on Rv1369c/-
Rv3380c/-	(cc=0.5913)	info on Rv3380c/-
Rv1764/-	(cc=0.5883)	info on Rv1764/-
Rv2649/-	(cc=0.587)	info on Rv2649/-
Rv3326/-	(cc=0.5867)	info on Rv3326/-

Correlation of Rv1588c/- with Rv1756c/-

Normalized LFCs for Rv1588c/-:
(description and provenance of datasets)

	Rv1588c/-	Rv1756c/-
Fe_supp_jason_reseq	0.204	-0.357
low_pH_jason_reseq	-0.211	-0.494
NO_jason_reseq	0.412	0.362
B6_jason_reseq	-0.14	-0.418
MHCII_jason_reseq	-0.465	-0.043
Isoniazid02	0.566	-0.102
Rifampicin4	0.593	0.915
Ethambutol3	0.123	0.465
Meropenem3	-0.097	-0.223
Vancomycin16	0.459	-0.239
Rv2680_day32	-1.031	0.281
H37Rv_KO_MarP	-0.042	-0.199
hypoxia_3wks	-0.247	0.471
hypoxia_6wks	-0.712	0.067
glycerol	-0.585	-0.295
cholesterol	-0.622	0.336
AJ	-0.025	1.632
Bibs02	1.02	1.44
Bibs02c	0.617	1.995
BL6	-0.476	0.357
BL6a	0.449	1.422
BXD01	0.307	0.948
BXD010	-0.197	1.088
BXD011	-0.68	1.055
BXD03	0.444	1.007
BXD04	0.334	0.786
BXD05	0.029	1.323
BXD06	-0.091	0.75
BXD07	0.251	1.036
BXD08	0.241	0.632
BXD09	0.133	1.052
CAST	0.1	1.653
CCcont	-0.433	0.279
DS01	1.095	1.261
DS02	1.268	1.215
DS04	0.871	1.502
DS0c	0.863	1.549
GP01	0.37	1.488
GP02	0.734	1.55
GP0c	0.593	1.012
NOD	-0.618	1.565
NZO	-0.09	1.376
PWK	0.705	1.582
H37Rv_KO_CtpC	0.634	1.007
H37Rv_KO_CtpD	-0.876	1.03
H37Rv_KO_Rv1272	0.031	0.639
H37Rv_KO_SugABC	-1.193	0.982
H37Rv_KO_MbtN	-0.758	0.821
Trans05	0.407	1.029
macrophage_unactivated	-0.739	-0.821
IL1	-0.825	-0.641
Rapamycin	-0.988	-0.77
Tcell	-1.199	-1.499
GMCSF	-0.734	-0.393
IFNab	-0.52	-1.094
IFNg	-0.984	-0.556
IFNg_GMCSF1	0.327	-0.339
Rv1432_day32	-0.117	0.587
Rv1565c_day32	0.256	0.262
secA2_input	0.877	0.016
delta_Rv3594	-0.535	-0.15
delta_Rv3717	-0.586	-0.243
delta_Rv3811	-1.21	-0.201
delta_Rv0954	-0.204	0.544
PonA1	-0.422	-0.07
EccD1_KO	0.572	0.661
EspI_KO	1.021	0.858
PE35_KO	0.263	0.645
PPE68_KO	0.813	0.666
glycerol2	-1.265	-1.131
lignocerate	-0.884	-0.884
oleate	-1.221	-1.304
phosphatidylcholine	-1.069	-1.098
acetate	0.441	-0.239
glucAc	-0.011	0.007
Rv0950ko	-0.678	-0.142
Rv1096ko	0.103	0.115
Rv3684ko	-0.671	-0.727
delta_otsA_trehalose	0.576	0.329